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  • 11
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    Maize genome sequencing by methylation filtration (2003)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2003-12-20
    Description: Gene enrichment strategies offer an alternative to sequencing large and repetitive genomes such as that of maize. We report the generation and analysis of nearly 100,000 undermethylated (or methylation filtration) maize sequences. Comparison with the rice genome reveals that methylation filtration results in a more comprehensive representation of maize genes than those that result from expressed sequence tags or transposon insertion sites sequences. About 7% of the repetitive DNA is unmethylated and thus selected in our libraries, but potentially active transposons and unmethylated organelle genomes can be identified. Reverse transcription polymerase chain reaction can be used to finish the maize transcriptome.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Palmer, Lance E -- Rabinowicz, Pablo D -- O'Shaughnessy, Andrew L -- Balija, Vivekanand S -- Nascimento, Lidia U -- Dike, Sujit -- de la Bastide, Melissa -- Martienssen, Robert A -- McCombie, W Richard -- 2 T32-CA09311-25/CA/NCI NIH HHS/ -- New York, N.Y. -- Science. 2003 Dec 19;302(5653):2115-7.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/14684820" target="_blank"〉PubMed〈/a〉
    Keywords: Algorithms ; Chromosomes, Artificial, Bacterial ; Cloning, Molecular ; Computational Biology ; Conserved Sequence ; Contig Mapping ; CpG Islands ; *DNA Methylation ; DNA Transposable Elements ; DNA, Chloroplast/genetics ; DNA, Complementary ; DNA, Mitochondrial/genetics ; DNA, Plant/genetics ; Databases, Nucleic Acid ; Escherichia coli/genetics ; Exons ; Expressed Sequence Tags ; Genes, Plant ; *Genome, Plant ; Genomic Library ; Oryza/genetics ; Repetitive Sequences, Nucleic Acid ; Retroelements ; Reverse Transcriptase Polymerase Chain Reaction ; Sequence Analysis, DNA/*methods ; Zea mays/*genetics
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 12
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    RNAi promotes heterochromatic silencing through replication-coupled release of RNA Pol II (2011)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2011-10-18
    Description: Heterochromatin comprises tightly compacted repetitive regions of eukaryotic chromosomes. The inheritance of heterochromatin through mitosis requires RNA interference (RNAi), which guides histone modification during the DNA replication phase of the cell cycle. Here we show that the alternating arrangement of origins of replication and non-coding RNA in pericentromeric heterochromatin results in competition between transcription and replication in Schizosaccharomyces pombe. Co-transcriptional RNAi releases RNA polymerase II (Pol II), allowing completion of DNA replication by the leading strand DNA polymerase, and associated histone modifying enzymes that spread heterochromatin with the replication fork. In the absence of RNAi, stalled forks are repaired by homologous recombination without histone modification.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3391703/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3391703/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Zaratiegui, Mikel -- Castel, Stephane E -- Irvine, Danielle V -- Kloc, Anna -- Ren, Jie -- Li, Fei -- de Castro, Elisa -- Marin, Laura -- Chang, An-Yun -- Goto, Derek -- Cande, W Zacheus -- Antequera, Francisco -- Arcangioli, Benoit -- Martienssen, Robert A -- R01 GM076396/GM/NIGMS NIH HHS/ -- R01 GM076396-04/GM/NIGMS NIH HHS/ -- England -- Nature. 2011 Oct 16;479(7371):135-8. doi: 10.1038/nature10501.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22002604" target="_blank"〉PubMed〈/a〉
    Keywords: Centromere/genetics/metabolism ; Chromosomal Proteins, Non-Histone/genetics/metabolism ; DNA Damage ; DNA Replication/*physiology ; DNA-Directed DNA Polymerase/metabolism ; *Gene Silencing ; Heterochromatin/*genetics/*metabolism ; Histones/metabolism ; Homologous Recombination ; Models, Genetic ; Molecular Sequence Data ; *RNA Interference ; RNA Polymerase II/*metabolism ; RNA, Small Interfering/genetics/metabolism ; Replication Origin ; S Phase ; Schizosaccharomyces/*genetics ; Schizosaccharomyces pombe Proteins/genetics/metabolism ; Transcription, Genetic
