Genetic diversity and population structure of cultivated Dendrobium nobile Lindl. in southwest of China based on genotyping-by-sequencing
Dendrobium nobile Lindl. is one of the most important Orchid plants worldwide. The genotype-by-sequencing (GBS) method has now been widely used to access genetic diversity because of its high-throughput and cost-effective in molecular markers. The goal of this study was to employ the GBS technique f...
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| Veröffentlicht in: | Genetic resources and crop evolution 2022-12, Vol.69 (8), p.2803-2818 |
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| creator | He, Tao Ye, Changrong Zeng, Qin Fan, Xiaoli Huang, Tianfang |
| description | Dendrobium nobile
Lindl. is one of the most important Orchid plants worldwide. The genotype-by-sequencing (GBS) method has now been widely used to access genetic diversity because of its high-throughput and cost-effective in molecular markers. The goal of this study was to employ the GBS technique for diversity evaluation of
D. nobile
and determine genetic differences between populations. A total of 129 accessions of
D. nobile
collected from 10 imitation-wild cultivated populations growing in Sichuan, Guizhou and Yunnan of southwestern China were sequenced, a total of 135 G clean reads and a total of 836,786 high quality SNPs were yielded and used for analysis of genetic diversity and population structure. The accessions of
D. nobile
were classified into three groups, excepts for 14 accessions belonging to admixed group. Genetic variation was greater within populations (87.80%) than among populations (12.20%). There was gene exchange between different populations. The 10 populations were classified into three groups, and group III could be further divided into two subgroups. The results will not only provide valuable information for the level of genetic diversity of
D.nobile
growing in southwestern of China, but also help for formulation of strategies for genetic resource protection and utilization. The accessions used in this study could be applied to the scientific research, breeding and production of
D. nobile
. |
| doi_str_mv | 10.1007/s10722-022-01401-x |
| format | Article |
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Lindl. is one of the most important Orchid plants worldwide. The genotype-by-sequencing (GBS) method has now been widely used to access genetic diversity because of its high-throughput and cost-effective in molecular markers. The goal of this study was to employ the GBS technique for diversity evaluation of
D. nobile
and determine genetic differences between populations. A total of 129 accessions of
D. nobile
collected from 10 imitation-wild cultivated populations growing in Sichuan, Guizhou and Yunnan of southwestern China were sequenced, a total of 135 G clean reads and a total of 836,786 high quality SNPs were yielded and used for analysis of genetic diversity and population structure. The accessions of
D. nobile
were classified into three groups, excepts for 14 accessions belonging to admixed group. Genetic variation was greater within populations (87.80%) than among populations (12.20%). There was gene exchange between different populations. The 10 populations were classified into three groups, and group III could be further divided into two subgroups. The results will not only provide valuable information for the level of genetic diversity of
D.nobile
growing in southwestern of China, but also help for formulation of strategies for genetic resource protection and utilization. The accessions used in this study could be applied to the scientific research, breeding and production of
D. nobile
.</description><identifier>ISSN: 0925-9864</identifier><identifier>EISSN: 1573-5109</identifier><identifier>DOI: 10.1007/s10722-022-01401-x</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Agriculture ; Biomedical and Life Sciences ; Dendrobium nobile ; Genetic analysis ; Genetic diversity ; Genetic resources ; Genotypes ; Genotyping ; Life Sciences ; Plant Genetics and Genomics ; Plant Physiology ; Plant Sciences ; Plant Systematics/Taxonomy/Biogeography ; Population genetics ; Population structure ; Populations ; Research Article ; Single-nucleotide polymorphism ; Subgroups</subject><ispartof>Genetic resources and crop evolution, 2022-12, Vol.69 (8), p.2803-2818</ispartof><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2022</rights><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2022.