key: cord-0008803-1uy405i3 authors: nan title: Chromosomes and expression mechanisms date: 2002-02-25 journal: Curr Opin Genet Dev DOI: 10.1016/s0959-437x(97)80142-6 sha: ca7d462120207bafc69cec68b7ccf91815304549 doc_id: 8803 cord_uid: 1uy405i3 nan This bibliography is compiled by geneticists from the journals listed at the end of this publication. It is based on literature entered into our database between 1st December 1995 and 30th November 1996 (articles are generally added to the database about two and a half months after publication). In addition, the bibliography contains every paper annotated by reviewers; these references were obtained from a variety of bibliographic databases and published between the beginning of the review period and the time of going to press. The bibliography has been grouped into topics that relate to the reviews in this issue. Papers considered by the reviewers to be of special interest • * Papers considered by the reviewers to be of outstanding interest The number in square brackets following a selected paper, e.g. [7] , refers to its number in the annotated references of the corresponding review. family of S-phase regulators, is homologous to a component of the origin recognition complex. Proc Nat/Acad Sci USA 1995, 92:12475-12479. [9] . Mytelka DS, Chamberlln M J: Analysis and suppression of DNA polymerase pauses associated with a trinucleotide consensus. Nucleic Acids Res 1996 Res , 24:2774 Res -2781 Kaufmann J, Verrijzer CP, Shao J, Smale ST: CIF, an essential cofactor for TFIID-dependent initiator function (vo110, pg 873, 1996) . Genes Dev 1995 , 9:1978 -1991 Gene targeting in rat embryo fibroblasts promoted by the polyomavirus large T antigen Gene integration in the Escherichie coli chromosome mediated by Tn21 integrase (Int21) Asymmetries generated by transcription-coupled repair in enterobacterial genes Regulation of SOS mutsgenesis by proteolysis Apudnic/apyrimidinic (AP) endonuclease from Dictyostelium discoideum: Cloning, nucleotide sequence and induction by sublethal levels of DNA damaging agents DNA rearrangements in Euplotes crassus coincide with discrete periods of DNA replication during the polytene chromosome stage of macronuclear development The Ras-related small GTP-binding protein RhoB is immediate-early inducible by DNA damaging treatments Strand breaks are repaired efficiently in human ribosomal genes Two pathways for base excision repair in mammalian cells Kobayashi h Dependence of frequency of homologous recombination on the homology length Replication infidelity dudng a single cycle of Tyl retmtransposition Chromatin assembly coupled to DNA repair-a new role for chromatin assembly factor I. Ce On the mechanism of UV and gamma-ray induced intrachromosomal recombination in yeast cells synchronized in different stages of the cell cycle A new class of ureciI-DNA glycosyleses related to human thymine-DNA glycosylase Single-stranded DNA arising at telomeres in cdc13 mutants may constitute a specific signal for the RAD9 checkpoint Single-stranded DNA arising at telomeres in cdc13 mutants may constitute a specific signal for the RAD9 checkpoint (vo115 Multiple DNA processing reactions underlie "In7 transposition recB recJ mutants of Salmonella typhimudum are deficient in transductional recombination, DNA repair and plasmid maintenance Role of Err recombinase in P22-mediated plasmid transduction Mechanistic constraints on diversity in human V(D)J recombination. Me/Cell Mutagenicity of a unique thymine-thymine dimer or thymine-thymine pyrimidine pyrimidone (6-4) photoproduct in mammalian cells Evidence for a novel DNA damage binding protein in human cells Sequence-specific DNA binding by Ku autoantigen and its effects on transcription A test of the double-strand break repair model for meiotic recombination in Saccharomyces cerevisiae Berns Kh Recombinant junctions formed by site-specific integration of adeno-essociated virus into an episome The efficiency of meiotic recombination between dispersed sequences in Saccharomyces cerevisiae depends upon their chromosomal location A quantitative measure of the mitotic pairing of alleles in Drosophila melanogaster and the influence of structural heterozygosity A 610 kb YAC clone harbors 7 cM of tomato (Lycopersicon esculentum) DNA that includes the male stedle 14 gene and a hotspot for recombination Directed integration of viral DNA mediated by fusion proteins consisting of human immunodeficiency virus type I integrsse and Eechedchie coil LexA protein Replacement of Gly(815) in helicase motif V alters the single-stranded DNA-dependent ATPase activity of the herpes simplex virus type 1 helicase-pdmase+ Chromosomal inheritance of epigenetic states in fission yeast during mitosis and meiosis Fission yeast rad17: A homologue of budding yeast RAD24 that shares regions of sequence similarity with DNA polymerase accessory proteins End-joining of free radical-mediated DNA double-strand breaks in vitro is blocked by the kinase inhibitor wortmannin at • step preceding removal of damaged 3' termini V(D)J recombination activates a p53-dependent DNA damage checkpoint in scid lymphocyte precursors RAD26, the yeast homolog of human Cockayne's syndrome group B gene, encodes a DNA-dependent ATPase Nucleotide excision repair in yeast is mediated by sequential assembly of repair factors and not by a pre-assembled repairosome Structure-specific nuclease activity in yeast nucleotide excision repair protein Red2 Binding of insertion/deletion DNA mismatches by the heterodimer of yeast mismatch repair proteins MSH2 and M SH3 Transcription • factor TFIIH and DNA endonuclease Red2 constitute yeast nucleotide excision-repair factor-3'-implications for nucleotide excision-repair and Cockayne syndrome The mouse and human homologs of DMC1, the yeast meiosis-specific homologous recombination gene, have a common unique form of exert-skipped transcript in meiosis Examining the contribution of a dA+dT element to the conformation of Exchedchia coil integration host factor-DNA complexes Weichselbaum RR: c-jun and Egr-1 participate in DNA synthesis and cell survival in response to ionizing radiation exposure Characterization of a Ku86 variant protein that results in altered DNA binding and diminished DNA-dependent protein kinase activity Genome sequence comparison and scenarios for gene rearrangements: A test case Interaction of Eschedchia coil RecA protein with LexA represser. 2. Inhibition of DNA strand exchange by the uncleavable LexA $119A represser argues that recombination and SOS induction are competitive processes Molecular cloning of Drosophila mus308, a gane involved in DNA cross-link repair with homology to prokaryotic DNA polymerase I genes DNA-dependent protein kinase catalytic subunit: a relative of phosphefidylinositol 3-kinase and the ataxia telangiectasia gene product Recombination and maternal age-dependent nondisjunction: Molecular studies of trisomy 16 Identification and expression of the Neurospora crassa mei-3 gene which encodes a protein homologous to Rad51 of Saccharomyces carevisiae Strange bedfellows in even • stranger places: the role of ATM in meiotic cells, lymphocytes, tumors, and its functional links to p53 The Hin dimer interface is critical for Fis-mediated activation of the catalytic steps of site-specific DNA inversion The stabilization of repetitive tracts of DNA by vadant repeats requires a functional DNA mismatch repair system Mobilization of vancomycin resistance by transposon-mediefed fusion of a VanA plasmid with an Enterococcus faecium sex pheromone-response plasmid Preferential binding of Escherichia coil RecF protein to gapped DNA in the presence of adenosine (gamma-thio) triphosphate T-cell-specific deletion of a polypeptide N*ecetylgalactosaminyWaneferase gene by site-directed recombination Construction of specific cosmids from YACs by homologous recombination in yeast A repair competition assay to assess recognition by human nucleotide excision repair The 3' enhancer region determines the B/T specificity and pro-B/pre-B specificity of immunoglobulin V-kappa-J(kappa) joining. Ceil Modulation of bleomycin-induced mitotic recombination in yeast by the aminothiols cysteamine and WR-1065 A novel DNA damage-inducible transcript, gadd7, inhibits cell growth, but lacks a protein product Chromosomal distribution of transposable elements in Drosophila melanogaster: Test of the ectopic recombination model for maintenance of insertion site number Strategic down-regulation of DNA polymerase beta by antisense RNA sensitizes mammalian cells to specific DNA damaging agents Increased pathogenicity in a pseudorecombinant bipartite geminivirus correlates with intermolecular recombination DNA sequence analyses support the role of interrupted gap repair in the origin of internal deletions of the maize transposon Detection of an IS2-encoded 46-kilodalton protein capable of binding terminal repeats of IS2 Requirements for activity of the yeast mitotic recombination hotspot HOT1: RNA polymerase I and multiple cis-acting sequences Sensitivity and selectivity of the DNA damage sensor responsible for activating p53-dependent G(1) arresL Yeast retrotransposon Ty4: The majority of the rare transcripts lack a U3-R sequence The mismatch repair system contributes to meiotic sterility in an interspecific yeast hybrid Small peptides activate the latent sequence-specific DNA binding function of p53 A 3"-5'XPB helicase defect in repair/transcription factor TFIfH of xeroderma pigmentosum group-B affects both DNA repair and transcription MSH6, a Saccharomyces cerevisiae protein that binds to mismatches as a heterodimer with MSH2 Intragenic recombination in the Adh locus of the wild plant Arabidopsis thaliana Genetic requirements for the single-strand annealing pathway of double-strand break repair in Saccharomyces cerevisiae Strike P: nuvA, an Aspergillus nidulans gene involved in DNA repair and recombination, is a homologue of Saccharomyces cerevisiae RAD18 and Neurospora crassa uvs-2. Microbiology DNA double-strand break repair and V(D)J recombination: Involvement of DNA-PK DNA binding specificities of YPF1, a Drosophila homolog to the DNA binding subunit of human DNA-dependent protein kinase, Ku Identification of the DNA damage-responsive elements of the rhp51(+) gene, a recA and RAD51 homolog from the fission yeast Schizosaccharomyces pombe Repair of products of oxidative DNA base damage in human cells Mismatch repair in Escherichia coil enhances instability of (CTG)(n) triplet repeats from human hereditary diseases Genetic control of synapsis and recombination in Lolium amphidiploids A soluble active mutant of HIV-t integrase -Involvement of both the core and carboxyl-terminal domains in multimerization SMC proteins constitute two subunita of the mammalian recombination complex RC-I Functional differences and interactions among the putative RecA hornologs RAD51. RAD55, and RAD57. Mo/Ceil Bio11995 The DNA repair genes RAD54 and UNG1 are cell cycle regulated in budding yeast but MCB promoter elements have no essential role in the DNA damage response Chromosome-size dependent control of meiotic recombination in humans Mouse MTB1 protein with 8-oxo-7,8-dihydro-2'-deoxyguanosine 5'-triphosphatase activity that prevents transversion mutation -cDNA cloning and tissue distribution Human and mouse homologs of the Saccharomyces ceravisiae RAD54 DNA repair gene: Evidence for functional conservation On the use of double FLP recognition targets (FRTs) in the LTR of retroviruses for the construction of high producer cell lines ATPase activity of uvrB protein from Thermus thermophilus HB8 and its interaction with DNA Targeting of retroviral integrase by fusion to a heferologous DNA binding domain: In vitro activities and incorporation of a fusion protein into viral particles Excision of cytosine and thymine from DNA by mutants of human uraciI-DNA glycosylase Functional complementation of xeroderma pigmentosum complemeotation group E by replication protein A in an in vitro system Does the p53 up-regulated Gadd45 protein have a role in excision repair? The Atr and Arm protein kinases associate with different sites along meiotically pairing chromosomes Covalent protein-DNA complexes at the 5' strand termini of meiosis-specific double-strand breaks in yeast Regulation of ere recombinase activity by the synthetic steroid RU 486 Isolation and characterization of IS10 transposase separation of function mutants: Identification of amino acid residues in transposase that are important for active site function and the stability of transposition intermediates Mutational analysis of the eft DNA-binding domain of phage mu transposase Repeated sequences isolated from Bordetella pertussis induce DNA rearrangements and deletions at high frequency How could it work? Double-strand breaks on YACs during yeast meiosis may reflect meiotic recombination in the human genome Recruitment of damaged DNA to the nuclear matrix in hamster cells following ultraviolet irradiation Cellular strategies for accommodating replication-hindering adducts in DNA: Control by the SOS response in Escherichia coil The DNA replication priming protein, PdA, is required for homologous recombination and double-strand break repair Biochemistry and genetics of eukaryotic mismatch repair Mismatch repair: Mechanisms and relationship to cancer susceptibility Multiple gene copies for bombyxin, an insulin-related peptide of the silkmoth Bombyx mori: Structural signs for gene rearrangement and duplication responsible for generation of multiple molecular forms of bombyxin Single*stranded DNA binding protein and DNA helicase of bacteriophage T7 hypersensitive site 2 in vitro Four p53 DNA-binding domain peptides bind natural p53-response elements and bend the DNA The CBP co-activator • is a histone acetyltransferase Moderate increase in histone acetylation activates the mouse mammary tumor virus promoter and remodels its nucleosome structure Faithful chromosome transmission requires Spt4p, a putative regulator of chromabn structure in Saccharomyces cerevisiae Visualization and analysis of unfolded nucleosomes associated with transcribing chromatin DNA loops induced by cooperative binding of transcriptional activator proteins and preinitiation complexes The multidomain structure of Orclp reveals similarity to regulators of DNA replication and transcriptional silencing Invasion of the CAG triplet repeats by a complementary peptide nucleic acid inhibits transcription of the androgen receptor and TATA-binding protein genes and correlates with refolding of an active nucleosome containing a unique AR gene sequence The translocation t(8;16) (pl 1 ;p13) of acute leukemia fuses a putative acetyitransferase to the CREB-binding protein Evidence that Spt6p controls chromaltn structure by a direct interaction with histones Tissue-specific factors additively increase the probability of the all-or-none formation of a hypersensitive site Efficient transcriptional silencing in Saccharomyces cerevisiae requires a heterochromatin histone acetylation pattern Activatordependent regulation of transcriptional pausing on nucleosomal templates Tetrahymena histone acetyitransferase A: a homolog to yeast Gcn5p linking histone acetylation to gene activation Tetrahymena