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 13
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    The oil palm SHELL gene controls oil yield and encodes a homologue of SEEDSTICK (2013)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2013-07-26
    Description: A key event in the domestication and breeding of the oil palm Elaeis guineensis was loss of the thick coconut-like shell surrounding the kernel. Modern E. guineensis has three fruit forms, dura (thick-shelled), pisifera (shell-less) and tenera (thin-shelled), a hybrid between dura and pisifera. The pisifera palm is usually female-sterile. The tenera palm yields far more oil than dura, and is the basis for commercial palm oil production in all of southeast Asia. Here we describe the mapping and identification of the SHELL gene responsible for the different fruit forms. Using homozygosity mapping by sequencing, we found two independent mutations in the DNA-binding domain of a homologue of the MADS-box gene SEEDSTICK (STK, also known as AGAMOUS-LIKE 11), which controls ovule identity and seed development in Arabidopsis. The SHELL gene is responsible for the tenera phenotype in both cultivated and wild palms from sub-Saharan Africa, and our findings provide a genetic explanation for the single gene hybrid vigour (or heterosis) attributed to SHELL, via heterodimerization. This gene mutation explains the single most important economic trait in oil palm, and has implications for the competing interests of global edible oil production, biofuels and rainforest conservation.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4209285/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4209285/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Singh, Rajinder -- Low, Eng-Ti Leslie -- Ooi, Leslie Cheng-Li -- Ong-Abdullah, Meilina -- Ting, Ngoot-Chin -- Nagappan, Jayanthi -- Nookiah, Rajanaidu -- Amiruddin, Mohd Din -- Rosli, Rozana -- Manaf, Mohamad Arif Abdul -- Chan, Kuang-Lim -- Halim, Mohd Amin -- Azizi, Norazah -- Lakey, Nathan -- Smith, Steven W -- Budiman, Muhammad A -- Hogan, Michael -- Bacher, Blaire -- Van Brunt, Andrew -- Wang, Chunyan -- Ordway, Jared M -- Sambanthamurthi, Ravigadevi -- Martienssen, Robert A -- R01 GM067014/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Aug 15;500(7462):340-4. doi: 10.1038/nature12356. Epub 2013 Jul 24.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Malaysian Palm Oil Board, 6, Persiaran Institusi, Bandar Baru Bangi, 43000 Kajang, Selangor, Malaysia. raviga@mpob.gov.my〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23883930" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Arabidopsis Proteins/genetics ; Arecaceae/*genetics/*metabolism ; Chromosome Mapping ; Gene Expression Profiling ; Gene Expression Regulation, Plant ; Genes, Plant/*genetics ; Genetic Variation ; Homozygote ; MADS Domain Proteins/genetics ; Molecular Sequence Data ; Mutation ; *Plant Oils ; Sequence Alignment
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 14
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    Oil palm genome sequence reveals divergence of interfertile species in Old and New worlds (2013)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2013-07-26
    Description: Oil palm is the most productive oil-bearing crop. Although it is planted on only 5% of the total world vegetable oil acreage, palm oil accounts for 33% of vegetable oil and 45% of edible oil worldwide, but increased cultivation competes with dwindling rainforest reserves. We report the 1.8-gigabase (Gb) genome sequence of the African oil palm Elaeis guineensis, the predominant source of worldwide oil production. A total of 1.535 Gb of assembled sequence and transcriptome data from 30 tissue types were used to predict at least 34,802 genes, including oil biosynthesis genes and homologues of WRINKLED1 (WRI1), and other transcriptional regulators, which are highly expressed in