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c270t-96edd832db95d06dae2b256f33f4ca2c81922d90c603c73d263099135cb526333</cites><orcidid>0000-0002-7342-9479</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/s10722-022-01401-x$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10722-022-01401-x$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27924,27925,41488,42557,51319</link.rule.ids></links><search><creatorcontrib>He, Tao</creatorcontrib><creatorcontrib>Ye, Changrong</creatorcontrib><creatorcontrib>Zeng, Qin</creatorcontrib><creatorcontrib>Fan, Xiaoli</creatorcontrib><creatorcontrib>Huang, Tianfang</creatorcontrib><title>Genetic diversity and population structure of cultivated Dendrobium nobile Lindl. in southwest of China based on genotyping-by-sequencing</title><title>Genetic resources and crop evolution</title><addtitle>Genet Resour Crop Evol</addtitle><description>Dendrobium nobile
Lindl. is one of the most important Orchid plants worldwide. The genotype-by-sequencing (GBS) method has now been widely used to access genetic diversity because of its high-throughput and cost-effective in molecular markers. The goal of this study was to employ the GBS technique for diversity evaluation of
D. nobile
and determine genetic differences between populations. A total of 129 accessions of
D. nobile
collected from 10 imitation-wild cultivated populations growing in Sichuan, Guizhou and Yunnan of southwestern China were sequenced, a total of 135 G clean reads and a total of 836,786 high quality SNPs were yielded and used for analysis of genetic diversity and population structure. The accessions of
D. nobile
were classified into three groups, excepts for 14 accessions belonging to admixed group. Genetic variation was greater within populations (87.80%) than among populations (12.20%). There was gene exchange between different populations. The 10 populations were classified into three groups, and group III could be further divided into two subgroups. The results will not only provide valuable information for the level of genetic diversity of
D.nobile
growing in southwestern of China, but also help for formulation of strategies for genetic resource protection and utilization. The accessions used in this study could be applied to the scientific research, breeding and production of
D. nobile
.</description><subject>Agriculture</subject><subject>Biomedical and Life Sciences</subject><subject>Dendrobium nobile</subject><subject>Genetic analysis</subject><subject>Genetic diversity</subject><subject>Genetic resources</subject><subject>Genotypes</subject><subject>Genotyping</subject><subject>Life Sciences</subject><subject>Plant Genetics and Genomics</subject><subject>Plant Physiology</subject><subject>Plant Sciences</subject><subject>Plant Systematics/Taxonomy/Biogeography</subject><subject>Population genetics</subject><subject>Population structure</subject><subject>Populations</subject><subject>Research Article</subject><subject>Single-nucleotide polymorphism</subject><subject>Subgroups</subject><issn>0925-9864</issn><issn>1573-5109</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2022</creationdate><recordtype>article</recordtype><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp9kM1KAzEUhYMoWKsv4CrgOnqTzE-zlKpVKLjR9ZBJMjUyTcYkU-0j-NZmqODOxeXeC-c7Bw5ClxSuKUB9EynUjBGYhhZAydcRmtGy5qSkII7RDAQriVhUxSk6i_EdAERdLWboe2WcSVZhbXcmRJv2WDqNBz-MvUzWOxxTGFUag8G-w2rsk93JZDS-M04H39pxi11evcFr63R_jW1m_JjePk1ME7N8s07iVsYMZb-NcT7tB-s2pN2TaD5G41T-ztFJJ_toLn73HL0-3L8sH8n6efW0vF0TxWpIRFRG6wVnuhWlhkpLw1pWVh3nXaEkUwsqGNMCVAVc1VyzioMQlJeqLfPN-RxdHXyH4HN2TM27H4PLkQ2rWSFYXVCaVeygUsHHGEzXDMFuZdg3FJqp8uZQeQPTTJU3XxniByhmsduY8Gf9D_UDylOG_g</recordid><startdate>20221201</startdate><enddate>20221201</enddate><creator>He, Tao</creator><creator>Ye, Changrong</creator><creator>Zeng, Qin</creator><creator>Fan, Xiaoli</creator><creator>Huang, Tianfang</creator><general>Springer Netherlands</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X2</scope><scope>8FE</scope><scope>8FH</scope><scope>8FK</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>LK8</scope><scope>M0K</scope><scope>M7P</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><orcidid>https://orcid.org/0000-0002-7342-9479</orcidid></search><sort><creationdate>20221201</creationdate><title>Genetic diversity and population structure of cultivated Dendrobium nobile