Retrotranspositional landscape of Asian rice revealed by 3000 genomes

scientific article published in Nature Communications

Retrotranspositional landscape of Asian rice revealed by 3000 genomes is …
instance of (P31):
scholarly articleQ13442814

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P819ADS bibcode2019NatCo..10...24C
P356DOI10.1038/S41467-018-07974-5
P932PMC publication ID6318337
P698PubMed publication ID30604755

P50authorOlivier PanaudQ28359560
P2093author name stringYue-Ie Hsing
Christel Llauro
Emilie Debladis
Marie-Christine Carpentier
Roland Akakpo
Hshin-Ping Wu
Fu-Jin Wei
Ernandes Manfroi
Eric Lasserre
P2860cites workBLAST+: architecture and applicationsQ21284368
Doubling genome size without polyploidization: dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of riceQ22065740
A map of rice genome variation reveals the origin of cultivated riceQ22122144
Phylogeography of Asian wild rice, Oryza rufipogon, reveals multiple independent domestications of cultivated rice, Oryza sativaQ24548347
Retrotransposons control fruit-specific, cold-dependent accumulation of anthocyanins in blood orangesQ24633395
RetrOryza: a database of the rice LTR-retrotransposonsQ24674133
Rice epigenomics and epigenetics: challenges and opportunitiesQ26809976
Fast gapped-read alignment with Bowtie 2Q27860699
Evolution of plant genome architectureQ28080343
The Arabidopsis thaliana mobilome and its impact at the species levelQ28600842
A unified classification system for eukaryotic transposable elementsQ29617222
The map-based sequence of the rice genomeQ29617329
A new gypsy-type retrotransposon, RIRE7: preferential insertion into the tandem repeat sequence TrsD in pericentromeric heterochromatin regions of rice chromosomesQ30992421
Characterization of transposable elements in the genome of rice (Oryza sativa L.) using Representational Difference Analysis (RDA).Q31109960
The 3,000 rice genomes projectQ33672313
Archaeological and genetic insights into the origins of domesticated riceQ33674218
Transpositional landscape of the rice genome revealed by paired-end mapping of high-throughput re-sequencing data.Q33789481
Regulatory activities of transposable elements: from conflicts to benefitsQ33874818
Detection of active transposable elements in Arabidopsis thaliana using Oxford Nanopore Sequencing technologyQ33910497
Rice domestication by reducing shatteringQ33994027
BreakDancer: Identification of Genomic Structural Variation from Paired-End Read MappingQ34068809
Two-step regulation and continuous retrotransposition of the rice LINE-type retrotransposon KarmaQ34219557
Regulatory evolution of innate immunity through co-option of endogenous retrovirusesQ34516863
The industrial melanism mutation in British peppered moths is a transposable elementQ34529231
Euchromatin and pericentromeric heterochromatin: comparative composition in the tomato genomeQ34588647
Whole genome de novo assemblies of three divergent strains of rice, Oryza sativa, document novel gene space of aus and indicaQ34720742
Transposable elements and the evolution of genome size in eukaryotesQ34790131
Variance component model to account for sample structure in genome-wide association studiesQ34971144
Using rice to understand the origin and amplification of miniature inverted repeat transposable elements (MITEs).Q35683367
RiTE database: a resource database for genus-wide rice genomics and evolutionary biologyQ35701039
Jitterbug: somatic and germline transposon insertion detection at single-nucleotide resolution.Q35804220
LTR retrotransposons and flowering plant genome size: emergence of the increase/decrease modelQ36225278
Three geographically separate domestications of Asian riceQ36988158
Discovery and genotyping of genome structural polymorphism by sequencing on a population scaleQ37390913
Retrotransposons of rice involved in mutations induced by tissue cultureQ37440375
Rapid recent growth and divergence of rice nuclear genomesQ37493782
Population scale mapping of transposable element diversity reveals links to gene regulation and epigenomic variationQ37515750
Rice SNP-seek database update: new SNPs, indels, and queriesQ37556903
A "mille-feuille" of silencing: epigenetic control of transposable elementsQ37868208
Population genomics of transposable elements in Drosophila.Q38257834
Mappability and read lengthQ38271591
Transposable Element Domestication As an Adaptation to Evolutionary ConflictsQ40068943
Transposon-mediated rewiring of gene regulatory networks contributed to the evolution of pregnancy in mammals.Q42772867
Use of Next Generation Sequencing (NGS) technologies for the genome-wide detection of transpositionQ45802121
Genomic paleontology provides evidence for two distinct origins of Asian rice (Oryza sativa L.).Q47312431
The paleontology of intergene retrotransposons of maizeQ47750190
Genomic variation in 3,010 diverse accessions of Asian cultivated rice.Q52309448
Genome Size Diversity and Evolution in Land PlantsQ57067590
Formation of Solo-LTRs Through Unequal Homologous Recombination Counterbalances Amplifications of LTR Retrotransposons in Rice Oryza sativa LQ62965863
Identification of an active LTR retrotransposon in rice.Q64966869
Retrotransposon-induced mutations in grape skin colorQ80088027
LTR retrotransposons, handy hitchhikers of plant regulation and stress responseQ87489914
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P433issue1
P407language of work or nameEnglishQ1860
P304page(s)24
P577publication date2019-01-03
P1433published inNature CommunicationsQ573880
P1476titleRetrotranspositional landscape of Asian rice revealed by 3000 genomes
P478volume10

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cites work (P2860)
Q92358544A benchmark of transposon insertion detection tools using real data
Q98735761Genomics of Evolutionary Novelty in Hybrids and Polyploids
Q89530775Nanopore sequencing-based genome assembly and evolutionary genomics of circum-basmati rice
Q92758515On the Importance to Acknowledge Transposable Elements in Epigenomic Analyses
Q91671496Stowaway miniature inverted repeat transposable elements are important agents driving recent genomic diversity in wild and cultivated carrot
Q92539108The Landscape of Copia and Gypsy Retrotransposon During Maize Domestication and Improvement

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