the kernel. We also report the draft sequence of the South American oil palm Elaeis oleifera, which has the same number of chromosomes (2n = 32) and produces fertile interspecific hybrids with E. guineensis but seems to have diverged in the New World. Segmental duplications of chromosome arms define the palaeotetraploid origin of palm trees. The oil palm sequence enables the discovery of genes for important traits as well as somaclonal epigenetic alterations that restrict the use of clones in commercial plantings, and should therefore help to achieve sustainability for biofuels and edible oils, reducing the rainforest footprint of this tropical plantation crop.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3929164/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3929164/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Singh, Rajinder -- Ong-Abdullah, Meilina -- Low, Eng-Ti Leslie -- Manaf, Mohamad Arif Abdul -- Rosli, Rozana -- Nookiah, Rajanaidu -- Ooi, Leslie Cheng-Li -- Ooi, Siew-Eng -- Chan, Kuang-Lim -- Halim, Mohd Amin -- Azizi, Norazah -- Nagappan, Jayanthi -- Bacher, Blaire -- Lakey, Nathan -- Smith, Steven W -- He, Dong -- Hogan, Michael -- Budiman, Muhammad A -- Lee, Ernest K -- DeSalle, Rob -- Kudrna, David -- Goicoechea, Jose Luis -- Wing, Rod A -- Wilson, Richard K -- Fulton, Robert S -- Ordway, Jared M -- Martienssen, Robert A -- Sambanthamurthi, Ravigadevi -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Aug 15;500(7462):335-9. doi: 10.1038/nature12309. Epub 2013 Jul 24.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Malaysian Palm Oil Board, 6, Persiaran Institusi, Bandar Baru Bangi, 43000 Kajang, Selangor, Malaysia. raviga@mpob.gov.my〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23883927" target="_blank"〉PubMed〈/a〉
    Keywords: Arecaceae/*classification/*genetics ; Carbohydrate Metabolism/genetics ; Chromosomes, Plant/genetics ; Genome, Plant/*genetics ; Lipid Metabolism/genetics ; Models, Genetic ; Molecular Sequence Data ; *Phylogeny
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 15
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    CENP-B preserves genome integrity at replication forks paused by retrotransposon LTR (2010)
    Nature Publishing Group (NPG)
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    Publication Date: 2010-12-15
    Description: Centromere-binding protein B (CENP-B) is a widely conserved DNA binding factor associated with heterochromatin and centromeric satellite repeats. In fission yeast, CENP-B homologues have been shown to silence long terminal repeat (LTR) retrotransposons by recruiting histone deacetylases. However, CENP-B factors also have unexplained roles in DNA replication. Here we show that a molecular function of CENP-B is to promote replication-fork progression through the LTR. Mutants have increased genomic instability caused by replication-fork blockage that depends on the DNA binding factor switch-activating protein 1 (Sap1), which is directly recruited by the LTR. The loss of Sap1-dependent barrier activity allows the unhindered progression of the replication fork, but results in rearrangements deleterious to the retrotransposon. We conclude that retrotransposons influence replication polarity through recruitment of Sap1 and transposition near replication-fork blocks, whereas CENP-B counteracts this activity and promotes fork stability. Our results may account for the role of LTR in fragile sites, and for the association of CENP-B with pericentromeric heterochromatin and tandem satellite repeats.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3057531/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3057531/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Zaratiegui, Mikel -- Vaughn, Matthew W -- Irvine, Danielle V -- Goto, Derek -- Watt, Stephen -- Bahler, Jurg -- Arcangioli, Benoit -- Martienssen, Robert A -- A6517/Cancer Research UK/United Kingdom -- C9546/A6517/Cancer Research UK/United Kingdom -- R01 GM076396/GM/NIGMS NIH HHS/ -- R01 GM076396-01A1/GM/NIGMS NIH HHS/ -- R01GM076396/GM/NIGMS NIH HHS/ -- England -- Nature. 2011 Jan 6;469(7328):112-5. doi: 10.1038/nature09608. Epub 2010 Dec 12.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, New York 11724, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21151105" target="_blank"〉PubMed〈/a〉
