Genome-wide association study of salt tolerance at the germination stage in hemp
Seed germination is the first stage of the plant life cycle, and salinity is a major environmental stress for the inhibition of seed germination in plants. Hemp ( Cannabis sativa . L) has high economic value and is widely used in textiles, building materials, food, health care, and so on. Unfortunat...
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| Veröffentlicht in: | Euphytica 2023, Vol.219 (1), p.5, Article 5 |
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| creator | Sun, Jian Chen, Jiquan Zhang, Xiaoyu Xu, Gencheng Yu, Yue Dai, Zhigang Su, Jianguang |
| description | Seed germination is the first stage of the plant life cycle, and salinity is a major environmental stress for the inhibition of seed germination in plants. Hemp (
Cannabis sativa
. L) has high economic value and is widely used in textiles, building materials, food, health care, and so on. Unfortunately, research on the salt tolerance of hemp is very limited. In this study, 202 hemp accessions from 11 countries were used to conduct a genome-wide association study (GWAS) on salt tolerance at the germination stage. Based on 762,634 high-quality SNPs, 70 SNP loci were identified to be associated with salt tolerance-related traits (RGR-T1, RGR-T2, RSRL-T1, RSRL-T2, RSW-T1 and RSW-T2). Among the 70 SNPs, nine were further analyzed as candidate SNPs, and 55 genes were annotated within 100 kb upstream and downstream of the nine SNPs. Combined with RNA-seq data and qRT–PCR results,
XM_030641043.1
,
XM_030641906.1
,
XM_030648362.1
,
XM_030648308.1
and
XM_030646898.1
may play a key role in regulating salt tolerance of hemp during germination. To our knowledge, this is the first study of hemp GWAS, and the information obtained in this study will be useful for gene cloning and marker-assisted selection (MAS) of salt tolerance in hemp. |
| doi_str_mv | 10.1007/s10681-022-03129-2 |
| format | Article |
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Cannabis sativa
. L) has high economic value and is widely used in textiles, building materials, food, health care, and so on. Unfortunately, research on the salt tolerance of hemp is very limited. In this study, 202 hemp accessions from 11 countries were used to conduct a genome-wide association study (GWAS) on salt tolerance at the germination stage. Based on 762,634 high-quality SNPs, 70 SNP loci were identified to be associated with salt tolerance-related traits (RGR-T1, RGR-T2, RSRL-T1, RSRL-T2, RSW-T1 and RSW-T2). Among the 70 SNPs, nine were further analyzed as candidate SNPs, and 55 genes were annotated within 100 kb upstream and downstream of the nine SNPs. Combined with RNA-seq data and qRT–PCR results,
XM_030641043.1
,
XM_030641906.1
,
XM_030648362.1
,
XM_030648308.1
and
XM_030646898.1
may play a key role in regulating salt tolerance of hemp during germination. To our knowledge, this is the first study of hemp GWAS, and the information obtained in this study will be useful for gene cloning and marker-assisted selection (MAS) of salt tolerance in hemp.</description><identifier>ISSN: 0014-2336</identifier><identifier>EISSN: 1573-5060</identifier><identifier>DOI: 10.1007/s10681-022-03129-2</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Analysis ; Biomedical and Life Sciences ; Biotechnology ; Building materials ; Cannabis ; Cloning ; Construction materials ; Environmental stress ; Genetic research ; Genome-wide association studies ; Genomes ; Genomics ; Germination ; Hemp ; Life cycles ; Life Sciences ; Marijuana ; Marker-assisted selection ; Plant Genetics and Genomics ; Plant Pathology ; Plant Physiology ; Plant Sciences ; Salinity ; Salinity tolerance ; Salt tolerance ; Seed germination ; Single nucleotide polymorphisms ; Single-nucleotide polymorphism ; Textiles</subject><ispartof>Euphytica, 2023, Vol.219 (1), p.5, Article 5</ispartof><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2022. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><rights>COPYRIGHT 2023 Springer</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c386t-217b97452f6dde541e316fdf8cdf1f97a6d99685d9f3091d98fa62715121bce93</citedby><cites>FETCH-LOGICAL-c386t-217b97452f6dde541e316fdf8cdf1f97a6d99685d9f3091d98fa62715121bce93</cites><orcidid>0000-0002-9109-4019</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s10681-022-03129-2$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10681-022-03129-2$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,778,782,27907,27908,41471,42540,51302</link.rule.ids></links><search><creatorcontrib>Sun, Jian</creatorcontrib><creatorcontrib>Chen, Jiquan</creatorcontrib><creatorcontrib>Zhang, Xiaoyu</creatorcontrib><creatorcontrib>Xu, Gencheng</creatorcontrib><creatorcontrib>Yu, Yue</creatorcontrib><creatorcontrib>Dai, Zhigang</creatorcontrib><creatorcontrib>Su, Jianguang</creatorcontrib><title>Genome-wide association study of salt tolerance at the germination stage in hemp</title><title>Euphytica</title><addtitle>Euphytica</addtitle><description>Seed germination is the first stage of the plant life cycle, and salinity is a major environmental stress for the inhibition of seed germination in plants. Hemp (