histone acetyltransferase A: a homolog to yeast Gcn5p linking histone acetylation to gene activation Activation domain-mediated enhancement of activator binding to chromatin in mammalian cells Changing nucleosome positions through modification of the DNA rotational information Modulation of enhancer-promoter • interactions by insulators in the Drosophila embryo Long-range repression in the Drosophila embryo TFG3/TAF30/ANC1, a component of the yeast SWl/SNF complex that is similar to the leukemogenic proteins ENL and AF-9 Essential role of Swp73p in the function of yeast Swi/Snf complex an essential, abundant chromatin-remodeling complex Identification by in organello footprinting of protein contact sites and of single-stranded DNA sequences in the regulatory region of rat mitochondrial DNA -Protein binding sites and single-stranded DNA regions in isolated rat liver mitochondda HIV-1 protein expression from synthetic circles of DNA mimicking the extrachromosomal forms of viral DNA inactivation of topoisomerases affects transcription-dependent chromatin transitions in rDNA but not in a gene transcribed by RNA polymerase II Neuron specificity of the neurofilament light promoter in transgenic mice requires the presence of DNA unwinding elements SUM1-1, a dominant suppressor of SIR mutations in Saccharomyces cerevisiae, increases transcriptional silencing at telomeres and HM mating-type loci and decreases chromosome stability A role for a bent DNA structure in E2F-mediated transcription activation Adriamycin-induced DNA adducts inhibit the DNA interactions of transcription factors and RNA polymerase Structural states of the nuctaosomes Periodicity of strong nucleosome positioning sites around the chicken adult beta-globin gene may encode regularly spaced chromatin The histone deacetylase RPD3 counteracts genomic silencing in Drosophila and yeast Bending and torsional flexibility of G/C-rich sequences as determined by cyclization assays The effects of sequence context on DNA curvature The effects of sequence context on DNA curvature The sigma subunit of Escherichia coil RNA polymerase senses promoter spacing A DNA-bending protein interacts with an essential upstream regulatory element of the human embryonic beta*like globin gene Repression domain • of the yeast global repressor Tupl interacts directly with histones H3 and H4 cis-acting sequences located downstream of the human immunodeficiency virus type 1 promoter affect its chromatin structure and transcriptional activity A dominant chromatin-opening activity in 5'hypersensitive site 3 of the human ~-globin locus control region A naturally occurring T(14)A(11) tract blocks nucleosome formation over the human neurofibromatosis type 1 (N F1)-Alu element Stable triple helices formed by oligonucleotide N3'*>PS' phosphoramidates inhibit transcription elongation Maniatis T: Reversal of intrinsic DNA bends in the IFN beta gene enhancer by transcription factors and the architectural protein HMG I(Y) Effect of third strand composition on triple helix formation: Purine versus pyrimidine oligodeoxynucleotides Chromosomes and expression mechanisms Chromatin and gene expression Chromatin unfolds. Ceil Chromatin structure and gene expression Locus control region function and heterochromatin-induced position effect variegation Yeast histone H4 and H3 N-termini have different effects on the chromatin structure of the GALl promoter Nucleosome positioning on the MMTV LTR results from the frequency-biased occupancy of multiple frames Disruption of reconstituted nucleosomes -The effect of particle concentration, MgCI2 and KCl concentration, the histone tails, and temperature Nucleosome assembly on CTG triplet repeats Expending the Mot1 subfamily: 89B Helicase encodes a new Drosophila melanogaster SNF2-related protein which binds to multiple sites on polytene chromosomes Identification of two DNA-binding sites on the globular domain of histone H5 The nuclear matrix protein NMP-1 is the transcription factor YY1 Effects of cell cycle dependent histone H1 phosphorylation on chromatin structure and chrometin replication Interaction of the histone (H3-H4)(2) tetramer of the nucleosome with positively supercoiled DNA minicireles: Potential flipping of the protein from a left-to a right-handed superhelical form Sequence specificity of triplex DNA formation: Analysis by a combinatorial approach restriction endonuctaase protection selection and amplification Identification and analysis of a functional human homolog of the SPT4 gene of Saccharomyees cerevisiee Spreading oo of transcriptional repressor SIR3 from telomeric heterochromatin Methylation-specitic PCR: A novel PCR assay for methylation status of CpG islands A histone octamer-like structure within TFIID The requirement for the basal transcription factor liE is determined by the helical stability of promoter DNA The chicken beta-globin gene promoter forms a novel "cinched" tetrahelical structure Genomic position effects lead to an inefficient reorganization of nucleosomes in the 5'-regulatory region of the chicken lysozyme locus in transgenic mice NtJcreosome disruption by human SWl/SNF is maintained in the absence of continued ATP hydrolysis Drosophila NAP-1 is a core histone chaperone that functions in ATP-facilitated assembly of regularly spaced nucleosomal arrays Sequences attaching loops of nuclear and mitochondrial DNA to undedylng structures in human cells: The role of transcription units Role of DNA sequences outside the cores of DNase hypersensitive sites (HSs) in functions of the beta-globin locus control region -Domain opening and synergism between HS2 and HS3 In vivo binding of trimethylpsoralen detects DNA structural alterations associated with transcribing regions in the human beta-globin cluster DNA twist, flexibility and transcription of the osmoregulated proU promoter of Salmonella typhimurium mel-18, a Polycomb group-related mammalian gene, encodes a transcriptional negative regulator with tumor suppressive activity Fos and Jun bend the AP-1 site: Effects of probe geometry on the detection of protein-induced DNA bending Repression and activation by multiprotein complexes that alter chromatin structure Cross-talk between different enhancer elements during mitogenic induction of the human stromelysin-1 gene Identification of a gene encoding a yeast histone H4 acetyltransferase Dioxin-induced CYPIA1 transcription in vivo: The aromatic hydrocarbon receptor mediates transaetivation, enhancer promoter communication, and changes in chromatin structure DNA triplex formation selectively inhibits granulocyte-macrophage colony-stimulating factor gene expression in human T cells Triple helix-forming oligonucleotide corresponding to the polypyrimidine sequence in the rat alpha 1(I) collagen promoter specifically inhibits factor binding and transcription Two GC boxes (Spl sites) are involved in regulation of the activity of the epithelium-specitic MUD1 promoter DNA length is a critical parameter for eukaryotic transcription in vivo Chromatin: Pushing nucleosomes around Amino acid substitutions in the structured domains of histones H3 and H4 partially relieve the requirement of the yeast SWI/SNF complex for transcription Differential appearance of DNase I-hypersensitive sites correlates with differential transcription of Pgk genes during spermatogenesis in the mouse Transcription-linked acetylation by Gcn5p of histones H3 and H4 at specific lysines Promoter selectivity of Escherichia coil RNA polymerase E sigma(70) and E sigma(38) holoenzymes -Effect of DNA supercoiling Role of chromatin and Xenopus laevis heat shock transcription factor in regulation of transcription from the X-laevis hsp70 promoter in vivo All four core histone N-termini contain sequences required for the repression of basal transcription in yeast Yeast histone H3 and H4 amino termini are important for nueleosome assembly in vivo and in vitro: redundant and position-independent functions in assembly but not in gene regulation Either of the major H2A genes but not an evolutionarily conserved H2A.F/Z variant of Tetrahymena thermophila can function as the sole H2A gene in the yeast Seccheromyces cerevisiae Essential and nonessential histone H2A variants in Tetrahymena thermophila Developmental timing and tissue specificity of heterochromatin-mediated silencing CCAAT displacement protein competes with multiple transcriptional activators for binding to four sites in the proximal gp91(phox) promoter Tethered Sir3p nucleates silencing at telomeres and internal loci in Seccharomyces cerevisiae Evidence for silencing compartments within the yeast nucleus: A role for telomere proximity and SIR protein concentration in silencer-mediated repression Displacement of sequence-specific transcription factors from mitotic chromatin A preference of histone H1 for methylated DNA Probes for chromatin accessibility in the Drosophila bithorax complex respond differently to Polycomb-mediated repression Nucleosome positioning properties of the albumin transcriptional enhancer Multiple single-stranded cis elements are associated with activated chromatin of the human c-myc gene in vivo Hetarochromatin effects on the frequency and duration of LCR-mediated gene transcription The TAFII 250 subunit of TFIID has histone acetyltransferase activity Genes regulating the remote wing margin enhancer in the Drosophila cut locus The hbrm and BRG-1 proteins, components of the human SNF/SWI complex, are phosphorylated and excluded from the condensed chromosomes during mitosis Z-DNA-forming sites within the human beta-globin gene cluster Histories associated with non-nucleosomal rat ribosomal genes are ecetylated while those bound to nucleosome-organized gene copies are noL Dissection of progesterone receptor-mediated chromatin remodeling and transcriptional activation in vivo Potential for H-DNA in the human MUCl mucin gene promoter A single high affinity binding site for histone H1 in a nucleosome containing the Xenopus borealis 5 S ribosomal RNA gene Chromatin structure -Molecular machines may aid gene expression Histones hush yeast mating genes Topology and reorganization of a human TFIID-promoter complex Nakatani Ramakdshnan V: The histone fold: Evolutionary questions Functional analysis of histones H2A and H2B in transcriptional repression in Saccharomyces oerevisiae Fackelmayer FO: Purification and molecular cloning of the scaffold attachment factor B (SAF-B), a novel human nuclear protein that specifically binds to S/MAR-DNA DNA knotting abolishes in vitro chromatin assembly Inactivation of the HR6B ubiquitin-conjugating DNA repair enzyme in mice causes male sterility associated with chromatin modification A developmentally modulated chromatin structure at the mouse immunoglobutin kappa 3' enhancer DNA bending by the silencer protein NePl is modULATED BY TR and RXR HDA1 and RPD3 are members of distinct yeast histone deacetylase complexes that regulate silencing and transcription HDA1 and RPD3 are members of distinct yeast histone deecetylsse complexes that regulate silencing end transcription Anchorage-dependent transcription of the cyclin A gene Effects of the su(Hw) insulator • protein on the expression of the divergently transcribed Drosophila yolk protein genes Linker histone H1 regulates • Specific gene expression but not global transcription in vivo Unker histones are • • not essential and affect chromatin condensation in vivo Linker histone H1 regulates specific gene expression but not global transcription in vivo HSF access to heat shock elements in vivo depends critically on promoter architecture defined by GAGA factor, TRID and RNA polymerase II binding sites Uhlin BE: Coordinated and differential expression of histone-like proteins in Escherichia coil: Regulation and function of the H-NS analog StpA Cell type-specific chromatin structure determines the targeting of V(D),I recombinase activity in vitro CHD1 is concentrated in interbands and puffed regions of Drosophila polytene chromosomes Sir2 • and Sir4 interactions differ in core and extended telomeric heterochromatin in yeast-Genes Dev SARs are cis DNA elements of chromosome dynamics: Synthesis of a SAR repressor protein Chromatin structure and RNA polymerase II connection: Implications for transcription Overcoming a nucleosomal barrier to transcription Transcription -The core curriculum Stereochemical basis of DNA bending by transcription factors The high stability of the triple helices formed between short purine oligonucleotides and SIV/HIV-2 vpx genes is determined by the targeted DNA structure Targeted disruption of H2B-V encoding a particular H2B histone variant causes changes in protein patterns on two-dimensional polyacrylamide gel electrophoresis in the DT40 chicken B cell line A mammalian histone deacetytase related to the yeast transcriptional regulator Rpd3p Btcd. a mouse protein that binds to curved DNA, can substitute in Escherichia coil for H-NS. a bacterial nucleoid protein Activating transcription from single stranded DNA Molecular mechanics calculations of the riboacetal internucleotide linkage in double and triple helices High mobility group proteins 14 and 17 can prevent the close packing of nucleosomes by increasing the strength of protein contacts in the linker DNA Modular structure of chromosomal proteins HMG-14 and HMG-17: Definition of a transcriptional enhancement domain distinct from the nucleosomal binding domain ISWl, e member of the SW12/SN F2 ATPase family, encodes the 140 kDa subunit of the nucleosome remodeling factor Purification end properties of an ATP-dependent nucleosome remodeling factor Differential association of HMG1 and linker histones B4 and H1 with dinucleosomal DNA: Structural transitions and transcriptional repression Alterations in nucleosome core structure in linker histone-depleted chromatin Expression of a Plasmodium gene introduced into subtelomeric regions of Piesmodium berghei chromosomes Verdin E: Transcriptional activation and chromatin remodeling of the HIM-1 promoter in response to histone acetylation Chromatin remodeling during Saccharomyces cerevisiae ADH2 gene activation • Nucleosome assembly by a complex of CAF-1 end acetylated histones H3/H4 Acetylation of histone H4 plays a primary role in enhancing transcription factor binding to nucleosomal DNA in vitro Stimulation of transcription factor binding and histone displacement by nucleosome assembly protein 1 and nucleoplasmin requires disruption of the histone octamer Yeast histone H3 and • H4 N-termini function through different GALl regulatory elements to repress and activate transcription Yaniv Met eL: Purification and biochemical heterogeneity of the mammalian SWI-SNF complex Diversity and specialization of mammalian SWI/SNF complexes Methylation of expanded CCG triplet repeat DNA from fragile X syndrome patients enhances nucleosome exclusion )NN](n) motif: A common DNA repeat that excludes nucleosomes Differential control of transcription-induced and overall DNA supercoiling by eukaryotic topoisomerases in vitro Intercalation, DNA kinking, and the control of transcription Triple helix DNA alters nucleosomal histone-DNA interactions end acts as a nucleosome barrier Pituitary-specific chromatin structure of the rat prolactin distal enhancer element