The Aegilops tauschii genome reveals multiple impacts of transposons
Wheat is an important global crop with an extremely large and complex genome that contains more transposable elements (TEs) than any other known crop species. Here, we generated a chromosome-scale, high-quality reference genome of Aegilops tauschii , the donor of the wheat D genome, in which 92.5% s...
Gespeichert in:
| Veröffentlicht in: | Nature plants 2017-12, Vol.3 (12), p.946-955 |
|---|---|
| Hauptverfasser: | , , , , , , , , , , , , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 955 |
|---|---|
| container_issue | 12 |
| container_start_page | 946 |
| container_title | Nature plants |
| container_volume | 3 |
| creator | Zhao, Guangyao Zou, Cheng Li, Kui Wang, Kai Li, Tianbao Gao, Lifeng Zhang, Xiaoxia Wang, Hongjin Yang, Zujun Liu, Xu Jiang, Wenkai Mao, Long Kong, Xiuying Jiao, Yuannian Jia, Jizeng |
| description | Wheat is an important global crop with an extremely large and complex genome that contains more transposable elements (TEs) than any other known crop species. Here, we generated a chromosome-scale, high-quality reference genome of
Aegilops tauschii
, the donor of the wheat D genome, in which 92.5% sequences have been anchored to chromosomes. Using this assembly, we accurately characterized genic loci, gene expression, pseudogenes, methylation, recombination ratios, microRNAs and especially TEs on chromosomes. In addition to the discovery of a wave of very recent gene duplications, we detected that TEs occurred in about half of the genes, and found that such genes are expressed at lower levels than those without TEs, presumably because of their elevated methylation levels. We mapped all wheat molecular markers and constructed a high-resolution integrated genetic map corresponding to genome sequences, thereby placing previously detected agronomically important genes/quantitative trait loci (QTLs) on the
Ae. tauschii
genome for the first time.
The wild grass
Aegilops tauschii
is a wheat progenitor. A high-quality genome sequence, along with methylome and transcriptome data, provides insights on domestication and the effect of transposons, and offers a resource for wheat improvement. |
| doi_str_mv | 10.1038/s41477-017-0067-8 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_1967000391</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2675275232</sourcerecordid><originalsourceid>FETCH-LOGICAL-c509t-bdd731cf023c5b74e1eecf44e66a1e8eb4d681eec2e776037e384f4828c019c43</originalsourceid><addsrcrecordid>eNp9kV1LwzAUhoMobsz9AG-k4I031XwnvRzzEwbezOvQZadbR9vUpBX892Z0fiAoJOSQ85w3OedF6Jzga4KZvgmccKVSTOLGUqX6CI0pFiLFVOnjH_EITUPYYRxJIZjEp2hEMyK04HKMbpdbSGawKSvXhqTL-2C3ZZlsoHE1JB7eIK9CUvdVV7YVJGXd5rYLiSuSzudNaF1wTThDJ0XEYHo4J-jl_m45f0wXzw9P89kitQJnXbparxUjtsCUWbFSHAiALTgHKXMCGlZ8LfX-joJSEjMFTPOCa6otJpnlbIKuBt3Wu9ceQmfqMlioqrwB1wdDMqlinywjEb38he5c75v4O0OlEjQuRv-lCBOSSoplpMhAWe9C8FCY1pd17t8NwWbvhRm8MHHCZu-F0bHm4qDcr2pYf1V8Tj4CdABCTDUb8N9P_636AX7cknY</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2135626206</pqid></control><display><type>article</type><title>The Aegilops tauschii genome reveals multiple impacts of transposons</title><source>MEDLINE</source><source>SpringerLink Journals</source><creator>Zhao, Guangyao ; Zou, Cheng ; Li, Kui ; Wang, Kai ; Li, Tianbao ; Gao, Lifeng ; Zhang, Xiaoxia ; Wang, Hongjin ; Yang, Zujun ; Liu, Xu ; Jiang, Wenkai ; Mao, Long ; Kong, Xiuying ; Jiao, Yuannian ; Jia, Jizeng</creator><creatorcontrib>Zhao, Guangyao ; Zou, Cheng ; Li, Kui ; Wang, Kai ; Li, Tianbao ; Gao, Lifeng ; Zhang, Xiaoxia ; Wang, Hongjin ; Yang, Zujun ; Liu, Xu ; Jiang, Wenkai ; Mao, Long ; Kong, Xiuying ; Jiao, Yuannian ; Jia, Jizeng</creatorcontrib><description>Wheat is an important global crop with an extremely large and complex genome that contains more transposable elements (TEs) than any other known crop species. Here, we generated a chromosome-scale, high-quality reference genome of