    Keywords: Centromere Protein B/deficiency/genetics/*metabolism ; Chromosomal Proteins, Non-Histone/genetics/metabolism ; Conserved Sequence/genetics ; DNA Damage/genetics ; DNA Replication/*genetics ; DNA-Binding Proteins/genetics/metabolism ; Genome, Fungal/*genetics ; Genomic Instability/*genetics ; Recombination, Genetic ; Retroelements/*genetics ; Schizosaccharomyces/*genetics/metabolism ; Schizosaccharomyces pombe Proteins/genetics/metabolism ; Terminal Repeat Sequences/*genetics
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 16
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    miRNAs trigger widespread epigenetically activated siRNAs from transposons in Arabidopsis (2014)
    Nature Publishing Group (NPG)
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    Publication Date: 2014-03-29
    Description: In plants, post-transcriptional gene silencing (PTGS) is mediated by DICER-LIKE 1 (DCL1)-dependent microRNAs (miRNAs), which also trigger 21-nucleotide secondary short interfering RNAs (siRNAs) via RNA-DEPENDENT RNA POLYMERASE 6 (RDR6), DCL4 and ARGONAUTE 1 (AGO1), whereas transcriptional gene silencing (TGS) of transposons is mediated by 24-nucleotide heterochromatic (het)siRNAs, RDR2, DCL3 and AGO4 (ref. 4). Transposons can also give rise to abundant 21-nucleotide 'epigenetically activated' small interfering RNAs (easiRNAs) in DECREASED DNA METHYLATION 1 (ddm1) and DNA METHYLTRANSFERASE 1 (met1) mutants, as well as in the vegetative nucleus of pollen grains and in dedifferentiated plant cell cultures. Here we show that easiRNAs in Arabidopsis thaliana resemble secondary siRNAs, in that thousands of transposon transcripts are specifically targeted by more than 50 miRNAs for cleavage and processing by RDR6. Loss of RDR6, DCL4 or DCL1 in a ddm1 background results in loss of 21-nucleotide easiRNAs and severe infertility, but 24-nucleotide hetsiRNAs are partially restored, supporting an antagonistic relationship between PTGS and TGS. Thus miRNA-directed easiRNA biogenesis is a latent mechanism that specifically targets transposon transcripts, but only when they are epigenetically reactivated during reprogramming of the germ line. This ancient recognition mechanism may have been retained both by transposons to evade long-term heterochromatic silencing and by their hosts for genome defence.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4074602/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4074602/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Creasey, Kate M -- Zhai, Jixian -- Borges, Filipe -- Van Ex, Frederic -- Regulski, Michael -- Meyers, Blake C -- Martienssen, Robert A -- P30 CA045508/CA/NCI NIH HHS/ -- R01 GM067014/GM/NIGMS NIH HHS/ -- R01GM067014/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2014 Apr 17;508(7496):411-5. doi: 10.1038/nature13069. Epub 2014 Mar 16.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, New York 11724, USA. ; Delaware Biotechnology Institute and Department of Plant & Soil Sciences, 15 Innovation Way, University of Delaware, Newark, Delaware 19711, USA. ; 1] Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, New York 11724, USA [2] Howard Hughes Medical Institute-Gordon and Betty Moore Foundation, Cold Spring Harbor Laboratory, New York 11724, USA [3] Chaire Blaise Pascal, Institut de Biologie de l'Ecole Normale Superieure (IBENS), 75230 Paris, France.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24670663" target="_blank"〉PubMed〈/a〉
    Keywords: Arabidopsis/*genetics ; Base Sequence ; Conserved Sequence ; DNA Transposable Elements/genetics ; *Epigenesis, Genetic ; Genome, Plant/genetics ; MicroRNAs/*genetics/metabolism ; Models, Genetic ; Open Reading Frames/genetics ; RNA, Small Interfering/biosynthesis/*genetics ; Retroelements/*genetics
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 17
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    Argonaute slicing is required for heterochromatic silencing and spreading (2006)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2006-08-26