RNA polymerase II holoenzyme contains SWI/SNF regulators involved in chromatin remodeling Histone deacetylase: A regulator of transcription Targeting chromatin disruption: Transcription regulators that acetylate histories Chromatin: Hanging on to histories Transcription of the human corticotropin-releasing hormone gene in NPLC cells is correlated with Z-DNA formation A role for nucleosome assembly in both silencing and activation of the Xenopus TR~A gene by the thyroid hormone receptor A role for nucleosome assembly in both silencing and activation of the Xenopus TR bets A gene by the thyroid hormone receptor Long-range interaction between two promoters: Activation of the leu-500 promoter by a distant upstream promoter Structural similarity between TAFs and the heterotetrameric core of the histone octamer Structural similarity between TAFs and the heterotetramedc core of the histone octamer Direct observation of iron-induced conformational changes of mitochondrial DNA by high-resolution field-emission in-lens scanning electron microscopy A p3OO/CBP-associated factor that competes with the adenoviral oncoprotein E1A RIGS (repeat-induced gene silencing) in Arebidopsis is transcriptional and alters chromatln configuration Interaction between an integral protein of the nuclear envelope inner membrane and human chromodomain proteins homologous to Drosophila HPI CAMP-response element-binding protein induces directed DNA bending of the HTLV-I 21-base pair repeat Escherichia coil protein analogs StpA and H-NS: Regulatory loops, similar and disparate effects on nucleic acid dynamics Drosophila Polycomb-group regulated chromatin inhibits the accessibility of a trans-activator to its target DNA Post-transcriptional regulation of gene expression Related reviews: Regulation of pre-mRNA splicing in metazoa Target specificity of neuronal RNA-binding protein, MeI-NI: Direct binding to the 3' untranslated region of its own mRNA RNase III cleaves eukaryotic predbosomal RNA at a U3 snoRNP-dependent site The alternative splicing • factor PSI regulates P-element third intron splicing in vivo Interaction of mRNA with the Escherichia coil ribosome: Accessibility of phosphorothioate-containing mRNA bound to ribosomes for iodine cleavage A 5' untranslated region which directs accurate and robust translation by prokaryotic and mammalian ribosomes Transforming growth factor-beta(I) stimulates multiple protein interactions at a unique cis-element in the 3"-untranslated region of the hyaluronan receptor RHAMM mRNA Defining a novel cis-element in the 3'-untranslated region of mammalian ribonucleotide reductase component R2 mRNA -cis-trans-interactions and message stability Presence of exon splicing silencers within human immunodeficiency virus type 1 tat exon 2 and tat-rev exon 3: Evidence for inhibition mediated by cellular factors Evidence for posttranscriptional regulation of C/EBP alpha and C/EBP beta isoform expression during the lipopolysacchadde-mediated acute-phase response RNA turnover: The helicase story unwinds A plant viral coat protein RNA binding consensus sequence contains a crucial arginine Nonsense mutations inhibit RNA splicing in a cell-free system: Recognition of mutant codon is independent of protein synthesis Variant max protein, derived by alternative splicing, associates with c-Myc in vivo and inhibits transactivation A) site selection in the HIM-1 provirus: Inhibition of promoter-proximal polyadenylation by the downstream major splice donor site A U1/U4/D5 snRNP complex induced by a 2'-O-methyl-oligoribonucleotide complementary to U5 snRNA Single sequence of a helix-loop peptide confers functional anticodon recognition on two tRNA synthetases During in vivo maturation of eukaryotic nuclear mRNA, splicing yields excised exon circles The binding mode of drugs to the TAR RNA of HIV-1 studied by electric linear dichroism Intedeukin (IL) 15/IL-T production by the adult T-cell leukemia cell line HUT-102 is associated with a human T-cell lymphotrophic virus type I R region/IL-15 fusion message that lacks many upstream AUGs that normally attenuate IL-15 mRNA translation Tissue-specific isoforms of chicken myomesin are generated by alternative splicing Ton controls translation initiation and early G 1 progression in yeast The sequence and context of the 5' splice site govern the nuclear stability of polyoma virus late RNAs Characterization of the polyomavirus late polyadenylation signal Kinetic and thermodynamic analysis of the interaction between TRAP (trp RNA-binding attenuation protein) of Bacillus subtilis and trp leader RNA An essential component of the decapping enzyme required for normal rates of messenger RNA turnover Synthesis of 2'-modified nucleotides and their incorporation into hammerhead ribozymes Mechanisms of intron mobility RNA editing -The long and the short of iL Nature Sensitive detection of bacterial transcription initiation sites and differentiation from RNA processing sites in the pheromone-induced plasmid transfer system of Enterococcus faecalis Sonenberg N: • Rapamycin blocks the phosphorylation of 4E-BP1 and inhibits cap-dependent initiation of translation Inhibition of HIM-1 replication in lymphocytes by mutants of the Rev cofactor elF-5A Active heterodimers are formed from human DNA topoisomerase II alpha and II beta isoforms Accumulation of a mRNA decay intermediate by ribosomal pausing at a stop codon Targeting of the CREB gene leads to up-regulation of a novel CREB mRNA isoform Poly(rC) binding protein 2 binds to stem-loop IV of the poliovirus RNA 5' noncoding region: Identification by automated liquid chromatography-tandem mass spectrometry In vivo dissection of cis-ecting determinants for plastid RNA editing Identification • of a novel cellular cofactor for the Rev/Rex class of regulatory retorviral proteins Evolutionary fixation of RNA editing Length changes in the joining segment between domains 5 and 8 of a group II intron inhibit self-splicing and alter 3' splice site selection Exon skipping induced by cold stress in a potato invertase gene transcript Sequence-specific RNA recognition by the Xenopus Y-box proteins -An essential role for the cold shock domain 3-D models of the antigenomic ribozyme of the hepatitis delta agent with eight new contacts suggested by sequence analysis of 188 cDNA clones T-m studies of a tertiary structure from the human hepatitis delta agent which functions in vitro as a ribozyme control element Folding of the HDV antigenomic ribozyme pseudoknot structure deduced from long-range photocrosslinks The discriminator bases G73 in human tRNA(Ser) and A73 in tRNA(Leu) have significantly different roles in the recognition of aminoacyl-tRNA synthetases Nuclear translocation of a maternal CCAAT factor at the start of gastrulation activates Xenopus GATA-2 transcription PAN3 encodes a subunit of the Pablp-dependent poly~A) nuclease in Saccharomyces cerevisiae Differential regulation of the stability of cytokine mRNAs in lipopolysaccharide-activated blood monocytes in response to interleukin-10 A signaling pathway to translational control Open reading frame P -A herpes simplex virus gene repressed during productive infection encodes a protein that binds a splicing factor and reduces synthesis of viral proteins made from spliced mRNA Differences in the RNA binding sites of iron regulatory proteins and potential target diversity NMR solution structure of a dsRNA binding domain from Drosophila staufen protein reveals homology to the N-terminal domain of ribosomal protein Processing of the intron-encoded U16 and U18 snoRNAs: The conserved C and d boxes control both the processing reaction and the stability of the mature snoRNA Alternative translation initiation site usage results in two functionally distinct forms of the GATA-1 transcription factor IP: RNase E processing of essential cell division genes mRNA in Escherichia coll RNA binding by the Wilms tumor suppressor zinc finger proteins Human tenascin-R -Complete primary structure, pre-mRNA alternative splicing and gene localization on chromosome lq23-q24 Cart AM: Checkpoints take the next step A regulatory mechanism that detects premature nonsense codons in T-cell receptor transcripts in vivo is reversed by protein synthesis inhibitors in vitro IA: Crystal structure of a group I ribozyme domain: Principles of RNA packing IP: Targeted ribose methylation of RNA in vivo directed by tailored antisense RNA guides A functional role for some Fugu introns larger than the typical short ones: The example of the gene coding for ribosomal protein $7 and snoRNA U17 Genetic analysis of glucose regulation in Saccharomyces oerevisiae: Control of transcription versus mRNA turnover An RNase P RNA subunit mutation affects ribosomal RNA processing Conserved intron elements repress splicing of a neuron-specific c-src exon in vitro An RNA conformational change between the two chemical steps of group II self-splicing The developmental expression of Leishmania donovani A2 amastigote-specific genes is post-transcdptionally mediated and involves elements located in the 3"-untranslated region An oligodeoxyribonucleotide that supports catalytic activity in the hammerhead ribozyme domain Interaction between the phage HK022 nun protein and the nut RNA of phage lambda Initiation of protein synthesis by the oo eukaryotic translational apparatus on circular RNAs Structural and functional studies of retroviral RNA pseudoknots involved in ribosomal frameshifttng: Nucleotides at the junction of the two stems are important for efficient ribosomal frameshiffing Signal-induced site-specific phosphorylation targets I~:B~ to the ubiquitin-proteasome pathway Identification of proteins that interact with exon sequences, splice sites, and the branchpoint sequence during each stage of spliceosome assembly A long-range RNA-RNA interaction forms a pseudoknot required for translational control of the IF3-L35-L20 ribosomal protein operon in Escherichia coil Protein splicing involving the Saccharomyces cerevisiae VMA intein -The steps in the splicing pathway, side reactions leading to protein cleavage, and establishment of an in vitro splicing system A short CLC-2 mRNA transcript is produced by axon skipping Purification and properties of HuD, a neuronal RNA-binding protein Differential sensitivities of portions of the mRNA for ribosomal protein $20 to 3'-exonucleases dependent on oligoadenylation and RNA secondary structure A splicing variant of the RON transcript induces constitutive tyrosine kinase activity and an invasive phenotype Utilization of ribonucleotides and RNA primers by Tetrahymena telomerase The yeast splicing factor Mud13p is a commitment complex component and corresponds to CBP20, the small subunit of the nuclear cap-binding complex The ClkJSty protein kinase phosphorylates SR splicing factors and regulates their intracellular distribution Processing of the leader mRNA plays a major role in the induction of thrB expression following threonine starvation in Bacillus subtilis Mutational analysis of mRNA capping enzyme identifies amino acids involved in GTP binding, enzyme-guanytate formation, end GMP transfer to RNA Differential responsiveness of a splice variant of the human type I interferon receptor to interferons The cap and the 3' splice site similarly affect polyadenylation efficiency. Mo/Ceil Big ID: Identification and characterization of Usslp (Sdb23p): A novel U6 snRNA-associated protein with significant similarity to core proteins of small nuclear ribonucleoproteins (vo114, pg 2066, 1995) Complexes from Trypanosoma brucei that exhibit deletion editing and other editing-associated properties Cis-acting elements distinct from the 5"splice site promote Ul-independent pre-mRNA splicing Rapid degradation of AU'Rich element (ARE) mRNAs is activated by ribosome transit and blocked by secondary structure at any position 5' to the ARE Retrohoming: cDNA-mediated mobility of group II introns requires a catalytic RNA Selection of aminoacyl-tRNAs at sense codons: The size of the tRNA variable loop determines whether the immediate 3' nucleotide to the codon has a context effect Characterization of the hypoxia-inducible protein binding site within the pyrimidine-rich tract in the 3'-untranslated region of the tyrosine hydroxylase mRNA Editing of the GluR-B ion channel RNA in vitro by recombinant double-stranded RNA adenosine deaminase A major tyrosine-phosphorylated protein of Trypanosoma brucei is a nucleolar RNA-bindlng protein A human homologue o1 the Drosophila sex determination factor transformer-2 has conserved splicing regulatory functions In vitro activation of the interferon-induced, double-stranded RNA-dependent protein kinase PKR by RNA, from the 3' untranslated regions of human alpha-tropomyosin Molecular cloning of human fibroblast hyaluronic acid-binding protein confirms its identity with P-32, a protein co-purified with splicing factor SF2 -Kyaluronic acid-binding protein as P-32 protein, co-purified with splicing factor SF2 Desgres ,i: 2'-O-methyl-5-formylcytidine (f(5)Cm). a new modified nucleotide at the 'wobble' position of two cytoplasmic tRNAs(Leu)(NAA) from bovine liver Cortisol increases interstitial collagenase expression in osteoblasts by post-transcriptional mechanisms Exon and intron sequences, respectively, repress and activate splicing of a fibroblast growth factor receptor 2 alternative exon The exon sequence TAGG can inhibit splicing The product o. o1 the Saccharomyces camvisiae RSS1 gene, identified as a high-copy suppressor of the rat7-1 temperature sensitive allele of the RAT7/NUP159 nucleoporin is required for efficient mRNA export AUF1 binding affinity to A+U-rich elements correlates with rapid mRNA degradation Anderson P: Individual RNA recognition motifs of TIA-1 and TIAR have different RNA binding specificities Sex-lethal interacts with splicing factors in vitro and in vivo Modulation of tRNA(i)(Met), elF-2, and elF-2B expression shows that GCN4 translation is inversely coupled to the level of elF-2 center dot GTP center dot Met-tRNA(i)(Met) ternary complexes Post-transcriptional transactivation of human retroviral envelope glycoprotein expression by herpes simplex virus Us11 protein Amber suppression in mammalian cells dependent upon expression of an Eschedchia coli aminoacyl-tRNA sypthetase gene RNA recognition and translational • regulation by a homeodomain protein I: The global folding of four-way helical junctions in RNA, including that in Ul snRNA Essential amino acids regulate fatty acid synthase expression through an uncharged transfer RNA-dependent mechanism Identification of a 67 kDa protein that binds specifically to the pre-rRNA primary processing site in a higher plant The RNA subunit of ribonuclease P from the zebrafish, Danio rerio Regulation of poly(A) site use during mouse B-cell development involves a change in the binding of a general polyadenylation factor in • B-cell stage-specific manner Vgl RNA binding protein mediates the association of Vgl RNA with microtubules in Xenopus oocytes A novel K+ channel beta-subunit (hKv beta 1.3) is produced via alternative mRNA splicings Isolation of MEK5 and differential expression of alternatively spliced forms Differential regulation of tibroblast growth factor (FGF) receptor-1 mRNA and protein