Aegilops tauschii
, the donor of the wheat D genome, in which 92.5% sequences have been anchored to chromosomes. Using this assembly, we accurately characterized genic loci, gene expression, pseudogenes, methylation, recombination ratios, microRNAs and especially TEs on chromosomes. In addition to the discovery of a wave of very recent gene duplications, we detected that TEs occurred in about half of the genes, and found that such genes are expressed at lower levels than those without TEs, presumably because of their elevated methylation levels. We mapped all wheat molecular markers and constructed a high-resolution integrated genetic map corresponding to genome sequences, thereby placing previously detected agronomically important genes/quantitative trait loci (QTLs) on the
Ae. tauschii
genome for the first time.
The wild grass
Aegilops tauschii
is a wheat progenitor. A high-quality genome sequence, along with methylome and transcriptome data, provides insights on domestication and the effect of transposons, and offers a resource for wheat improvement.</description><identifier>ISSN: 2055-0278</identifier><identifier>EISSN: 2055-0278</identifier><identifier>DOI: 10.1038/s41477-017-0067-8</identifier><identifier>PMID: 29158546</identifier><language>eng</language><publisher>London: Nature Publishing Group UK</publisher><subject>631/1647/514/1948 ; 631/208/212/2305 ; 631/449/2492 ; Aegilops tauschii ; Biomedical and Life Sciences ; Chromosome Mapping ; Chromosomes ; Chromosomes, Plant ; DNA methylation ; DNA Transposable Elements ; Domestication ; Evolution, Molecular ; Gene expression ; Gene Expression Regulation, Plant ; Gene mapping ; Gene sequencing ; Genes ; Genetic Markers - genetics ; Genome, Plant ; Genomes ; Goat grass ; Life Sciences ; Methylation ; miRNA ; Nucleotide sequence ; Plant Sciences ; Poaceae - genetics ; Pseudogenes ; Quantitative Trait Loci ; Recombination ; Transcriptomes ; Transposons ; Wheat</subject><ispartof>Nature plants, 2017-12, Vol.3 (12), p.946-955</ispartof><rights>The Author(s) 2017</rights><rights>2017. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>The Author(s) 2017. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c509t-bdd731cf023c5b74e1eecf44e66a1e8eb4d681eec2e776037e384f4828c019c43</citedby><cites>FETCH-LOGICAL-c509t-bdd731cf023c5b74e1eecf44e66a1e8eb4d681eec2e776037e384f4828c019c43</cites><orcidid>0000-0002-3377-4040 ; 0000-0001-7447-395X ; 0000-0002-8987-2782 ; 0000-0001-8671-2145 ; 0000-0001-8863-3117</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1038/s41477-017-0067-8$$EPDF$$P50$$Gspringer$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1038/s41477-017-0067-8$$EHTML$$P50$$Gspringer$$Hfree_for_read</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/29158546$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Zhao, Guangyao</creatorcontrib><creatorcontrib>Zou, Cheng</creatorcontrib><creatorcontrib>Li, Kui</creatorcontrib><creatorcontrib>Wang, Kai</creatorcontrib><creatorcontrib>Li, Tianbao</creatorcontrib><creatorcontrib>Gao, Lifeng</creatorcontrib><creatorcontrib>Zhang, Xiaoxia</creatorcontrib><creatorcontrib>Wang, Hongjin</creatorcontrib><creatorcontrib>Yang, Zujun</creatorcontrib><creatorcontrib>Liu, Xu</creatorcontrib><creatorcontrib>Jiang, Wenkai</creatorcontrib><creatorcontrib>Mao, Long</creatorcontrib><creatorcontrib>Kong, Xiuying</creatorcontrib><creatorcontrib>Jiao, Yuannian</creatorcontrib><creatorcontrib>Jia, Jizeng</creatorcontrib><title>The Aegilops tauschii genome reveals multiple impacts of transposons</title><title>Nature plants</title><addtitle>Nature Plants</addtitle><addtitle>Nat Plants</addtitle><description>Wheat is an important global crop with an extremely large and complex genome that contains more transposable elements (TEs) than any other known crop species. Here, we generated a chromosome-scale, high-quality reference genome of