Lindl. in southwest of China based on genotyping-by-sequencing</title><author>He, Tao ; Ye, Changrong ; Zeng, Qin ; Fan, Xiaoli ; Huang, Tianfang</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c270t-96edd832db95d06dae2b256f33f4ca2c81922d90c603c73d263099135cb526333</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2022</creationdate><topic>Agriculture</topic><topic>Biomedical and Life Sciences</topic><topic>Dendrobium nobile</topic><topic>Genetic analysis</topic><topic>Genetic diversity</topic><topic>Genetic resources</topic><topic>Genotypes</topic><topic>Genotyping</topic><topic>Life Sciences</topic><topic>Plant Genetics and Genomics</topic><topic>Plant Physiology</topic><topic>Plant Sciences</topic><topic>Plant Systematics/Taxonomy/Biogeography</topic><topic>Population genetics</topic><topic>Population structure</topic><topic>Populations</topic><topic>Research Article</topic><topic>Single-nucleotide polymorphism</topic><topic>Subgroups</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>He, Tao</creatorcontrib><creatorcontrib>Ye, Changrong</creatorcontrib><creatorcontrib>Zeng, Qin</creatorcontrib><creatorcontrib>Fan, Xiaoli</creatorcontrib><creatorcontrib>Huang, Tianfang</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Agricultural Science Collection</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central UK/Ireland</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Agricultural Science Database</collection><collection>Biological 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><jtitle>Genetic resources and crop evolution</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>He, Tao</au><au>Ye, Changrong</au><au>Zeng, Qin</au><au>Fan, Xiaoli</au><au>Huang, Tianfang</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genetic diversity and population structure of cultivated Dendrobium nobile Lindl. in southwest of China based on genotyping-by-sequencing</atitle><jtitle>Genetic resources and crop evolution</jtitle><stitle>Genet Resour Crop Evol</stitle><date>2022-12-01</date><risdate>2022</risdate><volume>69</volume><issue>8</issue><spage>2803</spage><epage>2818</epage><pages>2803-2818</pages><issn>0925-9864</issn><eissn>1573-5109</eissn><abstract>Dendrobium nobile
Lindl. is one of the most important Orchid plants worldwide. The genotype-by-sequencing (GBS) method has now been widely used to access genetic diversity because of its high-throughput and cost-effective in molecular markers. The goal of this study was to employ the GBS technique for diversity evaluation of
D. nobile
and determine genetic differences between populations. A total of 129 accessions of
D. nobile
collected from 10 imitation-wild cultivated populations growing in Sichuan, Guizhou and Yunnan of southwestern China were sequenced, a total of 135 G clean reads and a total of 836,786 high quality SNPs were yielded and used for analysis of genetic diversity and population structure. The accessions of
D. nobile
were classified into three groups, excepts for 14 accessions belonging to admixed group. Genetic variation was greater within populations (87.80%) than among populations (12.20%). There was gene exchange between different populations. The 10 populations were classified into three groups, and group III could be further divided into two subgroups. The results will not only provide valuable information for the level of genetic diversity of
D.nobile
growing in southwestern of China, but also help for formulation of strategies for genetic resource protection and utilization. The accessions used in this study could be applied to the scientific research, breeding and production of
D. nobile
.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s10722-022-01401-x</doi><tpages>16</tpages><orcidid>https://orcid.org/0000-0002-7342-9479</orcidid></addata></record> |
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| subjects | Agriculture Biomedical and Life Sciences Dendrobium nobile Genetic analysis Genetic diversity Genetic resources Genotypes Genotyping Life Sciences Plant Genetics and Genomics Plant Physiology Plant Sciences Plant Systematics/Taxonomy/Biogeography Population genetics Population structure Populations Research Article Single-nucleotide polymorphism Subgroups |
| title | Genetic diversity and population structure of cultivated Dendrobium nobile Lindl. in southwest of China based on genotyping-by-sequencing |
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