by two molecular forms of basic FGF -Modulation of FGFR-1 mRNA stability The A1 center dot U72 base pair conserved in eukaryotic initiator tRNAs is important specifically for binding to the eukaryotic translation initiation factor elF2 Intergenic splicing of MDS1 and EVtl occurs in normal tissues as well as in myeloid leukemia and produces a new member of the PR domain family Rein A: HIM-1 nucleocapsid protein induces "maturation" of dimeric retroviral RNA in vitro Cell cycle arrest promotes trans-hammerhead ribozyme action in yeasL The SL1 trans-spliced leader RNA performs an essential embryonic function in Caenorhabditis elegans that can also be supplied by SL2 RNA Use of cis-and trans-dbozymes to remove 5' and 3' heterogeneities from milligrams of in vitro transcribed RNA Functionally redundant interactions between U2 and U6 spliceosomal snRNAs Dahtberg AE: Mutations at two invariant nuctaotides in the 3'-minor domain of Escherichia coil 16 S rRNA affecting translational initiation and initiation factor 3 function • -The HIV-1 Rev activation domain is a nuclear export signal that accesses an export pathway used by specific cellular RNAs Nuclease-resistant ribozymes decrease stromelysin mRNA levels in rabbit synovium following exogenous delivery to the knee joinL Identification of a group of cellular cofactors that stimulate the finding of RNA polymerase II and TRP-185 to human immunodeficiency virus 1 TAR RNA Improved method for selecting RNA-binding activities in vivo Asymmetric localization of Drosophila pair-rule transcripts from displaced nuclei: Evidence for directional nuclear export Uridine insertion into preedited mRNA by a mitochondrial extract from Leishmania tarentolae: Stereochemical evidence for the enzyme cascade model A uv-induced mutation in Neurospora that affects translational regulation in response to arginine Extended interactions between the primer tRNA(i)(Met) and genomic RNA of the yeast Tyt retrotransposon Multiple determinants controlling activation of yeast replication origins late in S phase A human nucleoporin-like protein that specifically interacts with HIV Rev Translational regulation of human p53 gene expression The histone 3'-terminal stem-loop is necessary for translation in Chinese hamster ovary cells A new factor from Escherichia coil affects translocation of mRNA The predominant protein-arginine methyltransferase from Sacchatomyuces cerevisiae The human hnRNP-M proteins: Structure and relation with early heat shock-induced splicing arrest and chromosome mapping In vitro trans-splicing in Saccharomyces cerevisiae Multiple regions of the Arabidopsis SAUR-AC1 gene control transcript abundance: The 3' untranslated region functions as an mRNA instability determinant The miniaturized nuclear genome of a eukaryotic endosymbiont contains genes that overlap, genes that are cotranscribed, and the smallest known spliceosomal introns Specificity of dimer formation in tropomyosins: Influence of alternatively spliced exons on homodimer and heterodimer assembly The NMR structure of 3liner RNA domain of Escherichia coil RNase P RNA using its non-uniformly deuterium labelled counterpart [the 'NMR-window' concept Post-transcriptional regulation of vascular endothelial growth factor mRNA by the product of the VHL tumor suppressor gene Filipowicz W: Characterisation of intronic uridine-rich sequence elements acting as possible targets for nuclear proteins during pre-mRNA splicing in Nicotiana plumbaginifolia Interactions among SR proteins, an exonic splicing enhancer, and a lentivirus Rev protein regulate alternative splicing. Mol Ceil B/o/ 1996 Beyond homing: Competition between intron endonucleases confers a selective advantage on flanking genetic markers The cell cycle-coupled expression of topoisornerase II alpha during S phase is regulated by mRNA stability and is disrupted by heat shock or ionizing radiation Regulated nuclear import of the Drosophila Rel protein Dorsal: Structure-function analysis Sequences 5' of the first upstream open reading frame in GCN4 mRNA are required for efficient translational reinitiation RNA structure is a critical determinant of poly(A) site recognition by cleavage and polyadenylation specificity factor RNA editing in plant organelles: A fertile field Nonsense suppressor and antisuppressor mutations at the 1409-1491 base pair in the decoding region of Escherichia coil 16S rRNA Translational regulation of Na,K-ATPase alpha 1 and beta 1 polypeptide expression in epithelial cells Importin provides e link between nuclear protein import and U snRNA export The KRAB zinc finger gene ZNF74 encodes an RNA-binding protein tightly associated with the nuclear matrix Translation of a testis-specific Cu/Zn superoxide dismutase (SOD-l) mRNA is regulated by a 65-kilodalton protein which binds to its 5' untranslated region Variation in the size of nascent RNA cleavage products as a function of transcript length and elongation competence Interaction of tRNA (uracil-5-)-methyltransferase with NO(2)Ura-tRNA Triiodothyronine induces the transcription of the uncoupling protein gene and stabilizes its mRNA in fetal rat brown adipocyte primary cultures Artificial regulation of gene expression in Escherichia coil by RNase P 3'-end-forming signals of yeast mRNA Signals sufficient for 3'-end formation of yeast mRNA Preference for guanosine at first codon position in highly expressed Escherichia coil genes. A relationship with translational efficiency A bulged lin-4/lin-14 RNA • duplex is sufficient for C.aenorhabditis elegans /in-14 temporal gradient formation Comparative analysis of ribonuclease P RNA structure in Archaea Towards artificial ribonucleases: The sequence-specific cleavage of RNA in a duplex Requirement of U12 snRNA for in vivo splicing of a minor class of eukaryotic nuclear pre-mRNA introns The transcription factor Spi-1/PU.t binds RNA and interferes with the RNA-binding protein p54(nrb) Testis/brain RNA-binding protein attaches translationally repressed and transported mRNAs to microtubules Functional and molecular mitochondrial abnormalities associated with a C->T transition at position 3256 of the human mitochondrial genome -The effects of a pathogenic mitochondrial tRNA point mutation in organelle translation and RNA processing Identification of two novel arginine binding DNAs Frankel AD: Selection of RNA-binding peptides in vivo Alzheirner's disease beta A4 protein release and amyloid precursor protein sorting are regulated by alternative splicing Mutations in trans-acting factors affecting mRNA decapping in Saccharomyces cerevisiae The rpsO mRNA of Escherichia coil is polyadenylated at multiple sites resulting from endonucleolytic processing and exonucleolytic degradation Translational regulation of chloroplast genes -Proteins binding to the 5'-untranslated regions of chloroplast mRNAs in Chlamydornonas reinhardtii Chloroplast mRNA 3'-end processing by e high molecular weight protein complex is regulated by nuclear encoded RNA binding proteins Splice site prediction in Arabidopsis thaliana pre-mRNA by combining local and global sequence information An amino acid sequence motif sufficient for subnuclear localization of an arginine serine-dch splicing factor Ribozyme-medieted RNA degradation in nuclei suspension Radzioch D: Two distinct regions in the 3' untranslated region of tumor necrosis factor alpha mRNA form complexes with macrophage proteins Iron regulatory proteins 1 and 2 find distinct sets of RNA target sequences Unexpected anisotropy in substrate cleavage rates by asymmetric hammerhead ribozymes A comparison of the in vitro activity of DNA-armed and alI-RNA hammerhead ribozymes In vitro activity of minimised hammerhead ribozymes Maturase end endonuclease functions depend on separate conserved domains of the bifunctional protein encoded by the group I intron a14 alpha of yeast mitochondrial DNA Functional mapping of the translation-dependent instability element of yeast MAT alpha 1 mRNA Inducers of erythroleukemic differentiation cause messenger RNAs that lack poly(A)-binding protein to accumulate in translationally inactive, salt-labile 80 S ribosomal complexes Expression of the transcription factor, Spi-1 (PU.1), in differentiating murine erythroleukemia cells is regulated post-transcriptionally -Evidence for differential stability of transcripbon factor mrnas following inducer exposure Q/R site editing in kainate receptor GluR5 and GluRG pre-mRNAs requires distant intronic sequences The ribonuclease activity of nucleolar protein B23 Specificity of hammerhead ribozyme cleavage Sequence and structure determinants of Drosophila Hsp70 mRNA translation: 5'-UTR secondary structure specifically inhibits heat shock protein mRNA translation The amino-terminal domain of yeast U1-70K is necessary and sufficient for function Domain analysis of human U5 RNA -Cap trimethylation, protein binding, and spliceosome assembly Targeted disruption of the mouse apobec-1 gene abolishes apolipoprotein B mRNA editing and eliminates apolipoprotein B48 The 1.05 angstrom structure of vaccinia protein VP39: A bifunctional enzyme that participates in the modification of both mRNA ends NMR analysis of the trans-activatioo response (TAR) RNA element of equine infectious anemia virus Cytoplasmic ribonucleoprotein complexes containing human LINE-1 protein and RNA~ Heterogeneous nuclear ribonucleoproteins H, H', and P are members of a ubiquitously expressed subfamily of related but distinct proteins encoded by genes mapping to different chromosomes Escherichia cell transcript cleavage factors GreA and GreB stimulate promoter escape and gene expression in vivo and in vitro A binding factor for inferleukin 2 mRNA Role of polyadenylabon in nucleocytoplasmic transport of mRNA A protein binds the selenocysteine insertion element in the 3'-UTR of mammalian selenoprotein mRNAs A temperature-sensitive splicing mutation in the bimG gene of Aspergillus produces an N-terminal fragment which interferes with type 1 protein phosphatase function Wafin 9 RB: Two group I introns with a C center dot G basepair at the 5' splice-site instead of the very highly conserved U center dot G basepair: Is selection post-translational? Structures, alternative splicing, and neurexin binding of multiple neuroligins A large DNA-binding nuclear protein with RNA recognition motif end serine/arginine-rich domain Molecular cloning of a RNA binding protein, $1-1 Specific initiation and switch to elongation of human immunodeficiency virus type 1 reverse transcription require the post-transcriptional modifications of primer tRNA(3)(Lys) A cap-binding protein complex mediating U snRNA export Proofreading in trans by an aminoacyl-tRNA synthetase: A model for single site editing by isoleucyl-tRNA synthetase Evidence for a Prp24 binding site in U6 snRNA and in a putative intermediate in the annealing of U6 and U4 snRNAs Oligonucleotide facilitators may inhibit or activate a hammerhead ribozyme Kaempfer R: 2-aminopurine selectively inhibits splicing of tumor necrosis factor alpha mRNA Selective protein degradation: A joumey's end within the proteasome Characterization and functional ordering of Slu7p and Prp17p during the second step of pre-mRNA splicing in yeasL Cold shock induces e major ribosomal-associated protein that unwinds double-stranded RNA in Escherichia coll Mapping the rRNA neighborhood of the acceptor end of tRNA in the ribosome RNase E cleaves at multiple sites in bubble regions of RNA I stem loops yielding products that dissociate differentially from the enzyme RNA editing: A mechanism for gRNA-specified uddylete insertion into precursor mRNA Direct • evidence that polypyrimidine tract binding protein (PTB) is essential for internal initiation of translation of encephalomyocarditis virus RNA SR proteins that are essential for generic pre-mRNA splicing inhibit splicing of a regulated adenovirus pre-mRNA Identification of PRP40, a novel essential yeast splicing factor associated with the U1 small nuclear ribonucleoprotein particle RNA fingerprinting by molecular indexing Neuron-specific alternative splicing of nonmuscle myosin II heavy chain-B pre-mRNA requires a cis-acting intron sequence Selection of the best target site for ribozyme-mediated cleavage within a fusion gene for adenovirus EIA-associated 300 kDe protein (p300) and luciferase The structure of the Eschedchia coil EF-Tu center dot EF-Ts complex at 2.5 angstrom resolution Splicing signals are required for S-phase regulation of the mouse thymidylate synthase gene The putative substrate recognition loop of Escherichia coil ribonuclease H is not essential for activity No end yet to messenger RNA 3' processingL Cell Effects of nonsense mutations on nuclear and cytoplasmic adenine phosphoribosyltrensferase RNA Interaction of retroviral nucleocapsid proteins with transfer RNA(Phe): A lead ribozyme and H-1 NMR study A revised secondary structure model for the 3'-end of hepatibs B virus pregenomic RNA Role of RNA secondary structure of the iron-responsive element in translational regulation of ferritin synthesis Identification of a conserved and functional iron-responsive element in the 5'-untranslated region of mammalian mitochondrial econitase Transcription and processing of the rodent ID repeat family in germline and somatic cells Mutational analysis of RNA structures and sequences postulated to affect 3' processing of M1 RNA, the RNA component of Escherichia coil RNase P Characterization of the intron-encoded U19 RNA, a new mammalian small nucleolar RNA that is not associated with fibrillarin Exonucleolytic processing of small nucleolar RNAs from pre-r RNA introns Splicing of cauliflower mosaic virus 35S RNA is essential for viral infectivity Klaff P: mRNA decay in spinach chloroplasts: psbA mRNA degradation is initiated by endonucleolytic cleavages within the coding region Succinate dehydrogenase b mRNA of Drosophila melanogaster has a functional iron-responsive element in its 5'-untranslated region Mutation detection in the mad end med(J) alleles of the sodium channel Scn8a -Unusual splicing due to a minor class AT-AC intron Modifications of RNA processing modulate the expression of hemoglobin genes Analysis of eukaryotic mRNA structures directing cotranslational incorporation of selenocystelne Trans-ecting factors regulate the expression of CD44 splice variants RNA splicing: Unexpected splicaosome diversity. Curt Big Different cleavage sites are aligned differently in the active site of M1 RNA, the catalytic subunit of Escherichia coil RNase P Cytoplasmic 3' poly(A) addition induces 5' cap ribose methylation: Implications for translational control of maternal mRNA Identification of a region of Bacillus subtilis Fth, a homologue of mammalian SRP54 protein, that is essential for binding to small cytoplasmic RNA Characterization of several kinds of dimer minizyme: Simultaneous cleavage at two sites in HIV-1 tat mRNA by dimer minizymes The 18S rRNA dimethylase Dimlp is required for pre-ribosomal RNA processing in yeast Identification of an RNA-dependent ATPase activity in mammalian U5 snRNPs Analysis of RNA-binding proteins by in vitro genetic selection: Identification of an amino acid residue important for locking U1A onto its RNA target Aberrant pre-mRNA maturation is caused by LINE