A Small RNA Pathway Mediates Allelic Dosage in Endosperm
Tài liệu tham khảo
Baroux, 2007, The triploid endosperm genome of Arabidopsis adopts a peculiar, parental-dosage-dependent chromatin organization, Plant Cell, 19, 1782, 10.1105/tpc.106.046235
Belmonte, 2013, Comprehensive developmental profiles of gene activity in regions and subregions of the Arabidopsis seed, Proc. Natl. Acad. Sci. USA, 110, E435, 10.1073/pnas.1222061110
Borges, 2015, The expanding world of small RNAs in plants, Nat. Rev. Mol. Cell Biol., 16, 727, 10.1038/nrm4085
Disteche, 2016, Dosage compensation of the sex chromosomes and autosomes, Semin. Cell Dev. Biol., 56, 9, 10.1016/j.semcdb.2016.04.013
Florez-Rueda, 2016, Genomic imprinting in the endosperm is systematically perturbed in abortive hybrid tomato seeds, Mol. Biol. Evol., 33, 2935, 10.1093/molbev/msw175
Gehring, 2017, Endosperm and imprinting, inextricably linked, Plant Physiol., 173, 143, 10.1104/pp.16.01353
Gehring, 2009, Extensive demethylation of repetitive elements during seed development underlies gene imprinting, Science, 324, 1447, 10.1126/science.1171609
Gehring, 2011, Genomic analysis of parent-of-origin allelic expression in Arabidopsis thaliana seeds, PLoS ONE, 6, e2387, 10.1371/journal.pone.0023687
Greaves, 2012, Trans chromosomal methylation in Arabidopsis hybrids, Proc. Natl. Acad. Sci. USA, 109, 3570, 10.1073/pnas.1201043109
Haig, 2013, Kin conflict in seed development: an interdependent but fractious collective, Annu. Rev. Cell Dev. Biol., 29, 189, 10.1146/annurev-cellbio-101512-122324
Hsieh, 2011, Regulation of imprinted gene expression in Arabidopsis endosperm, Proc. Natl. Acad. Sci. USA, 108, 1755, 10.1073/pnas.1019273108
Huang, 2017, Mutants in the imprinted PICKLE RELATED 2 gene suppress seed abortion of fertilization independent seed class mutants and paternal excess interploidy crosses in Arabidopsis, Plant J., 90, 383, 10.1111/tpj.13500
Huh, 2008, Cellular programming of plant gene imprinting, Cell, 132, 735, 10.1016/j.cell.2008.02.018
Ibarra, 2012, Active DNA demethylation in plant companion cells reinforces transposon methylation in gametes, Science, 337, 1360, 10.1126/science.1224839
Klosinska, 2016, Conserved imprinting associated with unique epigenetic signatures in the Arabidopsis genus, Nat. Plants, 2, 16145, 10.1038/nplants.2016.145
Kradolfer, 2013, An imprinted gene underlies postzygotic reproductive isolation in Arabidopsis thaliana, Dev. Cell, 26, 525, 10.1016/j.devcel.2013.08.006
Langmead, 2009, Ultrafast and memory-efficient alignment of short DNA sequences to the human genome, Genome Biol., 10, R25, 10.1186/gb-2009-10-3-r25
Lin, 1984, Ploidy barrier to endosperm development in maize, Genetics, 107, 103, 10.1093/genetics/107.1.103
Love, 2014, Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2, Genome Biol., 15, 550, 10.1186/s13059-014-0550-8
Martin, 2011, Cutadapt removes adapter sequences from high-throughput sequencing reads, EMBnet.journal, 17, 10, 10.14806/ej.17.1.200
Matzke, 2014, RNA-directed DNA methylation: an epigenetic pathway of increasing complexity, Nat. Rev. Genet., 15, 394, 10.1038/nrg3683
Moreno-Romero, 2016, Parental epigenetic asymmetry of PRC2-mediated histone modifications in the Arabidopsis endosperm, EMBO J., 35, 1298, 10.15252/embj.201593534
Mosher, 2009, Uniparental expression of PolIV-dependent siRNAs in developing endosperm of Arabidopsis, Nature, 460, 283, 10.1038/nature08084
Onodera, 2005, Plant nuclear RNA polymerase IV mediates siRNA and DNA methylation-dependent heterochromatin formation, Cell, 120, 613, 10.1016/j.cell.2005.02.007
Pennington, 2008, When genomes collide: aberrant seed development following maize interploidy crosses, Ann. Bot., 101, 833, 10.1093/aob/mcn017
Pignatta, 2014, Natural epigenetic polymorphisms lead to intraspecific variation in Arabidopsis gene imprinting, eLife, 3, e03198, 10.7554/eLife.03198
Pillot, 2010, Embryo and endosperm inherit distinct chromatin and transcriptional states from the female gametes in Arabidopsis, Plant Cell, 22, 307, 10.1105/tpc.109.071647
Rodrigues, 2013, Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm, Proc. Natl. Acad. Sci. USA, 110, 7934, 10.1073/pnas.1306164110
Schatlowski, 2014, Hypomethylated pollen bypasses the interploidy hybridization barrier in Arabidopsis, Plant Cell, 26, 3556, 10.1105/tpc.114.130120
Schon, 2017, Widespread contamination of Arabidopsis embryo and endosperm transcriptome data sets, Plant Cell, 29, 608, 10.1105/tpc.16.00845
Scott, 1998, Parent-of-origin effects on seed development in Arabidopsis thaliana, Development, 125, 3329, 10.1242/dev.125.17.3329
Vu, 2013, RNA-directed DNA methylation regulates parental genomic imprinting at several loci in Arabidopsis, Development, 140, 2953, 10.1242/dev.092981
Wolff, 2015, Paternally expressed imprinted genes establish postzygotic hybridization barriers in Arabidopsis thaliana, eLife, 4, 10074, 10.7554/eLife.10074
Xin, 2014, Dynamic parent-of-origin effects on small interfering RNA expression in the developing maize endosperm, BMC Plant Biol., 14, 192, 10.1186/s12870-014-0192-8
Yang, 2017, The developmental regulator PKL is required to maintain correct DNA methylation patterns at RNA-directed DNA methylation loci, Genome Biol., 18, 103, 10.1186/s13059-017-1226-y
Zhang, 2014, Genome-wide high resolution parental-specific DNA and histone methylation maps uncover patterns of imprinting regulation in maize, Genome Res., 24, 167, 10.1101/gr.155879.113