Genome-wide identification and characterization of nonspecific lipid transfer protein (nsLTP) genes in Arachis duranensis
Nonspecific lipid transfer proteins (nsLTPs) play vital roles in lipid metabolism, cell apoptosis and biotic and abiotic stresses in plants. However, the distribution of nsLTPs in Arachis duranensis has not been fully characterized. In this study, we identified 64 nsLTP genes in A. duranensis (desig...
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Veröffentlicht in: | Genomics (San Diego, Calif.) Calif.), 2020-11, Vol.112 (6), p.4332-4341 |
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creator | Song, Xiaojun Li, Enguang Song, Hui Du, Guoning Li, Shuai Zhu, Hong Chen, Guanxu Zhao, Chunmei Qiao, Lixian Wang, Jingshan Yu, Shanlin Sui, Jiong-ming |
description | Nonspecific lipid transfer proteins (nsLTPs) play vital roles in lipid metabolism, cell apoptosis and biotic and abiotic stresses in plants. However, the distribution of nsLTPs in Arachis duranensis has not been fully characterized. In this study, we identified 64 nsLTP genes in A. duranensis (designated AdLTPs), which were classified into six subfamilies and randomly distributed along nine chromosomes. Tandem and segmental duplication events were detected in the evolution of AdLTPs. The Ks and ω values differed significantly between Types 1 and D subfamilies, and eight AdLTPs were under positive selection. The expression levels of AdLTPs were changed after salinity, PEG, low-temperature and ABA treatments. Three AdLTPs were associated with resistance to nematode infection, and DOF and WRI1 transcription factors may regulate the AdLTP response to nematode infection. Our results may provide valuable genomic information for the breeding of peanut cultivars that are resistant to biotic and abiotic stresses.
•AdLTPs were classified into 6 subfamilies and were randomly distributed along 9 chromosomes.•The tandem and segmental duplication events were detected in the evolution of AdLTPs.•The Ks and ω values were significantly different between Type 1 and D subfamilies.•The expression level of AdLTPs was changed after salinity, PEG, low temperature and ABA treatments.•DOF and WRI1 transcription factors may regulate the AdLTP response to nematode infection. |
doi_str_mv | 10.1016/j.ygeno.2020.07.034 |
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•AdLTPs were classified into 6 subfamilies and were randomly distributed along 9 chromosomes.•The tandem and segmental duplication events were detected in the evolution of AdLTPs.•The Ks and ω values were significantly different between Type 1 and D subfamilies.•The expression level of AdLTPs was changed after salinity, PEG, low temperature and ABA treatments.•DOF and WRI1 transcription factors may regulate the AdLTP response to nematode infection.</description><identifier>ISSN: 0888-7543</identifier><identifier>EISSN: 1089-8646</identifier><identifier>DOI: 10.1016/j.ygeno.2020.07.034</identifier><identifier>PMID: 32717318</identifier><language>eng</language><publisher>United States: Elsevier Inc</publisher><subject>Abiotic stress ; Arachis duranensis ; Coexpression ; Nematode ; nsLTP genes ; Phylogenetic relationship</subject><ispartof>Genomics (San Diego, Calif.), 2020-11, Vol.112 (6), p.4332-4341</ispartof><rights>2020 Elsevier Inc.</rights><rights>Copyright © 2020 Elsevier Inc. All rights reserved.