insertions into introns of the white gene of Drosophila melanogaster Planner N: Mitochondrial GrpE modulates the function of matrix HspT0 in translocation and maturation of preproteins Herpes simplex virus VP16 rescues viral mRNA from destruction by the virion host shutoff function Correlation between kinetics and RNA splicing of alphe-smino-3-hydroxy-5-methylisoxazole-4-propionic acid receptors in neocortical neurons ** Mapping of functional domains in eukaryotic protein synthesis initiation factor 4G (elF4G) with picornaviral proteeses: implications for cap-dependent and cap-independent translational initiation The HeLa 200kDa U5 snRNP-specltic protein and its homologue in Saccharomyces cerevisiae are members of the DEXH-box protein family of putative RNA helicases Alternatively spliced transcripts from the Drosophila elF4E gene produce two different cap-binding proteins Identification of an additional gene required for eukaryotic nonsense mRNA turnover A testis cytoplasmic RNA-Binding protein that has the properties of a translational represser Premature translation of protsmine t mRNA causes precocious nuclear condensation and arrests spermatid differentiation in mice A protein that shuttles • . between the nucleus and the cytoplasm is an important mediator of RNA export Nuclear cytoplasmic localization of the yon Hippel-Lindau tumor suppressor gene product is determined by cell density Thyroid hormone modulates the interaction between iron regulatory proteins and the ferritin mRNA iron-responsive element Cotranscriptional splicing of a group I intron is facilitated by the Cbp2 protein A yeast cap binding protein complex (yCBC) acts at an early step in pre-mRNA splicing A nuclear cap-binding complex facilitates association of Ut snRNP with the cap-proximal 5' splice site An RNA structure involved in feedback regulation of splicing and of translation is critical for biological fitness Defining the enzyme binding domain of a ribonuclease III processing signal. Eth~lation interference and hydroxyl radical tootprinting using catalytically inactive RNase III mutants A plant poly(A) polymerase requires a novel RNA-binding protein for activity Cleavage by RNase P of gene N mRNA reduces bacteriophage lambda burst size Feedback inhibition of the yeast ribosomal protein gene CRY2 is mediated by the nucleotide sequence and secondary structure of CRY2 pre-mRNA Feedback inhibition of the yeast ribosomal protein gene CRY2 is mediated by the nucleotide sequence and secondary structure of CRY2 pre-mRNA A DEAD-box-family protein is required for nucleocytoplasmic transport of yeast mRNA Adenoviral Et B-55kDa protein inhibits yeast mRNA export and perturbs nuclear structure Strength of translation initiation signal sequence of mRNA as studied by quantification method: Effect of nucleotide substitutions upon translation efficiency in rat preproinsulin mRNA Cloning and characterization of an alternatively processed human type II interleukin-1 receptor mRNA Requirements for cleavage by a modified RNase P of a small model substrate A novel nuclear structure containing the survival of motor neurons protein Sequence of the polypyrimidine tract of the 3'-terminal 3' splicing signal can affect intron*dependent pre-mRNA processing in vivo In differentiating mouse myoblasts DNA methyltransferase is posttranscriptionally and posttranslationelly regulated Visualizing a specific contact in the HIM-1 Tat protein fragment and trans-activation responsive region RNA complex by photocross-linking Pre-mRNA splicing in plants: Characterization of Ser Arg splicing factors Fully edited and partially edited ned9 transcripts differ in size and both are associated with polysomes in potato mitochondria Poliovirus chimeras replicating under the translational control of genetic elements of hepatitis C virus reveal unusual properties of the internal ribosomal entry site of hepatitis C virus Spliced leader RNA of trypanosomes: In vivo mutational analysis reveals extensive and distinct requirements for trans splicing and cap4 formation Extensive alternative splicing within the amino-propeptide coding domain of alpha 2(XI) procollagen mRNAs -Expression of transcripts encoding truncated pro-alpha chains Post-transcriptional stabilization by interleukin-1 beta of interieukin-6 mRNA induced by c-kit ligand and interleukin-lO in mouse bone marrow-derived mast cells Mutant U5A cells are complemented by an interferon-alpha beta receptor subunit generated by alternative processing of a new member of a cytokine receptor gene cluster Accurate processing of a eukaryotic precursor ribosomal RNA by ribonuclease MRP in vitro Assembly of specific SR protein complexes on distinct regulatory elements of the Drosophila doublesex splicing enhancer Cloning and characterization of HuR, a ubiquitously expressed Elav-like protein Structural requirements for RNA editing in glutamate receptor pre-mgNAs by recombinant double-stranded RNA adenosine deaminase Single-site cleavage in the 5'-untranslated region of Leishmaniavirus RNA is mediated by the viral capsid protein exl protein specifically binds BLE1, a bicoid mRNA localization element, and is required for one phase of its activity Fibronectin mRNA splice variant in articular cartilage lacks bases encoding the V, 111-15, and 1-10 protein segments Ribosomal RNA -Click here for methylation att, a target for regulation by tra2 in the testes of Drosophila melanogaster, encodes alternative RNAs and alternative proteins Leishmania RNA virus 1 -mediated cap-independent translation Import of RNA into Leishmania mitochondria occurs through direct interaction with membrane-bound receptors The Peru homeobox gene -Androgen-dependent and -independent promoters and tissue-specific alternative RNA splicing Is the in-frame termination signal of the Escherichia coli release factor-2 frameshift site weakened by a particularly poor context? Transcribing of Escherichia coil genes with mutant T7 RNA polymerases: Stability of lacZ mRNA inversely correlates with polymerase speed RNA editing in bryophytes and a molecular phylogeny of land plants Effects of mutations in the Saccharomyces cerevisiae RNA14, RNA15, and PAP1 genes on polyadenylation in vivo SR proteins and splicing control RNA editing is required for efficient excision of tRNA (Phe) from precursors in plant mitochondria A single editing event is a prerequisite for efficient processing of potato mitochondrial phenylalanine tRNA. Mol Ca//BiD/1996 Small h RNA editing of larch mitochondrial tRNA(His) precursors is a prerequisite for processing The DExH box protein Suv3p is a component of a yeast mitochondrial 3'-to-5' exoribonuclease that suppresses group I intron toxicity Estrogen induces the assembly of a multiprotein messenger ribonucleoprotein complex on the 3'-untranslated region of chicken apolipoprotein if mRNA In vitro and in vivo evidence that protein and Ul snRNP nuclear import in somatic cells differ in their requirement for GTP-hydrolysis, Ran/TC4 and RCC1 The gene for histone RNA hairpin binding protein is located on human chromosome 4 and encodes a novel type of RNA-binding protein Mutational analysis of mammalian poly(A) polymerase identifies a region for primer binding and a catalytic domain, homologous to the family X polymerases, and to other nucleotidyltransferases Translational repression dependent on the interaction of the Xenopus Y-box protein FRGY2 with mRNA -Role of the cold shock domain, tail domain, and selective RNA sequence recognition Cloning of a novel RNA binding polypeptide (RA301) induced by hypoxia/reoxygenation A discrete 3' region of U6 small nuclear RNA modulates the phosphorylation cycle of the C1 heterogeneous nuclear ribonucleoprotein particle protein Evidence for involvement of trans-acting factors in selection of the AUG start codon during eukaryotic translational initiation Casein kinase II phosphorylates I kappa B alpha at S-283, S-289, S-293, and T-291 and is required for its degradation A mammalian RNA editing enzyme Fusion with an RNA binding domain to confer target RNA specificity to an RNase: Design and engineering of Tat-RNase H that specifically recognizes and cleaves HIV-1 RNA in vitro Stimulation of protein synthesis, eukaryotic translation initiation factor 4E phosphorylation, and PHAS-I phosphorylation by insulin requires insulin receptor substrata 1 and phosphatidylinositol 3-kinase A nuclear export • ° signal in hnRNP AI: a signal-mediated, temperature-dependent nuclear protein export pathway Visualizing the logic behind RNA self-assembly Ul small nuclear RNA chimeric ribozymes with substrate specificity for the I~ev pre-mRNA of human immunodefioiency virus Proteins associated with RNese E in a multicomponent ribonucleolytic complex Use of engineered ribozymes to catalyze chimeric gene assembly The generally expressed hnRNP F is involved in a neural-specific pre-mRNA splicing event A new regulatory protein, KSR, mediates exon inclusion through an intronic splicing enhancer The generally expressed hnRNP F is involved in a neural-specific pre-mRNA splicing event The 3' end of yeast 5.8S rRNA is generated by an exonuclease processing mechanism A deubiquitinating enzyme interacts with SIR4 and regulates silencing in S-cerevisiae A protein RNA interaction network facilitates the template-independent cooperative assembly on RNA polymerase of a stable antitermination complex containing the ~. N protein Accumulation of sequence-specific RNA-binding proteins in the cytosol of activated T cells undergoing RNA degradation and apoptosis ZEMa, a member of a novel group of MADS box genes, is alternatively spliced in maize endosperm Gene expression -When the junk isn't junk Non-hydrogen bonding 'terminator' nucleosides increase the 3'-end homogeneity of enzymatic RNA and DNA synthesis Apolipoprotein B RNA editing enzyme-deficient mice are viable despite alterations in lipoprotein metabolism A hyperphosphorylated form of the large subunit of RNA polymerase II is associated with splicing complexes and the nuclear matrix AT-AC introns: An ATtACk on Dogma Exon coconversio;~ biases accompanying intron homing: Battle of the nucleases Intron-encoded endonuclease I-Tevl binds as a monomer to effect sequential cleavage via conformationsl changes in the td homing site The RNA-binding protein HF-I, known as a host factor for phage Q bets RNA replication, is essential for rpoS translation in Escherichia coil An RNA-export mediator with °. an essential nuclear export signal The 160-kD subunit of human cleavage-polyadenylation specificity factor coordinates pre-mRNA 3'-end formation The 160-kD subunit of human cleavage polyadenylation specificity factor coordinates pre-mRNA 3"-end formation Domain structure of the vaccinia virus mRNA capping enzyme -Expression in Escherichia coil of a subdomain possessing the RNA 5':triphosphatase and guanylyltransferase activities and a kinetic comparison to the full-size enzyme Characterization of the veccinia virus RNA 5'-triphosphatase and nucleoside triphosphate phosphohydrolase activities -Demonstration that both activities are carried out at the same active site Relative orientation of RNA helices in a group I ribozyme determined by helix extension electron microscopy In vivo degradation of RNA polymerase II largest subunit triggered by alpha-amanitin The "DEAD box" protein DbpA interacts specifically with the peptidyitransferase center in 235 rRNA • Growth-dependent translation of IGF-II mRNA by s rapamycin-sensitive pathway Transcriptional pulse-chase analysis reveals a role for a novel snRNP-associated protein in the manufacture of spliceosomal snRNPs Evidence of post-transcriptional regulation of U6 small nuclear RNA A spliced hepadnavirus RNA that is essential for virus replication Oday CL, Chavanikamannil F, Abelson J: 18S rRNA processing requires the RNA helicase-like protein Rrp3 The C-terminal • domain of eukaryotic protein synthesis initiation factor (elF)4G is sufficient to support cap-independent translation in the absence of elF4 The Schizosaccharomyces pombe plal gene encodes a poly(A) polymerase and can functionally replace its Saccharomyces cerevisiae homologue A human RNA helicase-like protein, HRH1, facilitates nuclear export of spliced mRNA by releasing the RNA from the spliceosome The 3' ends of tRNA-derived short interspersed repetitive elements are derived from the 3' ends of long interspersed repetitive elements Tissue-specific expression of an anti-ras ribozyme inhibits proliferation of human malignant melanoma cells Preparation of biologically active Ascaris suum mitochondrial tRNA(Met) with a TV-replacement loop by ligation of chemically synthesized RNA fragments The invariant U5 snRNA loop 1 sequence is dispensable for the first catalytic step of pre-mRNA splicing in yeasL Cell Interaction of a GRB-IR splice variant (a human GRBIO homolog) with the insulin and insulin-like growth factor I receptors -Evidence for a role in mitogenic signaling mRNA silencing during erythroid differentiation: hnRNP K and hnRNP E1 regulate 15-1ipoxygenase translation from the 3"end Alternative splicing of agrin regulates its binding to heparin, alpha-dystroglycan, and the cell surface A functional dominant mutation in Schizosaccharomyces pombe RNase MRP RNA affects nuclear RNA processing and requires the mitochondrial-associated nuclear mutation ptpl-1 for viability Multiple substrate binding sites in the ribozyme from Bacillus subtilis RNase P Alternative splicing in the N-termlnal extrecellular domain of the pituitary adenylate cyclase-activating polypeptide (PACAP) receptor modulates receptor selectivity and relative potencies of PACAP-27 and PACAP-38 in phospholipase C activation Translational control by influenza virus -Identification of cis-acting sequences and trans-acting factors which may regulate selective viral mRNA translation The 5' and 3' splice sites come together via a three dimensional diffusion mechanism Complementation of RNA binding site mutations in MS2 coat protein heterodimers Functional characterization of a non-AUUUA AU-rich element from the c-jun proto-oncogene mRNA: Evidence for a novel class of AU-rich elements Genetic enhancement of RNA-processing defects by a dominant mutation in B52, the Drosophila gene for an SR protein splicing factor A mutation in the ATP binding domain of rho alters its RNA binding properties and uncouples ATP hydrolysis from helicase activity Mammalian orthologues of a yeast regulator of nonsense transcript stability Core sequences end a cleavage site wobble pair required for HDV antigenomic ribozyme self-cleavage Context effects on misreading and suppression at bAG codons in human cells Trypanosoma brucei RNA editing -A full round of uridylate insertional editing in vitro mediated by endonuclease and RNA ligase Exon 2-mediated c-myc mRNA decay in vivo is independent of its translation Genes encoding isoforms of transcription elongation factor TFIIS in Xenopus and the use of multiple unusual RNA processing signals RNA editing of hepatitis delta virus antigenome by dsRNA-adenosine deaminase The response regulator SprE controls the stability of RpoS Sequence divergence associated with species-specific splicing of the nonmuscle bets-tropomyosin alternative exon Ribosomal association of poly(A)-binding