Aegilops tauschii
, the donor of the wheat D genome, in which 92.5% sequences have been anchored to chromosomes. Using this assembly, we accurately characterized genic loci, gene expression, pseudogenes, methylation, recombination ratios, microRNAs and especially TEs on chromosomes. In addition to the discovery of a wave of very recent gene duplications, we detected that TEs occurred in about half of the genes, and found that such genes are expressed at lower levels than those without TEs, presumably because of their elevated methylation levels. We mapped all wheat molecular markers and constructed a high-resolution integrated genetic map corresponding to genome sequences, thereby placing previously detected agronomically important genes/quantitative trait loci (QTLs) on the
Ae. tauschii
genome for the first time.
The wild grass
Aegilops tauschii
is a wheat progenitor. A high-quality genome sequence, along with methylome and transcriptome data, provides insights on domestication and the effect of transposons, and offers a resource for wheat improvement.</description><subject>631/1647/514/1948</subject><subject>631/208/212/2305</subject><subject>631/449/2492</subject><subject>Aegilops tauschii</subject><subject>Biomedical and Life Sciences</subject><subject>Chromosome Mapping</subject><subject>Chromosomes</subject><subject>Chromosomes, Plant</subject><subject>DNA methylation</subject><subject>DNA Transposable Elements</subject><subject>Domestication</subject><subject>Evolution, Molecular</subject><subject>Gene expression</subject><subject>Gene Expression Regulation, Plant</subject><subject>Gene mapping</subject><subject>Gene sequencing</subject><subject>Genes</subject><subject>Genetic Markers - genetics</subject><subject>Genome, Plant</subject><subject>Genomes</subject><subject>Goat grass</subject><subject>Life Sciences</subject><subject>Methylation</subject><subject>miRNA</subject><subject>Nucleotide sequence</subject><subject>Plant Sciences</subject><subject>Poaceae - genetics</subject><subject>Pseudogenes</subject><subject>Quantitative Trait Loci</subject><subject>Recombination</subject><subject>Transcriptomes</subject><subject>Transposons</subject><subject>Wheat</subject><issn>2055-0278</issn><issn>2055-0278</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2017</creationdate><recordtype>article</recordtype><sourceid>C6C</sourceid><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><recordid>eNp9kV1LwzAUhoMobsz9AG-k4I031XwnvRzzEwbezOvQZadbR9vUpBX892Z0fiAoJOSQ85w3OedF6Jzga4KZvgmccKVSTOLGUqX6CI0pFiLFVOnjH_EITUPYYRxJIZjEp2hEMyK04HKMbpdbSGawKSvXhqTL-2C3ZZlsoHE1JB7eIK9CUvdVV7YVJGXd5rYLiSuSzudNaF1wTThDJ0XEYHo4J-jl_m45f0wXzw9P89kitQJnXbparxUjtsCUWbFSHAiALTgHKXMCGlZ8LfX-joJSEjMFTPOCa6otJpnlbIKuBt3Wu9ceQmfqMlioqrwB1wdDMqlinywjEb38he5c75v4O0OlEjQuRv-lCBOSSoplpMhAWe9C8FCY1pd17t8NwWbvhRm8MHHCZu-F0bHm4qDcr2pYf1V8Tj4CdABCTDUb8N9P_636AX7cknY</recordid><startdate>20171201</startdate><enddate>20171201</enddate><creator>Zhao, Guangyao</creator><creator>Zou, Cheng</creator><creator>Li, Kui</creator><creator>Wang, Kai</creator><creator>Li, Tianbao</creator><creator>Gao, Lifeng</creator><creator>Zhang, Xiaoxia</creator><creator>Wang, Hongjin</creator><creator>Yang, Zujun</creator><creator>Liu, Xu</creator><creator>Jiang, Wenkai</creator><creator>Mao, Long</creator><creator>Kong, Xiuying</creator><creator>Jiao, Yuannian</creator><creator>Jia, Jizeng</creator><general>Nature