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c404t-d2ef70d279deba1cadfbc0665aad03c3e204486507672b68fb305f870d88b75b3</citedby><cites>FETCH-LOGICAL-c404t-d2ef70d279deba1cadfbc0665aad03c3e204486507672b68fb305f870d88b75b3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1016/j.ygeno.2020.07.034$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,780,784,3548,27923,27924,45994</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/32717318$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Song, Xiaojun</creatorcontrib><creatorcontrib>Li, Enguang</creatorcontrib><creatorcontrib>Song, Hui</creatorcontrib><creatorcontrib>Du, Guoning</creatorcontrib><creatorcontrib>Li, Shuai</creatorcontrib><creatorcontrib>Zhu, Hong</creatorcontrib><creatorcontrib>Chen, Guanxu</creatorcontrib><creatorcontrib>Zhao, Chunmei</creatorcontrib><creatorcontrib>Qiao, Lixian</creatorcontrib><creatorcontrib>Wang, Jingshan</creatorcontrib><creatorcontrib>Yu, Shanlin</creatorcontrib><creatorcontrib>Sui, Jiong-ming</creatorcontrib><title>Genome-wide identification and characterization of nonspecific lipid transfer protein (nsLTP) genes in Arachis duranensis</title><title>Genomics (San Diego, Calif.)</title><addtitle>Genomics</addtitle><description>Nonspecific lipid transfer proteins (nsLTPs) play vital roles in lipid metabolism, cell apoptosis and biotic and abiotic stresses in plants. However, the distribution of nsLTPs in Arachis duranensis has not been fully characterized. In this study, we identified 64 nsLTP genes in A. duranensis (designated AdLTPs), which were classified into six subfamilies and randomly distributed along nine chromosomes. Tandem and segmental duplication events were detected in the evolution of AdLTPs. The Ks and ω values differed significantly between Types 1 and D subfamilies, and eight AdLTPs were under positive selection. The expression levels of AdLTPs were changed after salinity, PEG, low-temperature and ABA treatments. Three AdLTPs were associated with resistance to nematode infection, and DOF and WRI1 transcription factors may regulate the AdLTP response to nematode infection. Our results may provide valuable genomic information for the breeding of peanut cultivars that are resistant to biotic and abiotic stresses.
•AdLTPs were classified into 6 subfamilies and were randomly distributed along 9 chromosomes.•The tandem and segmental duplication events were detected in the evolution of AdLTPs.•The Ks and ω values were significantly different between Type 1 and D subfamilies.•The expression level of AdLTPs was changed after salinity, PEG, low temperature and ABA treatments.•DOF and WRI1 transcription factors may regulate the AdLTP response to nematode infection.</description><subject>Abiotic stress</subject><subject>Arachis duranensis</subject><subject>Coexpression</subject><subject>Nematode</subject><subject>nsLTP genes</subject><subject>Phylogenetic relationship</subject><issn>0888-7543</issn><issn>1089-8646</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><recordid>eNp9kEFPGzEQha0KVFLaX1Cp8hEOu4ztXds5cEAIKFIkONCz5bXHxVHiTe0NKPz6Og3tsQfL0uh7b948Qr4yaBkwebFsdz8xjS0HDi2oFkT3gcwY6HmjZSePyAy01o3qO3FCPpWyBIC50PwjORFcMSWYnpHdXbVYY_MaPdL60hRDdHaKY6I2eeqebbZuwhzfDsMx0DSmskG3B-kqbqKnU7apBMx0k8cJY6JnqSyeHs9pDYiF1sFVdXmOhfptRTGVWD6T42BXBb-8_6fkx-3N0_X3ZvFwd399tWhcB93UeI5Bgedq7nGwzFkfBgdS9tZ6EE4gh67TsgclFR-kDoOAPugq0XpQ_SBOydnBt2b7tcUymXUsDlermmPcFsM7rkEKDayi4oC6PJaSMZhNjmubd4aB2XduluZP52bfuQFlaudV9e19wXZYo_-n-VtyBS4PANYzXyJmU1zE5NDHjG4yfoz_XfAbwHKV_w</recordid><startdate>202011</startdate><enddate>202011</enddate><creator>Song, Xiaojun</creator><creator>Li, Enguang</creator><creator>Song, Hui</creator><creator>Du, Guoning</creator><creator>Li, Shuai</creator><creator>Zhu, Hong</creator><creator>Chen, Guanxu</creator><creator>Zhao, Chunmei</creator><creator>Qiao, Lixian</creator><creator>Wang, Jingshan</creator><creator>Yu, Shanlin</creator><creator>Sui, Jiong-ming</creator><general>Elsevier Inc</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope></search><sort><creationdate>202011</creationdate><title>Genome-wide identification and characterization of nonspecific lipid transfer protein (nsLTP) genes in Arachis duranensis</title><author>Song, Xiaojun ; Li, Enguang ; Song, Hui ; Du, Guoning ; Li, Shuai ; Zhu, Hong ; Chen, Guanxu ; Zhao, Chunmei ; Qiao, Lixian ; Wang, Jingshan ; Yu, Shanlin ; Sui, Jiong-ming</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c404t-d2ef70d279deba1cadfbc0665aad03c3e204486507672b68fb305f870d88b75b3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Abiotic stress</topic><topic>Arachis duranensis</topic><topic>Coexpression</topic><topic>Nematode</topic><topic>nsLTP genes</topic><topic>Phylogenetic relationship</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Song, Xiaojun</creatorcontrib><creatorcontrib>Li, Enguang</creatorcontrib><creatorcontrib>Song, Hui</creatorcontrib><creatorcontrib>Du, Guoning</creatorcontrib><creatorcontrib>Li, Shuai</creatorcontrib><creatorcontrib>Zhu, Hong</creatorcontrib><creatorcontrib>Chen, Guanxu</creatorcontrib><creatorcontrib>Zhao, Chunmei</creatorcontrib><creatorcontrib>Qiao, Lixian</creatorcontrib><creatorcontrib>Wang, Jingshan</creatorcontrib><creatorcontrib>Yu, Shanlin</creatorcontrib><creatorcontrib>Sui, Jiong-ming</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Genomics (San Diego, Calif.)</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Song, Xiaojun</au><au>Li, Enguang</au><au>Song, Hui</au><au>Du, Guoning</au><au>Li, Shuai</au><au>Zhu, Hong</au><au>Chen, Guanxu</au><au>Zhao, Chunmei</au><au>Qiao, Lixian</au><au>Wang, Jingshan</au><au>Yu, Shanlin</au><au>Sui, Jiong-ming</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome-wide identification and characterization of nonspecific lipid transfer protein (nsLTP) genes in Arachis duranensis</atitle><jtitle>Genomics (San Diego, Calif.)</jtitle><addtitle>Genomics</addtitle><date>2020-11</date><risdate>2020</risdate><volume>112</volume><issue>6</issue><spage>4332</spage><epage>4341</epage><pages>4332-4341</pages><issn>0888-7543</issn><eissn>1089-8646</eissn><abstract>Nonspecific lipid transfer proteins (nsLTPs) play vital roles in lipid metabolism, cell apoptosis and biotic and abiotic stresses in plants. However, the distribution of nsLTPs in Arachis duranensis has not been fully characterized. In this study, we identified 64 nsLTP genes in A. duranensis (designated AdLTPs), which were classified into six subfamilies and randomly distributed along nine chromosomes. Tandem and segmental duplication events were detected in the evolution of AdLTPs. The Ks and ω values differed significantly between Types 1 and D subfamilies, and eight AdLTPs were under positive selection. The expression levels of AdLTPs were changed after salinity, PEG, low-temperature and ABA treatments. Three AdLTPs were associated with resistance to nematode infection, and DOF and WRI1 transcription factors may regulate the AdLTP response to nematode infection. Our results may provide valuable genomic information for the breeding of peanut cultivars that are resistant to biotic and abiotic stresses.
•AdLTPs were classified into 6 subfamilies and were randomly distributed along 9 chromosomes.•The tandem and segmental duplication events were detected in the evolution of AdLTPs.•The Ks and ω values were significantly different between Type 1 and D subfamilies.•The expression level of AdLTPs was changed after salinity, PEG, low temperature and ABA treatments.•DOF and WRI1 transcription factors may regulate the AdLTP response to nematode infection.</abstract><cop>United States</cop><pub>Elsevier Inc</pub><pmid>32717318</pmid><doi>10.1016/j.ygeno.2020.07.034</doi><tpages>10</tpages><oa>free_for_read</oa></addata></record> |
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subjects | Abiotic stress Arachis duranensis Coexpression Nematode nsLTP genes Phylogenetic relationship |
title | Genome-wide identification and characterization of nonspecific lipid transfer protein (nsLTP) genes in Arachis duranensis |
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