protein in poly(A)-deficient Seccharomyces cerevisiae Thyroid hormones stabilize acetylcholinesterase mRNA in neuro-2A cells that overexpress the beta 1 thyroid receptor A DEAD-box RNA helicase in the Escherichia coil RNA degradosome Alternative reading frames of the INK4a tumor suppressor gene encode two unrelated proteins capable of inducing cell cycle arrest Three recognition events at the branch-site adenine Turnover and translation of in vitro synthesized messenger RNAs in transfected, normal cells The snRNP core assembly pathway: Identification of stable core protein heteromeric complexes and an snRNP subcore particle in vitro A subset of SR proteins activates splicing of the cardiac troponin T alternative exon by direct interactions with an exonic enhancer High-titer bicistronic retroviral vectors employing foot-and-mouth disease virus internal ribosome entry site A reevaluation of the cap-binding protein, elF4E, as a rate-limiting factor for initiation of translation in reticulocyte lysate Regulation of translation elongation factor-2 by insulin via a rapamycin-sensitive signalling pathway Downstream box-anti-downstream box interactions are dispensable for translation initiation of leaderless mRNAs A role for a small stable RNA in modulating the activity of DNA-binding proteins Unique features of internal initiation of hepatitis C virus RNA translation Antisense oligonucleotides containing an internal, non-nucleotide-based linker promote site-specific cleavage of RNA Determinants of Drosophila fushi tarazu mRNA instability Distinct requirements for primary sequence in the 5'-and 3'-part of a bulge in the hepatitis B virus RNA encapsidation signal revealed by e combined in vivo selection in vitro amplification system RNA binding and translational suppression by bicoid A mechanism for intergenomic integration: Abundance of ribulose bisphosphate carboxylase small-subunit protein influences the translation of the large-subunit mRNA Crystal structure of tRNA-guaeine transglycosylase: RNA modification by base exchange Human ribonuclease 4 (RNase 4): Coding sequence, chromosomal localization and identification of two distinct transcripts in human somatic tissues Involvement of 51 small nuclear ribonucleoproteins (snRNP) in 5' splice site-U1 snRNP interaction Specific phosphorylation of SR proteins by mammalian DNA topoisomerase I Translation initiation of ornithine decarboxylase and nucleocytoplasmic transport of cyclin D1 mRNA are increased in cells overexpressing eukaryotic initiation factor 4E Antideterrninants present in minihelix(Sec) hinder its recognition by prokaryotic elongation factor Tu Mutations in the small subunit of the Drosophila U2AF splicing factor cause lethality and developmental defects Cytoplasmic retenUon and nuclear import of 5S ribosomal RNA containing RNPs Purification and characterization of human cleavage factor I-m, involved in the 3' end processing of messenger RNA precursors Utilizing the GCN4 leader region to investigate the role of the sequence determinants in nonsense-mediated mRNA decay Splicing removes the Caenorhabditis elegens transposon Tcl from most mutant pre-mRNAs Muscle-specitic splicing enhancers regulate inclusion of the cardiac troponin T alternative exon in embryonic skeletal muscle Regulabon of mRNA export in response to stress in Saccharomyces cerevisiae Variant minihelix RNAs reveal sequence-specific recognition of the helical tRNA(Ser) acceptor stem by E-coil seryl-tRNA synthetase A base pair between tRNA and 23S rRNA in the peptidyl transferase centre of the ribosome An essential domain in Saccheromyces cerevisiae 514 snoRNA is absent in vertebrates, but conserved in other yeasts Transfer RNA structural change is a key element in the reassignment of the CUG codon in Candida albicans A family of cold-regulated RNA-binding protein genes in the cyanobacterium Anabaena variabilis M3 Inhibition of HIV-t production and selective degradation of viral RNA by an amphibian ribonuclease The cis-acting elements involved in endonucleolytic cleavage of the 3' UTR of human IGF-II mRNAs bind a 50 kDa protein In vitro generation of a circular exon from a linear pre-mRNA transcript Base and sugar requirements for RNA cleavage of essential nuctaoside residues in internal loop B of the hairpin ribozyme: Implications for secondary structure Transition state stabilization by the 'high' motif of class I aminoecyl-tRNA synthetases: The case of Escherichia coil methionyl-tRNA synthetase Non-canonical translation mechanisms in plants: Efficient in vitro and in plants initiation at AUU codons of the tobacco mosaic virus enhancer sequence Cytosolic yeast tRNA(His) is covalently modified when imported into mitochondria of Trypanosoma brucei An auxiliary factor containing a 240-kDa protein complex is involved in apolipoprotein B RNA editing The RNA 3' cleavage factors CstF 64kDa end CPSF lOOkDa are concentrated in nuclear domains closely associated with coiled bodies and newly synthesized RNA Specific interaction of glyceraldehyde 3-phosphate dehydrogenase with the 5'-nontranslated RNA of hepatitis A virus Deletion of 3'*untranslated region alters the level of mRNA expression of a neurofilament light subunit transgene A place in the world for RNA editing Effect of transcription inhibitors on the iron-dependent degradation of transferrin receptor mRNA Direct visualization of uridylate deletion in vitro suggests a mechanism for kinetoplastid RNA editing Expression of a plant viral polycistronic mRNA in yeast, Saccharomyces cerevisiae, mediated by a plant virus translational transactivator The Cbp2 protein suppresses splice site mutations in a group I intron Polyadenyfation of c-roDS • messenger*RNA as a control point in Xenopus meiotic maturation RNA-binding proteins that specifically recognize the selenocysteine insertion sequence of human cellular glutathione peroxidase mRNA Novel exploitation of a nuclear function by influenza virus: the cellular SF2/ASF splicing factor controls the amount of the essential viral M2 ion channel protein in infected cells A unique human gene that spans over 230 kb in the human chromosome 8p11-12 and codes multiple family proteins sharing RNA-binding motifs The loop B domain is physically separable from the loop A domain in the hairpin ribozyme An additional form of rat Bcl-x. Bcl-x beta, generated by an unspliced RNA, promotes apoptosis in promyeloid cells Characterization of multiple mRNAs that encode mammalian translation initiation factor 5 (elF-5) Sense from nonsense: RNA editing in mitochondria of kinetoplestid protozoa and slime molds Specific sequences in the fragile X syndrome protein FMR1 and the FXR proteins mediate their binding to 60S ribosomal subunits and the interactions among them A splice variant of the ITF-2 transcript encodes a transcription factor that inhibits MyoD activity Psoralen crosslinking between human immunodeficiency virus type 1 RNA and primer tRNA(3)(Lys) The neurofibromatosis type I messenger RNA undergoes base-modification RNA editing The small RNA, DsrA, is essential for the low temperature expression of RpoS during exponential growth in Escherichia coil Trypanosome RNA editing: Resolved Overexpression of APOBEC-t results in mooring sequence-dependent promiscuous RNA editing The downstream box: An efficient and independent translation initiation signal in Escherichia coil Members of a family of proteins (the RD family) detected by a Ul 70K monoclonal antibody are present in spliceosomal complexes Degradation of the proto-oncogene product c-Fos by the ubiquitin proteolytic system in vivo and in vitro: Identification and characterization of the conjugating enzymes CPEB controls the cytoplasmic polyadenylation of cyclin, Cdk2 and c-roDS mRNAs and is necessary for oocyte maturation in Xenopus Expression of a receded nuclear gene inserted into yeast mitochondrial DNA is limited by mRNA-specific translational activation Induced nitric oxide synthesis is dependent on induced alternatively spliced CAT-2 encoding L-arginine transport in brain astrocytes The environment of two metal ions surrounding the splice site of a group I intron Yeast mitochondrial RNase P RNA synthesis is altered in an RNase P protein subunit mutant: Insights into the biogenesis of a mitochonddal RNA-processing enzyme Pre-mRNA topology is important for 3'-end formation in Saccharomyces cerevisiae and mammals Identification of a novel nuclear pore-associated protein as a functional target of the HIV-1 Rev protein in yeast Both amino-and carboxyl-terminal sequences within I kappa B alpha regulate its inducible degradation Antisense ribosomes: rRNA as a vehicle for antisense RNAs Replacement of two non-adjacent amino acids in the S-cerevisiae bi2 intron-encoded RNA maturase is sufficient to gain a homing-endonuclease activity Sequence-specific RNA binding by an SR protein requires RS domain phosphorylation: creation of an SRp40-specific splicing enhancer The human splicing factors ASF/SF2 and SC35 possess distinct, functionally significant RNA binding specificities Codon-reading specificity of an unmodified form of Eschedchia coli tRNA(1)(Ser) in cell-free protein synthesis The recessive phenotype displayed by a dominant negative microphthalmia-associated transcription factor mutant is a result of impaired nuclear localization potential Me In vitro interaction between human immunodeficiency virus type 1 rev protein and splicing factor ASF/SF2-associated protein Translational efficiency is regulated by the length of the 3' untranslated region. Me/Ceil Bio11996 Isolation and characterization of the 102-kilodalton RNA-binding protein that binds to the 5' and 3' translational enhancers of tobacco mosaic virus RNA Degradation of the soybean ribulose-l,5-bisphosphate carboxytase small-subunit mRNA, SRS4, initiates with endonucleolytic cleavage Uhlin BE: Evidence for an RNA binding region in the Escherichia coil processing endoribonuclease RNase E J BiD/Chem A novel spliceosome containing Ull, U12, and U5 snRNPs excises a minor class (AT-AC) intron in vitro Association of the yeast poly(A) tail binding protein with translation initiation factor elF-4G A common function for messenger • RNA 5'and messenger RNA 3'ends in translation initiation in yeasb Stability of the human dystrophin transcript in muscle A common maturation pathway for small nucleolar RNAs Improved accumulation and activity of ribozymes expressed from a tRNA-based RNA polymerase III promoter Selection of novel exon recognition elements from a pool of random sequences Cold-induced expression of Delta(9)-desaturase in carp by transcriptional and posttranslational mechanisms D: Small nucleolar RNAs guide ribosomal RNA methylation Ribonuclease P of Tetrahymena thermophila Posttranscriptional clearance of hepatitis B virus RNA by cytotoxic T lymphocyte-activated hepatocytes Identification and characterization of two alternative splice variants of human interleukin-2 RNA processing -Death by decapitation for mRNA A mammalian gene with introns instead of exons generating stable RNA products UGA suppression by tRNA(CmCA)(Trp) occurs in diverse virus RNAs due to a limited influence of the codon context Interaction of U2AF65 RS region with pre-mRNA of branch point and promotion base pairing with U2 snRNA A nucleolar RNA helicase recognized by autoimmune antibodies from a patient with watermelon stomach disease Extensive alternative splicing and dual promoter usage generate TCt-1 protein isoforms with differential transcription control properties Mutants of eukaryotic initiation factor elF-4E with altered mRNA cap binding specificity reprogram mRNA selection by ribosomes in Saccharomyces cerevisiae Two distinct recognition signals define the site of endonucleolytic cleavage at the 5'-end of yeast 18S rRNA Evolutionary conservation of sequence elements controlling cytoplasmic polyadenylytation A pre-mRNA-binding protein accompanies the RNA from the gene through the nuclear pores and into the polysomes A • nuclear cap-binding complex binds Balbani ring pre-mRNA co-transcriptionally and accompanies the ribonucleoprotein particle during nuclear export Antisense globin RNA in mouse erythroid tissues: Structure, origin, and possible function Creation of a novel protein-coding region at the RNA level in black pine chloroplasts: The pattern of RNA editing in the gymnosperm chloroplast is different from that in angiosperms Alternative exon splicing controls a translational switch from activator to represser isoforms of transcription factor CREB during spermatogenesis An RNA pseudoknot • is an essential structural element of the internal ribosome entry site located within the hepatitis C virus 5'-noncoding region Targeted disruption of an essential vertebrate gone: ASF/SF2 is required for cell viability Nathans D: Mammalian Sugl and c-Fos in the nuclear 26S proteesome Complementary change in cis determinants end trans factors in the evolution of an mRNP stability complex Structure of a U center dot U pair within a conserved ribosomal RNA hairpin The protein that binds the 3"end of histone mRNA: e novel RNA binding protein required for histone pre-mRNA processing Protein orientation in the Tat-TAR complex determined by psoralen photocross-linking Ribonuclease P (RNase P) RNA is converted to a Cd2+-ribozyme by a single Rp-phosphorothioate modification in the precursor tRNA at the RNase p cleavage site Another heritage from the RNA world: Self-excision of intron sequences from nuclear pre-tRNAs Assembly of a ribonuctaoprotein catalyst by tertiary structure capture The PRP3t gone encodes a novel protein required for pre-mRNA splicing in Saccharomyces cerevisiae Identification =° of a signal for rapid export of proteins from the nucleus Identification and characterization of mutations in the UPF1 gene that effect nonsense suppression end the formation of the Upf protein complex but not mRNA turnover The small subunit of the splicing factor U2AF is conserved in fission yeast The effect of base mismatches in the substrate recognition helices of hammerhead ribozymes on binding and catalysis Transcription termination at intrinsic terminators; The role of the RNA hairpin Interaction between the mRNA of the 55-kDa tumor necrosis factor receptor and cellular proteins -Possible involvement in post-transcriptional regulation of receptor expression The 5'-untranslated region of the N-methyI-D-aspartate receptor NR2A subunit controls efficiency of translation Macromolecular complexes: How RNA and protein get together Overexpression of poly(A) binding protein prevents maturation-specific deadenylation and translational inactivation in Xenopus oocytes Ribosome-initiator tRNA complex as an intermediate in translation initiation in Eschetichia coil revealed by use of mutant initiator tRNAs and specialized ribosomes Daneholt B: Identification of two RNA-binding proteins in balbiani ring premessenger ribonuoleoprotein granules and presence of these proteins in specific subsets of heterogeneous nuclear ribonucleoprotein particles Intronic U14 snoRNAs o1 Xenopus laevis are located in two different parent genes and can be processed from their introns during early oogenesis Phosphorylation of the ASF/SF2 • RS domain affects both protein-protein and protein-RNA interactions