Publishing Group UK</general><general>Nature Publishing Group</general><scope>C6C</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7SN</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>BKSAR</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>HCIFZ</scope><scope>PCBAR</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0002-3377-4040</orcidid><orcidid>https://orcid.org/0000-0001-7447-395X</orcidid><orcidid>https://orcid.org/0000-0002-8987-2782</orcidid><orcidid>https://orcid.org/0000-0001-8671-2145</orcidid><orcidid>https://orcid.org/0000-0001-8863-3117</orcidid></search><sort><creationdate>20171201</creationdate><title>The Aegilops tauschii genome reveals multiple impacts of transposons</title><author>Zhao, Guangyao ; Zou, Cheng ; Li, Kui ; Wang, Kai ; Li, Tianbao ; Gao, Lifeng ; Zhang, Xiaoxia ; Wang, Hongjin ; Yang, Zujun ; Liu, Xu ; Jiang, Wenkai ; Mao, Long ; Kong, Xiuying ; Jiao, Yuannian ; Jia, Jizeng</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c509t-bdd731cf023c5b74e1eecf44e66a1e8eb4d681eec2e776037e384f4828c019c43</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2017</creationdate><topic>631/1647/514/1948</topic><topic>631/208/212/2305</topic><topic>631/449/2492</topic><topic>Aegilops tauschii</topic><topic>Biomedical and Life Sciences</topic><topic>Chromosome Mapping</topic><topic>Chromosomes</topic><topic>Chromosomes, Plant</topic><topic>DNA methylation</topic><topic>DNA Transposable Elements</topic><topic>Domestication</topic><topic>Evolution, Molecular</topic><topic>Gene expression</topic><topic>Gene Expression Regulation, Plant</topic><topic>Gene mapping</topic><topic>Gene sequencing</topic><topic>Genes</topic><topic>Genetic Markers - genetics</topic><topic>Genome, Plant</topic><topic>Genomes</topic><topic>Goat grass</topic><topic>Life Sciences</topic><topic>Methylation</topic><topic>miRNA</topic><topic>Nucleotide sequence</topic><topic>Plant Sciences</topic><topic>Poaceae - genetics</topic><topic>Pseudogenes</topic><topic>Quantitative Trait Loci</topic><topic>Recombination</topic><topic>Transcriptomes</topic><topic>Transposons</topic><topic>Wheat</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Zhao, Guangyao</creatorcontrib><creatorcontrib>Zou, Cheng</creatorcontrib><creatorcontrib>Li, Kui</creatorcontrib><creatorcontrib>Wang, Kai</creatorcontrib><creatorcontrib>Li, Tianbao</creatorcontrib><creatorcontrib>Gao, Lifeng</creatorcontrib><creatorcontrib>Zhang, Xiaoxia</creatorcontrib><creatorcontrib>Wang, Hongjin</creatorcontrib><creatorcontrib>Yang, Zujun</creatorcontrib><creatorcontrib>Liu, Xu</creatorcontrib><creatorcontrib>Jiang, Wenkai</creatorcontrib><creatorcontrib>Mao, Long</creatorcontrib><creatorcontrib>Kong, Xiuying</creatorcontrib><creatorcontrib>Jiao, Yuannian</creatorcontrib><creatorcontrib>Jia, Jizeng</creatorcontrib><collection>Springer Nature OA/Free Journals</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Ecology Abstracts</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>Earth, Atmospheric & Aquatic Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>SciTech Premium Collection</collection><collection>Earth, Atmospheric & Aquatic Science Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>MEDLINE - Academic</collection><jtitle>Nature plants</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Zhao, Guangyao</au><au>Zou, Cheng</au><au>Li, Kui</au><au>Wang, Kai</au><au>Li, Tianbao</au><au>Gao, Lifeng</au><au>Zhang, Xiaoxia</au><au>Wang, Hongjin</au><au>Yang, Zujun</au><au>Liu, Xu</au><au>Jiang, Wenkai</au><au>Mao, Long</au><au>Kong, Xiuying</au><au>Jiao, Yuannian</au><au>Jia, Jizeng</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>The