Cannabis sativa
. L) has high economic value and is widely used in textiles, building materials, food, health care, and so on. Unfortunately, research on the salt tolerance of hemp is very limited. In this study, 202 hemp accessions from 11 countries were used to conduct a genome-wide association study (GWAS) on salt tolerance at the germination stage. Based on 762,634 high-quality SNPs, 70 SNP loci were identified to be associated with salt tolerance-related traits (RGR-T1, RGR-T2, RSRL-T1, RSRL-T2, RSW-T1 and RSW-T2). Among the 70 SNPs, nine were further analyzed as candidate SNPs, and 55 genes were annotated within 100 kb upstream and downstream of the nine SNPs. Combined with RNA-seq data and qRT–PCR results,
XM_030641043.1
,
XM_030641906.1
,
XM_030648362.1
,
XM_030648308.1
and
XM_030646898.1
may play a key role in regulating salt tolerance of hemp during germination. To our knowledge, this is the first study of hemp GWAS, and the information obtained in this study will be useful for gene cloning and marker-assisted selection (MAS) of salt tolerance in hemp.</description><subject>Analysis</subject><subject>Biomedical and Life Sciences</subject><subject>Biotechnology</subject><subject>Building materials</subject><subject>Cannabis</subject><subject>Cloning</subject><subject>Construction materials</subject><subject>Environmental stress</subject><subject>Genetic research</subject><subject>Genome-wide association studies</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Germination</subject><subject>Hemp</subject><subject>Life cycles</subject><subject>Life Sciences</subject><subject>Marijuana</subject><subject>Marker-assisted selection</subject><subject>Plant Genetics and Genomics</subject><subject>Plant Pathology</subject><subject>Plant Physiology</subject><subject>Plant Sciences</subject><subject>Salinity</subject><subject>Salinity tolerance</subject><subject>Salt tolerance</subject><subject>Seed germination</subject><subject>Single nucleotide polymorphisms</subject><subject>Single-nucleotide polymorphism</subject><subject>Textiles</subject><issn>0014-2336</issn><issn>1573-5060</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</creationdate><recordtype>article</recordtype><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp9kU1LJDEQhoO44OjuH9hTg-doKplOOsdB_AJBD7vnkEkqY4bpZEx6EP-92R1FBJE6hArPkyryEvIb2Bkwps4rMDkAZZxTJoBryg_IDHolaM8kOyQzxmBOuRDyiBzXumaMadWzGXm4xpRHpM_RY2drzS7aKebU1WnnX7ocumo3UzflDRabXGNa84jdCssY0ztqV9jF1D3iuP1JfgS7qfjr7Twhf68u_1zc0Lv769uLxR11YpAT5aCWWs17HqT32M8BBcjgw-B8gKCVlV5rOfReB8E0eD0EK7mCHjgsHWpxQk73725Lftphncw670pqIw1X80ED8KH_oFZ2gyamkKdi3RirMwvFtVSCa9Wosy-oVh7H6HLCENv9J4HvBVdyrQWD2ZY42vJigJl_gZh9IKYFYv4HYniTxF6qDU7tAz82_sZ6BaxyjBI</recordid><startdate>2023</startdate><enddate>2023</enddate><creator>Sun, Jian</creator><creator>Chen, Jiquan</creator><creator>Zhang, Xiaoyu</creator><creator>Xu, Gencheng</creator><creator>Yu, Yue</creator><creator>Dai, Zhigang</creator><creator>Su, Jianguang</creator><general>Springer Netherlands</general><general>Springer</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7SN</scope><scope>7SS</scope><scope>7T7</scope><scope>7TM</scope><scope>7X2</scope><scope>7XB</scope><scope>88I</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>M0K</scope><scope>M2P</scope><scope>M7N</scope><scope>P64</scope><scope>PATMY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PYCSY</scope><scope>Q9U</scope><scope>RC3</scope><orcidid>https://orcid.org/0000-0002-9109-4019</orcidid></search><sort><creationdate>2023</creationdate><title>Genome-wide association study of salt tolerance at the germination stage in hemp</title><author>Sun, Jian ; Chen, Jiquan ; Zhang, Xiaoyu ; Xu, Gencheng ; Yu, Yue ; Dai, Zhigang ; Su, Jianguang</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c386t-217b97452f6dde541e316fdf8cdf1f97a6d99685d9f3091d98fa62715121bce93</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>Analysis</topic><topic>Biomedical and Life