    Description: Small interfering RNA (siRNA) guides dimethylation of histone H3 lysine-9 (H3K9me2) via the Argonaute and RNA-dependent RNA polymerase complexes, as well as base-pairing with either RNA or DNA. We show that Argonaute requires the conserved aspartate-aspartate-histidine motif for heterochromatic silencing and for ribonuclease H-like cleavage (slicing) of target messages complementary to siRNA. In the fission yeast Schizosaccharomyces pombe, heterochromatic repeats are transcribed by polymerase II. We show that H3K9me2 spreads into silent reporter genes when they are embedded within these transcripts and that spreading requires read-through transcription, as well as slicing by Argonaute. Thus, siRNA guides histone modification by basepairing interactions with RNA.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Irvine, Danielle V -- Zaratiegui, Mikel -- Tolia, Niraj H -- Goto, Derek B -- Chitwood, Daniel H -- Vaughn, Matthew W -- Joshua-Tor, Leemor -- Martienssen, Robert A -- R01 GM076396/GM/NIGMS NIH HHS/ -- R01 GM076396-01A1/GM/NIGMS NIH HHS/ -- R01-GM067014/GM/NIGMS NIH HHS/ -- R01-GM072659/GM/NIGMS NIH HHS/ -- New York, N.Y. -- Science. 2006 Aug 25;313(5790):1134-7.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/16931764" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Motifs ; Argonaute Proteins ; Base Pairing ; Genes, Reporter ; Heterochromatin/genetics/*metabolism ; Histones/metabolism ; *RNA Interference ; RNA, Fungal/*metabolism ; RNA, Messenger/metabolism ; RNA, Small Interfering/*metabolism ; RNA-Binding Proteins ; Recombinant Fusion Proteins/metabolism ; Schizosaccharomyces/*genetics/metabolism ; Schizosaccharomyces pombe Proteins/chemistry/genetics/*metabolism ; Transcription, Genetic
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 18
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    Gene trap tagging of PROLIFERA, an essential MCM2-3-5-like gene in Arabidopsis (1995)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 1995-05-12
    Description: Gene trap transposon mutagenesis can identify essential genes whose functions in later development are obscured by an early lethal phenotype. In higher plants, many genes are required for haploid gametophyte viability, so that the phenotypic effects of their disruption cannot be readily observed in the diploid plant body. The PROLIFERA (PRL) gene, identified by gene trap transposon mutagenesis in Arabidopsis, is required for megaga-metophyte and embryo development. Reporter gene expression patterns revealed that PRL was expressed in dividing cells throughout the plant. PRL is related to the MCM2-3-5 family of yeast genes that are required for the initiation of DNA replication.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Springer, P S -- McCombie, W R -- Sundaresan, V -- Martienssen, R A -- New York, N.Y. -- Science. 1995 May 12;268(5212):877-80.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Cold Spring Harbor Laboratory, NY 11724, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/7754372" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Arabidopsis/*genetics/growth & development/physiology ; *Arabidopsis Proteins ; Base Sequence ; Cell Cycle Proteins/genetics ; Crosses, Genetic ; DNA Transposable Elements ; Fungal Proteins/genetics ; *Genes, Plant ; Genes, Reporter ; Minichromosome Maintenance Complex Component 7 ; Molecular Sequence Data ; Mutagenesis, Insertional ; Phenotype ; Plant Proteins/chemistry/*genetics ; Seeds/growth & development ; Sequence Alignment
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 19
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    Arabidopsis thaliana DNA methylation mutants (1993)
    American Association for the Advancement of Science (AAAS)
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    Publication Date: 1993-06-25
