Epigenetic map and genetic map basis of complex traits in cassava population
Cassava ( Manihot esculenta Crantz) is an important tropical starchy root crop that is adapted to drought but extremely cold sensitive. A cold-tolerant, high-quality, and robust supply of cassava is urgently needed. Here, we clarify genome-wide distribution and classification of CCGG hemi-methylatio...
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| Veröffentlicht in: | Scientific reports 2017-01, Vol.7 (1), p.41232-41232, Article 41232 |
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| creator | Zou, Meiling Lu, Cheng Zhang, Shengkui Chen, Qing Sun, Xianglai Ma, Pingan Hu, Meizhen Peng, Ming Ma, Zilong Chen, Xin Zhou, Xincheng Wang, Haiyan Feng, Subin Fang, Kaixin Xie, Hairong Li, Zaiyun Liu, Kede Qin, Qiongyao Pei, Jinli Wang, Shujuan Pan, Kun Hu, Wenbin Feng, Binxiao Fan, Dayong Zhou, Bin Wu, Chunling Su, Ming Xia, Zhiqiang Li, Kaimian Wang, Wenquan |
| description | Cassava (
Manihot esculenta
Crantz) is an important tropical starchy root crop that is adapted to drought but extremely cold sensitive. A cold-tolerant, high-quality, and robust supply of cassava is urgently needed. Here, we clarify genome-wide distribution and classification of CCGG hemi-methylation and full-methylation, and detected 77 much candidate QTLs
epi
for cold stress and 103 much candidate QTLs
epi
for storage root quality and yield in 186 cassava population, generated by crossing two non-inbred lines with female parent KU50 and male parent SC124 (KS population). We developed amplified-fragment single nucleotide polymorphism and methylation (AFSM) genetic map in this population. We also constructed the AFSM QTL map, identified 260 much candidate QTL genes for cold stress and 301 much candidate QTL genes for storage root quality and yield, based on the years greenhouse and field trials. This may accounted for a significant amount of the variation in the key traits controlling cold tolerance and the high quality and yield of cassava. |
| doi_str_mv | 10.1038/srep41232 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_5264614</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>1899477043</sourcerecordid><originalsourceid>FETCH-LOGICAL-c438t-83b36e249bd01b6569328ad43f16c5e8ebd8107c47ddc073eb1d3e01a0bba2843</originalsourceid><addsrcrecordid>eNplkV1LwzAUhoMoTuYu_AMS8EaFab7apjeCjPkBA2_0OiRpOjPapDbt0H9vxuaoGg7kHM7Dmze8AJxhdIMR5behNQ3DhJIDcEIQS6axJYeDfgQmIaxQPAnJGc6PwYhwTBDP-QlYzBu7NM50VsNaNlC6Ag5nJYMN0JdQ-7qpzCfsWmm7AK2DWoYg1xI2vukr2VnvTsFRKatgJrt7DN4e5q-zp-ni5fF5dr-YakZ5N-VU0dQQlqsCYZUmaU4JlwWjJU51YrhRBcco0ywrCo0yahQuqEFYIqUk4YyOwd1Wt-lVbQptXHRViaa1tWy_hJdW_N44-y6Wfi0SkrIUbwQudwKt_-hN6ERtgzZVJZ3xfRCYp5vKcRbRiz_oyveti9-LVJ6zLEOMRupqS-nWh5hIuTeDkdjEJPYxRfZ86H5P_oQSgestEOLKLU07ePKf2jdML5wr</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>1899477043</pqid></control><display><type>article</type><title>Epigenetic map and genetic map basis of complex traits in cassava population</title><source>Nature Open Access</source><source>DOAJ Directory of Open Access Journals</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><source>PubMed Central</source><source>Springer Nature OA/Free Journals</source><source>Free Full-Text Journals in Chemistry</source><creator>Zou, Meiling ; Lu, Cheng ; Zhang, Shengkui ; Chen, Qing ; Sun, Xianglai ; Ma, Pingan ; Hu, Meizhen ; Peng, Ming ; Ma, Zilong ; Chen, Xin ; Zhou, Xincheng ; Wang, Haiyan ; Feng, Subin ; Fang, Kaixin ; Xie, Hairong ; Li, Zaiyun ; Liu, Kede ; Qin, Qiongyao ; Pei, Jinli ; Wang, Shujuan ; Pan, Kun ; Hu, Wenbin ; Feng, Binxiao ; Fan, Dayong ; Zhou, Bin ; Wu, Chunling ; Su, Ming ; Xia, Zhiqiang ; Li, Kaimian ; Wang, Wenquan</creator><creatorcontrib>Zou, Meiling ; Lu, Cheng ; Zhang, Shengkui ; Chen, Qing ; Sun, Xianglai ; Ma, Pingan ; Hu, Meizhen ; Peng, Ming ; Ma, Zilong ; Chen, Xin ; Zhou, Xincheng ; Wang, Haiyan ; Feng, Subin ; Fang, Kaixin ; Xie, Hairong ; Li, Zaiyun ; Liu, Kede ; Qin, Qiongyao ; Pei, Jinli ; Wang, Shujuan ; Pan, Kun ; Hu, Wenbin ; Feng, Binxiao ; Fan, Dayong ; Zhou, Bin ; Wu, Chunling ; Su, Ming ; Xia, Zhiqiang ; Li, Kaimian ; Wang, Wenquan</creatorcontrib><description>Cassava (
Manihot esculenta
Crantz) is an important tropical starchy root crop that is adapted to drought but extremely cold sensitive. A cold-tolerant, high-quality, and robust supply of cassava is urgently needed. Here, we clarify genome-wide distribution and classification of CCGG hemi-methylation and full-methylation, and detected 77 much candidate QTLs
epi
for cold stress and 103 much candidate QTLs
epi
for storage root quality and yield in 186 cassava population, generated by crossing two non-inbred lines with female parent KU50 and male parent SC124 (KS population). We developed amplified-fragment single nucleotide polymorphism and methylation (AFSM) genetic map in this population. We also constructed the AFSM QTL map, identified 260 much candidate QTL genes for cold stress and 301 much candidate QTL genes for storage root quality and yield, based on the years greenhouse and field trials. This may accounted for a significant amount of the variation in the key traits controlling cold tolerance and the high quality and yield of cassava.</description><identifier>ISSN: 2045-2322</identifier><identifier>EISSN: 2045-2322</identifier><identifier>DOI: 10.1038/srep41232</identifier><identifier>PMID: 28120898</identifier><language>eng</language><publisher>London: Nature Publishing Group UK</publisher><subject>45/91 ; 631/337/176/1988 ; 631/61/212/177 ; Cassava ; Classification ; Cold tolerance ; DNA methylation ; Drought ; Epigenetics ; Gene polymorphism ; Genomes ; Humanities and Social Sciences ; Inbreeding ; Manihot esculenta ; Methylation ; multidisciplinary ; Population ; Population genetics ; Quantitative trait loci ; Science ; Single-nucleotide polymorphism</subject><ispartof>Scientific reports, 2017-01, Vol.7 (1), p.41232-41232, Article 41232</ispartof><rights>The Author(s) 2017</rights><rights>Copyright Nature Publishing Group Jan 2017</rights><rights>Copyright © 2017, The Author(s) 2017 The Author(s)</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c438t-83b36e249bd01b6569328ad43f16c5e8ebd8107c47ddc073eb1d3e01a0bba2843</citedby><cites>FETCH-LOGICAL-c438t-83b36e249bd01b6569328ad43f16c5e8ebd8107c47ddc073eb1d3e01a0bba2843</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5264614/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5264614/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,315,729,782,786,866,887,27931,27932,41127,42196,51583,53798,53800</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/28120898$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Zou, Meiling</creatorcontrib><creatorcontrib>Lu, Cheng</creatorcontrib><creatorcontrib>Zhang, Shengkui</creatorcontrib><creatorcontrib>Chen, Qing</creatorcontrib><creatorcontrib>Sun, Xianglai</creatorcontrib><creatorcontrib>Ma, Pingan</creatorcontrib><creatorcontrib>Hu, Meizhen</creatorcontrib><creatorcontrib>Peng, Ming</creatorcontrib><creatorcontrib>Ma, Zilong</creatorcontrib><creatorcontrib>Chen, Xin</creatorcontrib><creatorcontrib>Zhou, Xincheng</creatorcontrib><creatorcontrib>Wang, Haiyan</creatorcontrib><creatorcontrib>Feng, Subin</creatorcontrib><creatorcontrib>Fang, Kaixin</creatorcontrib><creatorcontrib>Xie, Hairong</creatorcontrib><creatorcontrib>Li, Zaiyun</creatorcontrib><creatorcontrib>Liu, Kede</creatorcontrib><creatorcontrib>Qin, Qiongyao</creatorcontrib><creatorcontrib>Pei, Jinli</creatorcontrib><creatorcontrib>Wang, Shujuan</creatorcontrib><creatorcontrib>Pan, Kun</creatorcontrib><creatorcontrib>Hu, Wenbin</creatorcontrib><creatorcontrib>Feng, Binxiao</creatorcontrib><creatorcontrib>Fan, Dayong</creatorcontrib><creatorcontrib>Zhou, Bin</creatorcontrib><creatorcontrib>Wu, Chunling</creatorcontrib><creatorcontrib>Su, Ming</creatorcontrib><creatorcontrib>Xia, Zhiqiang</creatorcontrib><creatorcontrib>Li, Kaimian</creatorcontrib><creatorcontrib>Wang, Wenquan</creatorcontrib><title>Epigenetic map and genetic map basis of complex traits in cassava population</title><title>Scientific reports</title><addtitle>Sci Rep</addtitle><addtitle>Sci Rep</addtitle><description>Cassava (
Manihot esculenta
Crantz) is an important tropical starchy root crop that is adapted to drought but extremely cold sensitive. A cold-tolerant, high-quality, and robust supply of cassava is urgently needed. Here, we clarify genome-wide distribution and classification of CCGG hemi-methylation and full-methylation, and detected 77 much candidate QTLs
epi
for cold stress and 103 much candidate QTLs
epi
for storage root quality and yield in 186 cassava population, generated by crossing two non-inbred lines with female parent KU50 and male parent SC124 (KS population). We developed amplified-fragment single nucleotide polymorphism and methylation (AFSM) genetic map in this population. We also constructed the AFSM QTL map, identified 260 much candidate QTL genes for cold stress and 301 much candidate QTL genes for storage root quality and yield, based on the years greenhouse and field trials. This may accounted for a significant amount of the variation in the key traits controlling cold tolerance and the high quality and yield of cassava.</description><subject>45/91</subject><subject>631/337/176/1988</subject><subject>631/61/212/177</subject><subject>Cassava</subject><subject>Classification</subject><subject>Cold tolerance</subject><subject>DNA methylation</subject><subject>Drought</subject><subject>Epigenetics</subject><subject>Gene polymorphism</subject><subject>Genomes</subject><subject>Humanities and Social Sciences</subject><subject>Inbreeding</subject><subject>Manihot esculenta</subject><subject>Methylation</subject><subject>multidisciplinary</subject><subject>Population</subject><subject>Population genetics</subject><subject>Quantitative trait loci</subject><subject>Science</subject><subject>Single-nucleotide 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Ma, Pingan ; Hu, Meizhen ; Peng, Ming ; Ma, Zilong ; Chen, Xin ; Zhou, Xincheng ; Wang, Haiyan ; Feng, Subin ; Fang, Kaixin ; Xie, Hairong ; Li, Zaiyun ; Liu, Kede ; Qin, Qiongyao ; Pei, Jinli ; Wang, Shujuan ; Pan, Kun ; Hu, Wenbin ; Feng, Binxiao ; Fan, Dayong ; Zhou, Bin ; Wu, Chunling ; Su, Ming ; Xia, Zhiqiang ; Li, Kaimian ; Wang, Wenquan</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c438t-83b36e249bd01b6569328ad43f16c5e8ebd8107c47ddc073eb1d3e01a0bba2843</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2017</creationdate><topic>45/91</topic><topic>631/337/176/1988</topic><topic>631/61/212/177</topic><topic>Cassava</topic><topic>Classification</topic><topic>Cold tolerance</topic><topic>DNA methylation</topic><topic>Drought</topic><topic>Epigenetics</topic><topic>Gene polymorphism</topic><topic>Genomes</topic><topic>Humanities and Social 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Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Zou, Meiling</au><au>Lu, Cheng</au><au>Zhang, Shengkui</au><au>Chen, Qing</au><au>Sun, Xianglai</au><au>Ma, Pingan</au><au>Hu, Meizhen</au><au>Peng, Ming</au><au>Ma, Zilong</au><au>Chen, Xin</au><au>Zhou, Xincheng</au><au>Wang, Haiyan</au><au>Feng, Subin</au><au>Fang, Kaixin</au><au>Xie, Hairong</au><au>Li, Zaiyun</au><au>Liu, Kede</au><au>Qin, Qiongyao</au><au>Pei, Jinli</au><au>Wang, Shujuan</au><au>Pan, Kun</au><au>Hu, Wenbin</au><au>Feng, Binxiao</au><au>Fan, Dayong</au><au>Zhou, Bin</au><au>Wu, Chunling</au><au>Su, Ming</au><au>Xia, Zhiqiang</au><au>Li, Kaimian</au><au>Wang, Wenquan</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Epigenetic map and genetic map basis of complex traits in cassava population</atitle><jtitle>Scientific reports</jtitle><stitle>Sci Rep</stitle><addtitle>Sci Rep</addtitle><date>2017-01-25</date><risdate>2017</risdate><volume>7</volume><issue>1</issue><spage>41232</spage><epage>41232</epage><pages>41232-41232</pages><artnum>41232</artnum><issn>2045-2322</issn><eissn>2045-2322</eissn><abstract>Cassava (
Manihot esculenta
Crantz) is an important tropical starchy root crop that is adapted to drought but extremely cold sensitive. A cold-tolerant, high-quality, and robust supply of cassava is urgently needed. Here, we clarify genome-wide distribution and classification of CCGG hemi-methylation and full-methylation, and detected 77 much candidate QTLs
epi
for cold stress and 103 much candidate QTLs
epi
for storage root quality and yield in 186 cassava population, generated by crossing two non-inbred lines with female parent KU50 and male parent SC124 (KS population). We developed amplified-fragment single nucleotide polymorphism and methylation (AFSM) genetic map in this population. We also constructed the AFSM QTL map, identified 260 much candidate QTL genes for cold stress and 301 much candidate QTL genes for storage root quality and yield, based on the years greenhouse and field trials. This may accounted for a significant amount of the variation in the key traits controlling cold tolerance and the high quality and yield of cassava.</abstract><cop>London</cop><pub>Nature Publishing Group UK</pub><pmid>28120898</pmid><doi>10.1038/srep41232</doi><tpages>1</tpages><oa>free_for_read</oa></addata></record> |
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| source | Nature Open Access; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central; Springer Nature OA/Free Journals; Free Full-Text Journals in Chemistry |
| subjects | 45/91 631/337/176/1988 631/61/212/177 Cassava Classification Cold tolerance DNA methylation Drought Epigenetics Gene polymorphism Genomes Humanities and Social Sciences Inbreeding Manihot esculenta Methylation multidisciplinary Population Population genetics Quantitative trait loci Science Single-nucleotide polymorphism |
| title | Epigenetic map and genetic map basis of complex traits in cassava population |
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