and is necessary for splicing An RNA-dependent ATPase associated with U2/U6 snRNAs in pre-mRNA splicing Determining RNA solution structure by segmental isotopic labeling and NMR: Application to Caenorhabditis elegans spliced leader RNA 1 A novel • -translational repressor mRNA is extensively edited in livers containing tumors caused by the transgene expression of the apoB mRNA-editing enzyme Hyperediting of multiple cytidines of apolipoprotein B mRNA by APOBEC-1 requires auxiliary protein(sl but not a mooring sequence motif Invariant U2 RNA sequences bordering the branchpoint recognition region are essential for interaction with yeast SF3a and SF3b subunits Invadant U2 RNA sequences bordering the branchpoint recognition region are essential for interaction with yeast SF3a and SF3b subunits Intedeukin-11 mRNA stabilization in phorbol ester-stimulated primate bone marrow stromal cetis Alternative splicing of the human cholesteryl ester transfer protein gene in transgenic mice -Exon exclusion modulates gene expression in response to dietary or developmental change Deficient signalling in mice devoid of double-stranded RNA dependent protein kinase A complex of nuclear proteins mediates SR protein binding to a purina-rich splicing enhancer Identification of sequences in c-myc mRNA that regulate its steady-state levels Phosphorylated Ser/Arg-rich proteins: Limiting factors in the assembly of 200S large nuclear ribonucleoprotein particles Altered mRNA binding activity and decreased translation initiation in a nuclear mutant lacking translation of the chloroplast psbA mRNA Transfer RNA editing in land snail mitochondria Extensive RNA editing of U to C in addition to C to U substitution in the rbcL transcripts of hornwort chloroplasts and the origin of RNA editing in green plants Differential splicing-in of a proline-rich exon converts alpha NAC into a muscle-specific transcription factor A new alternatively spliced exon between v9 and vlO provides a molecular basis for synthesis of soluble CD44 Selective translation initiation o• by ribosome jumping in adenovirus-infected and heat-shocked cells Fixing human factor IX (fiX): Correction of a cryptic RNA splice enables the production of biologically active fix in the mammary gland of transgenic mice Degradation of CYC1 mRNA in the yeast Saccharomyces cerevisiae does not require translation High-affinity RNA-binding domains of alfalfa mosaic virus coat protein are not required for coat protein-mediated resistance Transgenic male-sterile plant induced by an unedited alp9 gene is restored to fertility by inhibiting its expression with antisense RNA Drosophila development: Homeodomeins and translational control Characterization of the in vivo phosphorylation sites of the mRNA center dot cap-binding complex proteins eukaryotic initiation factor-4E end p20 in Saccharomyces cerevisiae The Pg.t-P9.2 peripheral extension helps guide folding o1 the Tetrahymena ribozyme Method for determining RNA 3' ends and application to human telomerase RNA Mapping of catalytic residues in the RNA polymerase active center Metabolism of pre-messenger RNA splicing cofactors: Modification of U6 RNA is dependent on its interaction with U4 RNA Functional properties of p54, a novel SR protein active in constitutive and alternative splicing Complex alternative RNA processing generates an unexpected diversity of poly(A) polymerase isoforms Structure-function relationships in the Saccharomyces cerevisiae poly(A) polymerase -Identification of a novel RNA binding site and a domain that interacts with specificity factor(s) Lambowitz AM: A group II intron RNA is a catalytic component of a DNA endonuclease involved in intron mobility Mutations altering the mitochondrial-cytoplasmic distribution of Mod5p implicate the ectin cytoskeleton and mRNA 3' ends and/or protein synthesis in mitochondrial delivery The splicing factor U2AF35 mediates • critical protein-protein interactions in constitutive and enhancer-dependent splicing Chromosome activation/inactivation and dosage compensation Related reviews: PeG complexes and chromatin silencing The (epi)genetic control of mammalian X-chromosome inactivation Adenovirus type 12-induced fragility of the human RNU2 locus requires u2 small nuclear RNA transcriptional regulatory elements Loss of methylation activates Xist in somatic but not in embryonic cells Cooperation at a distance between silencers and proto-silencers at the yeast HML locus The SIR2 gone family, conserved from bacteria to humans, functions in silencing, cell cycle progression, and chromosome stability Tissue and lineage-specific • variation in inactive X chromosome expression of the murine Smcx gene SUM1-1, a dominant suppressor of SIR mutations in Saccharomyces cerevisiae, increases transcriptional silencing at telomeres and HM mating-type loci and decreases chromosome stability RNA paints the inactive X chromosome at interphase: evidence for a novel RNA involved in nuclear/chromosome structure Xce haplotypes show • modified methylation in a region of the active X chromosome lying 3'to Xist Genetic modification of heterochromatic association and nuclear organization in Drosophila Perturbation of nuclear architecture by long-distance chromosome interactions Repression domain of the yeast global repressor Tupl interacts directly with histones H3 and H4 Genetic and molecular analysis of the gypsy chromatin insulator of Drosophila Specific RNA residue interactions required for enzymatic functions of Tetrahymenatelomerase Transgenic mice carrying an Xist-containing YAC Histone H3 and H4 N-termini interact with SIR3 and SIR4 proteins: a molecular model fo. the formation of heteroehromatin in yeast Xist has • • properties of the X-chromosome inactivation centre Requirement of the yeast MSH3 and MSH6 genes for MSH2-dependent genomic stability mel-18, a Polycomb group-related mammalian gene, encodes a transcriptional negative regulator with tumor suppressive activity Kuroda Mh Equality for X chromosomes Expression of Msl-2 causes assembly of dosage compensation regulators on the X chromosomes and female lethality in Drosophila X inactivation and histone H4 acetylation in embryonic stem cells Long-range eis effects of ectopic • • X-inactivation centres on a mouse autosome A 450kb • • transgene displays properties of the mammalian X-inactivation center Premature translation of protamine 1 mRNA causes precocious nuclear condensation and arrests spermatid differentiation in mice X-chromosome inactivation -Pinpointing the centre Evidence for silencing compartments within the yeast nucleus: a role for telomere proximity and Sir protein concentration in silencer-mediated repression Xist-deficient mice are defective in dosage compensation but not spermatogenesis Silencing of genes at nontelomedc sites in yeast is controlled by sequestration of silencing factors at telomeres by Rap1 protein Xist • expression from an Xist YAC transgene carried on the mouse Y chromosome Probes for chromatin accessibility °. in the Drosophila bithorax complex respond differently to Polycomb-mediated repression A deubiquinating enzyme • interacts with SIR4 and regulates silencing in S. eerevisiae Transcriptional silencing by the Polycomb • ° protein in Drosophila embryos Function of the • Polycomb protein is conserved in mice and flies The fragile X syndrome single strand d(CGG)(n) nucleotide repeats readily fold back to form unimolecular hairpin structures DNA hypomethylation can activate Xist expression and silence X-linked genes Requirement for Xist in X chromosome inactivation In vivo assay • for protein-protein interactions using Drosophila chromosomes Functional analysis • • of the chromodomain of HPI Hunchback-independent • silencing of late Ubx enhancers by a Polycomb Group Response Element Polycomb and bmi-1 homologs are expressed in overlapping patterns in Xenopus embryos and are able to interact with each other A change of ploidy can modify epigenetic silencing The • mouse Smcx gene exhibits developmental and tissue specific variation in degree of escape from X inactivation Specific sequences in the fragile X syndrome protein FMR1 and the FXR proteins mediate their binding to 60S ribosomal subunits and the interactions among them Loss of transcriptional silencing causes sterility in old mother cells of S-cerevisiae SARs are cis DNA elements of chromosome dynamics: Synthesis of a SAR repressor protein Two S-phase checkpoint systems, one involving the function of both BIM E and Tyr15 phosphorylation of p34(cdc2), inhibit NIMA and prevent premature mitosis Visualization of chromosomal domains with boundary element-associated factor BEAF-32 Drosophila Polycomb-group regulated • • chromatin inhibits the accessibility of a trans-activator to its target DNA Chromosome structure, position effect variegation and segregation Related reviews: Deconstructing the nucleus -global architecture from local interactions Specific DNA replication mutations affect telomere length in Saccharomyces cerevisiae Alteration of cell cycle-dependent histone phosphorylations by okadaic acid -Induction of mitosis-specific H3 phosphorylation and chromatin condensation in mammalian interphase cells Participation of the human beta-globin locus control region in initiation of DNA replication • Mutations derepressing silent centromeric domains in fission yeast disrupt chromosome segregation The histone fold: A ubiquitous architectural motif utilized in DNA compaction and protein dimerization NF-E2 disrupts chromatin structure at human beta-globin locus control region hypersensitive site 2 in vitro SKP1 connects cell cycle regulators to the ubiquitin proteolysis machinery through a novel motif, the F-Box Adenovirus type 12-induced fragility of the human RNU2 locus requires u2 small nuclear RNA transcriptional regulatory elements Mechanisms underlying telomere repeat turnover, revealed by hypervariable variant repeat distribution patterns in the human Xp/Yp telomere Gametic imprinting in mammals Faithful chromosome transmission requires Spt4p, a putative regulator of chromatin structure in Saccharomyces cerevisiae Condensation of rat telomere-specific nucleosomal arrays containing unusually short DNA repeats and histone HI Identification of ORD, a Drosophila protein essential for sister chromatid cohesion Visualizing the spatial relationships between defined sequences and the axial region of extracted metaphase chromosomes Differential °• regulation of telomerase activity and telomerase RNA during multi-stage tumorigenesis The SIR2 gene family, conserved from bacteria to humans, functions in silencing, cell cycle progression, and chromosome stability Telomerase activation in mouse mammary tumors: lack of detectable telomere shortnening and evidence for regulation of telomerase RNA with cell proliferation Synergistic regulation of human beta-globin gene switching by locus control region elements HS3 and HS4 Long-range repression in the Drosophila embryo Microinjection of mitotic cells with the 3F3/2 anti-phosphoepitope antibody delays the onset of anaphase °° Association of spindle assembly checkpoint component XMAD2 with unattached kinetochores SUM1-1, a dominant suppressor of SIR mutations in Seccharomyces cerevisiae, increases transcriptional silencing at telomeres and HM mating-type loci and decreases chromosome stability induction of circles of heterogeneous sizes in carcinogen-treated cells: Two-dimensional gel analysis of circular DNA molecules • • Anaphase initiation in Saccharomyces cerevisiae is contolled by the APC-dependent degradation of the anaphase inhibitor Chromosomes and expression mechanisms Chromosome structure, position effect variegation and segregation Budding yeast SKPI encodes • * an evolutionarily conserved kinetochore protein required for cell cycle progression Genetic modification of °° heterochromatic association and nuclear organization in Drosophila Induction of centromenc activity in maize by suppressor of meiotic drive 1 Perturbation of nuclear architecture by long-distance chromosome interactions Direct evidence of • ° a role for heterochromatin in meiotic chromosome segregation The activation of human gene MACE-1 in tumor cells is correlated with 9enome-wide demethylation The effects of sequence context on DNA curvature Variegated transgene expression in mouse mammary gland is determined by the transgene integration locus The age-I =. and daf-2 genes function in a common pathway to control lifespan of Caenorhabditis e/egans DNA-protein interactions at the telomeric repeats of Schizosaccharomyces pombe The chromodomain protein Swi6: a key component of fission yeast oentromeres AIIshire R: Mutations in the fission yeast silencing factors clr4 + and r/k + disrupt the Iocalisation of the chromodomain protein Swi6p and impair centromere function A dominant chromatin-opening activity in 5' hypersensitive site 3 of the human beta-globin locus control region Cut2 proteolysis required for sister-chromatid separation in fission yeast Gene conversion plays the major role in controlling the stability of large tandem repeats in yeast Single-stranded DNA arising at telomeres in cdc13 mutants may constitute a specific signal for the RAD9 checkpoint Single-stranded DNA arising at telomeres in cdc13 mutants may constitute a specific signal for the RAD9 checkpoint (vo115 Genetic and molecular analysis of the gypsy chromatin insulator of Drosophila A Drosphila protein that imparts directionality on a chromatin insulator is an enhancer of position-effect variegation The miniaturized nuclear genome of a eukaryotic endosymbiont contains genes that overlap, genes that are cotranscribed, and the smallest known spliceosomal introns Chromosomal inheritance of epigenetic states in fission yeast during mitosis and meiosis The beta-globin locus control region enhances transcription of but does not confer position-independent expression onto the lacZ gene in transgenic mice The dose of a putative ubiquitJn-specific protease affects position-effect variegation in Drosophila melanogaster Regulation of telomerase activity in immortal cell lines A developmentally regulated position effect at a Telomeric locus in Trypanosoma brucei Promoter-specific modulation of insulin-like growth factor II genomic imprinting by inhibitors of DNA methylation A newly formed telomere in Ascaris suum does not exert a telomere position effect on a nearby gene Genomic position effects lead to an inefficient reorganization of nucleosomes in the 5'-regulatory region of the chicken lysozyme locus in transgenic mice Analysis of mice containing a targeted deletion of beta-globin locus control region 5' hypersensitive site 3 • Induction of metaphase arrest in Drosophila oocytes by chiasma-based kinetochore tension Requirement of the yeast MSH3 and MSH6 genes for MSH2-dependent genomic stability The human growth hormone gene is regulated by a multicomponent locus control region Centric heterochromatin • . and the efficiency of achiasmatic disjunction in Drosophila female meiosis Kuroda Mh Equality for X chromosomes Guarente L: Mutation • . in the silencing gene SIR4 can delay aging in Saccharomyces cerevisiae °-Mei-S332, a Drosophila protein required for sister-chromatid cohesion, can localize to meiotic centromere