    Description: Three DNA hypomethylation mutants of the flowering plant Arabidopsis thaliana were isolated by screening mutagenized populations for plants containing centromeric repetitive DNA arrays susceptible to digestion by a restriction endonuclease that was sensitive to methylated cytosines. The mutations are recessive, and at least two are alleles of a single locus, designated DDM1 (for decrease in DNA methylation). Amounts of 5-methylcytosine were reduced over 70 percent in ddm1 mutants. Despite this reduction in DNA methylation levels, ddm1 mutants developed normally and exhibited no striking morphological phenotypes. However, the ddm1 mutations are associated with a segregation distortion phenotype. The ddm1 mutations were used to demonstrate that de novo DNA methylation in vivo is slow.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Vongs, A -- Kakutani, T -- Martienssen, R A -- Richards, E J -- New York, N.Y. -- Science. 1993 Jun 25;260(5116):1926-8.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Cold Spring Harbor Laboratory, NY 11724.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/8316832" target="_blank"〉PubMed〈/a〉
    Keywords: 5-Methylcytosine ; Arabidopsis/*genetics/growth & development ; Centromere ; Crosses, Genetic ; Cytosine/analogs & derivatives/analysis ; DNA/chemistry/*metabolism ; DNA, Ribosomal/chemistry/metabolism ; *Genes, Plant ; *Genes, Recessive ; Methylation ; Mutation ; Phenotype
    Print ISSN: 0036-8075
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    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 20
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    Selective methylation of histone H3 variant H3.1 regulates heterochromatin replication (2014)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2014-03-15
    Description: Histone variants have been proposed to act as determinants for posttranslational modifications with widespread regulatory functions. We identify a histone-modifying enzyme that selectively methylates the replication-dependent histone H3 variant H3.1. The crystal structure of the SET domain of the histone H3 lysine-27 (H3K27) methyltransferase ARABIDOPSIS TRITHORAX-RELATED PROTEIN 5 (ATXR5) in complex with a H3.1 peptide shows that ATXR5 contains a bipartite catalytic domain that specifically "reads" alanine-31 of H3.1. Variation at position 31 between H3.1 and replication-independent H3.3 is conserved in plants and animals, and threonine-31 in H3.3 is responsible for inhibiting the activity of ATXR5 and its paralog, ATXR6. Our results suggest a simple model for the mitotic inheritance of the heterochromatic mark H3K27me1 and the protection of H3.3-enriched genes against heterochromatization during DNA replication.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4049228/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4049228/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Jacob, Yannick -- Bergamin, Elisa -- Donoghue, Mark T A -- Mongeon, Vanessa -- LeBlanc, Chantal -- Voigt, Philipp -- Underwood, Charles J -- Brunzelle, Joseph S -- Michaels, Scott D -- Reinberg, Danny -- Couture, Jean-Francois -- Martienssen, Robert A -- BMA-355900/Canadian Institutes of Health Research/Canada -- GM064844/GM/NIGMS NIH HHS/ -- GM067014/GM/NIGMS NIH HHS/ -- GM075060/GM/NIGMS NIH HHS/ -- R01 GM067014/GM/NIGMS NIH HHS/ -- R01 GM075060/GM/NIGMS NIH HHS/ -- R37 GM037120/GM/NIGMS NIH HHS/ -- R37GM037120/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- New York, N.Y. -- Science. 2014 Mar 14;343(6176):1249-53. doi: 10.1126/science.1248357.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Howard Hughes Medical Institute-Gordon and Betty Moore Foundation, Watson School of Biological Sciences, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24626927" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Arabidopsis/genetics/*metabolism ; Arabidopsis Proteins/*chemistry/metabolism ; Catalytic Domain ; Conserved Sequence ; Crystallography, X-Ray ; DNA Replication ; Epigenesis, Genetic ; Gene Expression Regulation, Plant ; Heterochromatin/*metabolism ; Histones/*metabolism ; Methylation ; Methyltransferases/*chemistry/metabolism ; Mitosis ; Molecular Sequence Data ; *Protein Processing, Post-Translational ; Threonine/metabolism
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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