Aegilops tauschii genome reveals multiple impacts of transposons</atitle><jtitle>Nature plants</jtitle><stitle>Nature Plants</stitle><addtitle>Nat Plants</addtitle><date>2017-12-01</date><risdate>2017</risdate><volume>3</volume><issue>12</issue><spage>946</spage><epage>955</epage><pages>946-955</pages><issn>2055-0278</issn><eissn>2055-0278</eissn><abstract>Wheat is an important global crop with an extremely large and complex genome that contains more transposable elements (TEs) than any other known crop species. Here, we generated a chromosome-scale, high-quality reference genome of
Aegilops tauschii
, the donor of the wheat D genome, in which 92.5% sequences have been anchored to chromosomes. Using this assembly, we accurately characterized genic loci, gene expression, pseudogenes, methylation, recombination ratios, microRNAs and especially TEs on chromosomes. In addition to the discovery of a wave of very recent gene duplications, we detected that TEs occurred in about half of the genes, and found that such genes are expressed at lower levels than those without TEs, presumably because of their elevated methylation levels. We mapped all wheat molecular markers and constructed a high-resolution integrated genetic map corresponding to genome sequences, thereby placing previously detected agronomically important genes/quantitative trait loci (QTLs) on the
Ae. tauschii
genome for the first time.
The wild grass
Aegilops tauschii
is a wheat progenitor. A high-quality genome sequence, along with methylome and transcriptome data, provides insights on domestication and the effect of transposons, and offers a resource for wheat improvement.</abstract><cop>London</cop><pub>Nature Publishing Group UK</pub><pmid>29158546</pmid><doi>10.1038/s41477-017-0067-8</doi><tpages>10</tpages><orcidid>https://orcid.org/0000-0002-3377-4040</orcidid><orcidid>https://orcid.org/0000-0001-7447-395X</orcidid><orcidid>https://orcid.org/0000-0002-8987-2782</orcidid><orcidid>https://orcid.org/0000-0001-8671-2145</orcidid><orcidid>https://orcid.org/0000-0001-8863-3117</orcidid><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 2055-0278 |
| ispartof | Nature plants, 2017-12, Vol.3 (12), p.946-955 |
| issn | 2055-0278 2055-0278 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_1967000391 |
| source | MEDLINE; SpringerLink Journals |
| subjects | 631/1647/514/1948 631/208/212/2305 631/449/2492 Aegilops tauschii Biomedical and Life Sciences Chromosome Mapping Chromosomes Chromosomes, Plant DNA methylation DNA Transposable Elements Domestication Evolution, Molecular Gene expression Gene Expression Regulation, Plant Gene mapping Gene sequencing Genes Genetic Markers - genetics Genome, Plant Genomes Goat grass Life Sciences Methylation miRNA Nucleotide sequence Plant Sciences Poaceae - genetics Pseudogenes Quantitative Trait Loci Recombination Transcriptomes Transposons Wheat |
| title | The Aegilops tauschii genome reveals multiple impacts of transposons |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-06T05%3A14%3A58IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=The%20Aegilops%20tauschii%20genome%20reveals%20multiple%20impacts%20of%20transposons&rft.jtitle=Nature%20plants&rft.au=Zhao,%20Guangyao&rft.date=2017-12-01&rft.volume=3&rft.issue=12&rft.spage=946&rft.epage=955&rft.pages=946-955&rft.issn=2055-0278&rft.eissn=2055-0278&rft_id=info:doi/10.1038/s41477-017-0067-8&rft_dat=%3Cproquest_cross%3E2675275232%3C/proquest_cross%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=2135626206&rft_id=info:pmid/29158546&rfr_iscdi=true |