regions How could it work? Recombination and nondisjunction in humans and flies The crystal structure of the DNA-binding domain of yeast RAP1 in complex with telomeric DNA Nuclear matrix interactions within the sperm genome Determination of life-span in • ° Caenorhabditis elegans by four clock genes Genes that regulate both °° development and longevity in Caenorhabditis elegans Homologous association of °° oppositely imprinted chromosomal domains Islands of complex DNA are widespread in Drosophila centric heterochromatin Premature translation of protamine 1 mRNA causes precocious nuclear condensation and arrests spermatid differentiation in mice Mitotic forces control a cell-cycle checkpoint Identification of a human mitotic °. checkpoint gene: hsMAD2 Purification of telomerase from Euplotes aediculatus: Requirement of a primer 3' overhang Essential and nonessential histene H2A variants in Tetrahymena thermophila Tethered Sir3p nucleates silencing at telomeres and internal loci in Saccharomyces cerevisiae Evidence for silencing compartments within the yeast nucleus: A role for telomere proximity and SIR protein concentration in silencer-mediated repression Silencing of genes at nontelomeric sites in yeast is controlled by sequestration of silencing factors at telomeres by Rap1 protein Interactions of chromatin with the nuclear envelope: positional determination within the nucleus in Drosophila melanogaster A single telomerase RNA is sufficient for the synthesis of variable telomeric DNA repeats in climates of the genus Paramecium Cap-prevented recombination between terminal telomeric repeat arrays (telomere CPR) maintains telomeres in Kluyveromyces lactis lacking telomerase Replication of yeast DNA and novel chromosome formation in mouse cells A deutiiquitinating enzyme interacts with SIR4 and regulates silencing in S-cerevisiae A phosphatidylino-• . sitol-3-OH kinase family member regulating longevity and diapause in Caenorhabditis elegans A genetic pathway conferring life extension and resistance to UV stress in Caenorhabditis elegans Localization of centromere • . function in a Drosophila minichromosome The fragile X syndrome single strand d(CGG)(n) nucleotide repeats readily fold back to form unimolecular hairpin structures Precise • spatial positioning of chromosomes during prometaphase: evidence for chromosomal order Regulatory function of delta/YY-1 on the locus control region-like sequence of mouse glycophorin gene in erythroleukemia cells Kinetochore °° chemistry is sensitive to tension and may link mitotic forces to a ceil cycle checkpoint A loop-loop "kissing" complex is the essential part of the dimer linkage of genornic HIV-1 RNA Abnormal kinetochore structure • activates the spindle assembly checkpoint in yeast Effect of deletion of 5'HS3 or 5'HS2 of the human bets-globin locus control region on the developmental regulation of globin gene expression in beta-globin locus yeast artificial chromosome transgenic mice Stability of intrastrand hairpin structures formed by the CAG/CTG class of DNA triplet repeats associated with neurological diseases The centromere: hub of chromosomal activities Development and tissue-specific °* regulation of mouse telomerase and telomere length The histone fold: Evolutionary questions DNA knotting abolishes in vitro chromatin assembly Inactivation of the HR6B ubiquitin-conjugating DNA repair enzyme in mice causes male sterility associated with chromatin modification Exchanges are not equally able to enhance meiotic chromosome segregation in yeast The var genes of Plasmodium falciparum are located in the subtelomeric region of most chromosomes TEL2, an essential gene required for telomere length regulation and telomere position effect in Saccharomyces cerevisiae Minimal definition of the imprinting center and fixation of a chromosome 15ql 1-ql 3 epigenotype by imprinting mutations A change of ploidy can modify epigenetic silencing Dynamic elastic behavior of o~-satellita DNA domains visualized in situ in living human cells Dynamic elastic behaviour of c~-satellite DNA domains visualized in situ in living human cells Dynamic methylation adjustment and counting as part of imprinting mechanisms Specific sequences in the fragile X syndrome protein EMRt and the FXR proteins mediate their binding to 60S ribosomal subunits and the interactions among them Loss • -of transcriptional silencing causes sterility in old mother cells of S. cerevisiae A novel histone H4 mutant defective in nuclear division and mitotic chromosome transmission Association of the Estl protein with telomerase activity in yeast The Saccharomyces cerevisiae kinetochore contains a cyclin-CDK complexing homologue, as identified by in vitro reconstltution CHDf is concentrated in interbands and puffed regions of Drosophila polytene chromosomes A • mutation in CSE4, an essential gene encoding a novel chromatin associated protein in yeast, causes chromosome nondisjunction and cell cycle arrest at mitosis Effects of reverse transcriptase inhibitors on tetomere length and tetomerase activity in two immortalized human cell lines GFP o. tagging of budding yeast chromosomes reveals that protein-protein interactions can mediate sister chromatid cohesion Mutations in the MSH3 gene preferentially lead to deletions within tracts of simple repetitive DNA in Saccharomyces cerevisiae Separation of sister chromatids • in mitosis requires the Drosophila pimples product, a protein degraded after the metaphase/anaphase transition Identification of centromeric • antigens in dicentric Robertsonian translocations: CENP-C and CENP-E are necessary components of functional centromeres Human CENP-A contains a histone H3 related histone fold domain that is required for targetting to the centromere Suppressors of defective silencing in yeast: Effects on transcriptional repression at the HMR locus, cell growth and telomere structure A chromatin binding site in • -the tail domain of nuclear lamins that interacts with core histones Regulation of chromosome segregation by Glcgp, a structural homolog of mammalian inhibitor 2 that functions as both an activator and an inhibitor of yeast protein phosphatase t CGG repeats associated with DNA instability and chromosome fragility form structures that block DNA synthesis in vitro Expression of a Plasmodium gene introduced into subtelomeric regions of Plasmodium berghei chromosomes What determines the folding of the chromatin fiber? Checkpoint genes required to delay cell division in response to nocadazole respond to impaired kinetochore function in the yeast Saccharomyces cerevisiae Methylation of expanded CCG triplet repeat DNA from fragile X syndrome patients enhances nucleosome exclusion Heat shock induces a loss of rRNA-encoding DNA repeats in Brassica nigra Evidence for a new step in telomere maintenance AberranUy segregating • centromeres activate the spindle assembly checkpoint in budding yeast Bipolar spindle attachments affect redistributions of ZW10, a Drosophila centromere/kinetochore component required for accurate chromosome segregation Cdc53 targets phosphorylated G 1 cyclins for degradation by the ubiquitin proteolytic pathway Mutations in the • o clock-1 gene of Caenorhabdis elegans affect developmental and behavioral timing Experimental elongation of telomeres extends the lifespan of immortal x normal cell hybrids Identification of a • mid-anaphase checkpoint in budding yeast Interaction between an integral • protein of the nuclear envelope inner membrane and human chromodomain proteins homologous to Drosophila HPI Two S-phase checkpoint systems, one involving the function of both BIME and Tyr15 phosphorylation of p34(cdc2), inhibit NIMA and prevent premature mitosis Positional cloning of the Werner's syndrome gene Concordant loss of imprinting of the human insulin-like growth factor II gene promoters in cancer Visualization of chromosomal domains with boundary element-associated factor BEAF-32 Cell-specific transcriptional regulation and reactivation of galectin-1 gene expression are controlled by DNA methylation of the promoter region Mot Cell Bio/ 1996, 16:4590, Bruhat A, Jost JP: Phosphorylation/dephosphorylation of the repressor MDBP-2-H1 selectively affects the level of transcription from a methyfatad promoter in vitro Binding of histone H1 to DNA is indifferent to methylation at CpG sequences Alterations in DNA methylation may play a variety of roles in carcinogenesis The activation of human gene MAGE-t in tumor cells is correlated with genome-wide demethylation Differential inhibition of HIV-t preintegration complexes and purified integrase protein by small molecules Reduced DNA methylation in Arabidopsis thaliana results in abnormal plant developmenL Methylation of DNA repeats of decreasing sizes in Ascobolus immersus Chromosomal inheritance of epigenetic states in fission yeast during mitosis and meiosis Methyfation of coding region alone inhibits gene expression in plant protoplasts Silencers are required for inheritance of the repressed state in yeast Site-specific methylation of the rat prolactin and growth hormone promoters correlates with gene express on Methylation of the mouse M-lysozyme downstream enhancer inhibits heterotetrameric GABP binding DNA hypomethylatJon can activate Xist expression and silence X-linked genes Methylation of CpG island transcription factor binding sites is unnecessary for aberrant silencing of the human MGMT gene Characterization of the promoter region of the mouse Xist gene Mutations affecting the biosynthesis of S-adenosylmethionine cause reduction of DNA methylation in Neurospora erassa Transcriptional activation of the E.ostein-Barr virus latency C promoter after 5-azacytidine treatment: Evidence that demethylation at a single CpG site is crucial The reduced expression of endogenous duplications (REED) in the maize R gene family is mediated by DNA methylation Demethylation-indueed developmental pleiotropy in Arabidopsis Isolation of a novel retinoic acid-responsive gene by selection of genomic fragments derived from CpG-island-enriched DNA Dynamic methylation adjustment and counting as part of imprinting mechanisms Densely methylated DNA islands in mammalian chromosomal replication origins De novo methylation of CpG island sequences in human fibroblests overexpressing DNA (cytosine-5)-methyltransferase Methylation of expanded CCG triplet repeat DNA from fragile X syndrome patients enhances nucleosome exclusion DNA demethylation in vitro: Involvement of RNA Caulobacter Lon protease has a critical role in cell-cycle control of DNA methylation Hairpins in a DNA site for topoisomerase II studied by H-l-and P-31-NMR IC: Structure and mechanism of DNA topoisomerase I1 IC: Structure and mechanism of DNA topoisomerase II Identification of a nucleolin binding site in human topoisomerase I A novel family of TRF (DNA topoisomerase I-related function) genes required for proper nuclear segregation Inactivation of topoisomerases affects transcription-dependent chromatin transitions in rDNA but not in a gene transcribed by RNA polymerase I1 Increased drug affinity as the mechanistic basis for drug hypersensitivity of a mutant type II topoisomerase The cell cycle-coupled expression of topoisomerase II alpha during S phase is regulated by mRNA stability and is disrupted by heat shock or ionizing radiation Mapping of genomic DNA loop organization in a 500-kilobase region of the Drosophila X chromosome by the topoisomersse II-mediated DNA loop excision protocol Regulation of the human topoisomerase II alpha gene promoter in confluence-arrested cells Topoisomerase IV is a target of quinolones in Eecherichia coll Analysis of M phase-specific phosphorylation of DNA tol~oisomerase II Phosphorylation-independent stimulation of DNA topoisomerase II alpha activity A two-subunit type I DNA topoisomerase (reverse gyrase) from an extreme hyperthermophile Human DNA topoisomerase I-mediated cleavages stimulated by ultraviolet light-induced DNA damage IE: Intradimerically tethered DNA topoisomerase II is catalytically active in DNA transport Preferential binding of human topoisomerase I to superhelical DNA Specific interaction of topoisomerase II beta and the CD3 epsilon chain of the T cell receptor complex Mutations in the B subunit of Escherichia coil DNA gyrase that affect ATP-dependent reactions Cloning and characterization of the 9ene for the somatic form of DNA topoisomerase I from Xenopus laevis I: The interaction of Escherichia coil topoisomerase IV with DNA Binding of a hairpin polyamide in the minor groove of DNA: Sequence-specific enthalpic discrimination Interaction of an alkylating camptothecin derivative with a DNA base at topoisomerase I-DNA cleavage sites IC: DNA transport by a type II topoisomerase: Direct evidence for a two-gate mechanism Brunel C, Tazi ,i: Specific phosphorylation of SR proteins by mammalian DNA topoisomerase I Structure and conformational changes of DNA topoisomerase II visualized by electron microscopy Identification of contacts between topoisomerase I and its target DNA by site-specific photocrosslinking Covalent DNA binding by veccinia topoisomerase results in unpairing of the thymine base 5' of the scissile bond Resolution of Holliday junctions by eukaryotic DNA topoisomerase I Mechanism of inhibition of vaccinia DNA topoisomerase by novobiocin and coumermycin The domain organization of human topoisomerase I Biochemical and biophysical analyses of recombinant forms of human topoisomerase I SARs are cis DNA elements of chromosome dynamics: Synthesis of a SAR repressor protein An RNA topoisomerase Differential control of transcription-induced and overall DNA supercoiling by eukaryotic topoisomerases in vitro Cell cycle phase-specific phosphorylation of human topoisomerase II alpha -Evidence of a role for protein kinase C Roles of topoisomerase IV and DNA gyrase in DNA unlinking during replication in Escherichia coil The role of the carboxyl-terminal amino acid residues in Escherichia coil DNA topoisomerase Ill-mediated catalysis Topoisomerase I involvement in illegitimate recombination in Seccharomyces cerevisiae BM: NF-E2 disrupts chromatin structure at human beta-globin locus control region hypersensitive site 2 in vitro Synergistic regulation of human beta-globin gene switching by locus control region elements HS3 and HS4 A dominant chromatin-opening activity in 5' hypersensitive site 3 of the human beta-globin locus control region The beta-globin locus control region enhances transcription of but does not confer position-independent expression onto the lacZ gene in transgenic mice Genomic position effects lead to an inefficient reorganization of nucleosomes in the 5'-regulatory region of the chicken lysozyme locus in transgenic mice Analysis of mice containing a targeted deletion of beta-globin locus control region 5' hypersensitive site 3 The human growth hormone gene is regulated by a multicomponent locus control region Regulatory function of delta/'YY-1 on the locus control region-like sequence of mouse glycophorin gene in erythroleukemia cells Effect of deletion of 5'HS3 or 5'HS2 of the human beta-globin locus control region on the developmental regulation of globin gene expression in beta-globin locus yeast artificial chromosnme transgenic mice