Sciences</topic><topic>Biotechnology</topic><topic>Building materials</topic><topic>Cannabis</topic><topic>Cloning</topic><topic>Construction materials</topic><topic>Environmental stress</topic><topic>Genetic research</topic><topic>Genome-wide association studies</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Germination</topic><topic>Hemp</topic><topic>Life cycles</topic><topic>Life Sciences</topic><topic>Marijuana</topic><topic>Marker-assisted selection</topic><topic>Plant Genetics and Genomics</topic><topic>Plant Pathology</topic><topic>Plant Physiology</topic><topic>Plant Sciences</topic><topic>Salinity</topic><topic>Salinity tolerance</topic><topic>Salt tolerance</topic><topic>Seed germination</topic><topic>Single nucleotide polymorphisms</topic><topic>Single-nucleotide polymorphism</topic><topic>Textiles</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Sun, Jian</creatorcontrib><creatorcontrib>Chen, Jiquan</creatorcontrib><creatorcontrib>Zhang, Xiaoyu</creatorcontrib><creatorcontrib>Xu, Gencheng</creatorcontrib><creatorcontrib>Yu, Yue</creatorcontrib><creatorcontrib>Dai, Zhigang</creatorcontrib><creatorcontrib>Su, Jianguang</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Nucleic Acids Abstracts</collection><collection>Agricultural Science Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Science Database (Alumni Edition)</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>ProQuest Central</collection><collection>Natural Science Collection (ProQuest)</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>Agricultural Science Database</collection><collection>Science Database (ProQuest)</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Environmental 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>Environmental Science Collection</collection><collection>ProQuest Central Basic</collection><collection>Genetics Abstracts</collection><jtitle>Euphytica</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Sun, Jian</au><au>Chen, Jiquan</au><au>Zhang, Xiaoyu</au><au>Xu, Gencheng</au><au>Yu, Yue</au><au>Dai, Zhigang</au><au>Su, Jianguang</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome-wide association study of salt tolerance at the germination stage in hemp</atitle><jtitle>Euphytica</jtitle><stitle>Euphytica</stitle><date>2023</date><risdate>2023</risdate><volume>219</volume><issue>1</issue><spage>5</spage><pages>5-</pages><artnum>5</artnum><issn>0014-2336</issn><eissn>1573-5060</eissn><abstract>Seed germination is the first stage of the plant life cycle, and salinity is a major environmental stress for the inhibition of seed germination in plants. Hemp (
Cannabis sativa
. L) has high economic value and is widely used in textiles, building materials, food, health care, and so on. Unfortunately, research on the salt tolerance of hemp is very limited. In this study, 202 hemp accessions from 11 countries were used to conduct a genome-wide association study (GWAS) on salt tolerance at the germination stage. Based on 762,634 high-quality SNPs, 70 SNP loci were identified to be associated with salt tolerance-related traits (RGR-T1, RGR-T2, RSRL-T1, RSRL-T2, RSW-T1 and RSW-T2). Among the 70 SNPs, nine were further analyzed as candidate SNPs, and 55 genes were annotated within 100 kb upstream and downstream of the nine SNPs. Combined with RNA-seq data and qRT–PCR results,
XM_030641043.1
,
XM_030641906.1
,
XM_030648362.1
,
XM_030648308.1
and
XM_030646898.1
may play a key role in regulating salt tolerance of hemp during germination. To our knowledge, this is the first study of hemp GWAS, and the information obtained in this study will be useful for gene cloning and marker-assisted selection (MAS) of salt tolerance in hemp.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s10681-022-03129-2</doi><orcidid>https://orcid.org/0000-0002-9109-4019</orcidid></addata></record> |
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| source | Springer Nature - Complete Springer Journals |
| subjects | Analysis Biomedical and Life Sciences Biotechnology Building materials Cannabis Cloning Construction materials Environmental stress Genetic research Genome-wide association studies Genomes Genomics Germination Hemp Life cycles Life Sciences Marijuana Marker-assisted selection Plant Genetics and Genomics Plant Pathology Plant Physiology Plant Sciences Salinity Salinity tolerance Salt tolerance Seed germination Single nucleotide polymorphisms Single-nucleotide polymorphism Textiles |
| title | Genome-wide association study of salt tolerance at the germination stage in hemp |
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