Comparative analysis of diversification and population structure of kenaf (Hibiscus cannabinus L.) and roselle (H. sabdariffa L.) using SSR and RGA (resistance gene analogue) markers
Multiple DNA marker systems and complementary analytical approaches are often useful in population genetic analysis and speciation of plants. We investigated population structure of kenaf (Hibiscus cannabinus) and roselle (H. sabdariffa) for gaining insight in evolution and geographic separation of...
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| Veröffentlicht in: | Plant systematics and evolution 2014-05, Vol.300 (5), p.1209-1218 |
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| creator | Satya, Pratik Karan, Maya Chakraborty, Kaustav Biswas, Chinmay Karmakar, P. G |
| description | Multiple DNA marker systems and complementary analytical approaches are often useful in population genetic analysis and speciation of plants. We investigated population structure of kenaf (Hibiscus cannabinus) and roselle (H. sabdariffa) for gaining insight in evolution and geographic separation of these crop species using SSR and RGA (resistance gene analogues) markers through Bayesian clustering and principal coordinate analysis (PCoA) methods. Genotyping by 12 SSR and 16 RGA markers amplified a total of 172 loci in the study population. The RGA markers generated higher number of alleles per marker (8.2) as compared to SSR (3.4), but exhibited lower heterozygosity in the population. Genetic variance and heterozygosity in roselle population for both marker systems were lower than in kenaf. RGA markers revealed higher variation among populations. Bayesian structure as well as PCoA analysis using RGA marker revealed distinct cluster for roselle, while SSR-based classification revealed high admixture. Results indicate geographic isolation and natural selection for adaptive RGA alleles in kenaf. The Indian kenaf landraces were distinct from the exotic kenaf accessions, suggesting separate lineage formation by geographic separation. Possible origin and domestication of roselle in South India is proposed. |
| doi_str_mv | 10.1007/s00606-013-0956-x |
| format | Article |
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RGA markers revealed higher variation among populations. Bayesian structure as well as PCoA analysis using RGA marker revealed distinct cluster for roselle, while SSR-based classification revealed high admixture. Results indicate geographic isolation and natural selection for adaptive RGA alleles in kenaf. The Indian kenaf landraces were distinct from the exotic kenaf accessions, suggesting separate lineage formation by geographic separation. Possible origin and domestication of roselle in South India is proposed.</description><identifier>ISSN: 0378-2697</identifier><identifier>EISSN: 1615-6110</identifier><identifier>EISSN: 2199-6881</identifier><identifier>DOI: 10.1007/s00606-013-0956-x</identifier><language>eng</language><publisher>Vienna: Springer-Verlag</publisher><subject>Admixtures ; Alleles ; Bayesian analysis ; Biological evolution ; Biomedical and Life Sciences ; Clustering ; Comparative analysis ; Deoxyribonucleic acid ; DNA ; Domestication ; Evolution ; Evolutionary genetics ; Genetic analysis ; Genetic diversity ; Genetic loci ; Genetic variance ; Genotypes ; Genotyping ; Heterozygosity ; Hibiscus cannabinus ; Hibiscus sabdariffa ; Kenaf ; landraces ; Life Sciences ; loci ; Markers ; Mathematical analysis ; microsatellite repeats ; Natural selection ; Original Article ; Plant Anatomy/Development ; Plant Ecology ; Plant Sciences ; Plant Systematics/Taxonomy/Biogeography ; Plants ; Population ; Population genetics ; Population parameters ; Population structure ; Population studies ; Roselle ; Separation ; Speciation</subject><ispartof>Plant systematics and evolution, 2014-05, Vol.300 (5), p.1209-1218</ispartof><rights>Springer-Verlag 2014</rights><rights>Springer-Verlag Wien 2013</rights><rights>Plant Systematics and Evolution is a copyright of Springer, (2013). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c362t-d3b22bb9c19bcbdffc3b0320dc11e3f2b512560febdd8791be5f5c10e801e36b3</citedby><cites>FETCH-LOGICAL-c362t-d3b22bb9c19bcbdffc3b0320dc11e3f2b512560febdd8791be5f5c10e801e36b3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.jstor.org/stable/pdf/43498285$$EPDF$$P50$$Gjstor$$H</linktopdf><linktohtml>$$Uhttps://www.jstor.org/stable/43498285$$EHTML$$P50$$Gjstor$$H</linktohtml><link.rule.ids>314,780,784,803,27924,27925,41488,42557,51319,58017,58250</link.rule.ids></links><search><creatorcontrib>Satya, Pratik</creatorcontrib><creatorcontrib>Karan, Maya</creatorcontrib><creatorcontrib>Chakraborty, Kaustav</creatorcontrib><creatorcontrib>Biswas, Chinmay</creatorcontrib><creatorcontrib>Karmakar, P. G</creatorcontrib><title>Comparative analysis of diversification and population structure of kenaf (Hibiscus cannabinus L.) and roselle (H. sabdariffa L.) using SSR and RGA (resistance gene analogue) markers</title><title>Plant systematics and evolution</title><addtitle>Plant Syst Evol</addtitle><description>Multiple DNA marker systems and complementary analytical approaches are often useful in population genetic analysis and speciation of plants. We investigated population structure of kenaf (Hibiscus cannabinus) and roselle (H. sabdariffa) for gaining insight in evolution and geographic separation of these crop species using SSR and RGA (resistance gene analogues) markers through Bayesian clustering and principal coordinate analysis (PCoA) methods. Genotyping by 12 SSR and 16 RGA markers amplified a total of 172 loci in the study population. The RGA markers generated higher number of alleles per marker (8.2) as compared to SSR (3.4), but exhibited lower heterozygosity in the population. Genetic variance and heterozygosity in roselle population for both marker systems were lower than in kenaf. RGA markers revealed higher variation among populations. Bayesian structure as well as PCoA analysis using RGA marker revealed distinct cluster for roselle, while SSR-based classification revealed high admixture. Results indicate geographic isolation and natural selection for adaptive RGA alleles in kenaf. The Indian kenaf landraces were distinct from the exotic kenaf accessions, suggesting separate lineage formation by geographic separation. Possible origin and domestication of roselle in South India is proposed.</description><subject>Admixtures</subject><subject>Alleles</subject><subject>Bayesian analysis</subject><subject>Biological evolution</subject><subject>Biomedical and Life Sciences</subject><subject>Clustering</subject><subject>Comparative analysis</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Domestication</subject><subject>Evolution</subject><subject>Evolutionary genetics</subject><subject>Genetic analysis</subject><subject>Genetic diversity</subject><subject>Genetic loci</subject><subject>Genetic variance</subject><subject>Genotypes</subject><subject>Genotyping</subject><subject>Heterozygosity</subject><subject>Hibiscus cannabinus</subject><subject>Hibiscus sabdariffa</subject><subject>Kenaf</subject><subject>landraces</subject><subject>Life Sciences</subject><subject>loci</subject><subject>Markers</subject><subject>Mathematical analysis</subject><subject>microsatellite repeats</subject><subject>Natural selection</subject><subject>Original Article</subject><subject>Plant Anatomy/Development</subject><subject>Plant Ecology</subject><subject>Plant Sciences</subject><subject>Plant Systematics/Taxonomy/Biogeography</subject><subject>Plants</subject><subject>Population</subject><subject>Population genetics</subject><subject>Population parameters</subject><subject>Population structure</subject><subject>Population studies</subject><subject>Roselle</subject><subject>Separation</subject><subject>Speciation</subject><issn>0378-2697</issn><issn>1615-6110</issn><issn>2199-6881</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2014</creationdate><recordtype>article</recordtype><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp9kc1u1DAUhSMEEkPhAVggLLFpFxmu7cRJltUI2kojIXXo2rIdO_I0tQffpGpfjOfDM0Flx8o_3znXxzpF8ZHCmgI0XxFAgCiB8hK6WpRPr4oVFbQuBaXwulgBb9qSia55W7xD3APQRlTNqvi9iQ8HldTkHy1RQY3P6JFER_p8kdA7bzKLIbOeHOJhHpcjTmk205zsUXtvg3Lk_Nprj2ZGYlQISvuQt9v1xcmaItpxtFm0Jqh0r5J3Tp3wjD4MZLe7PQlvry7JebI5xaSCsWSwYQkWh9lekAeV7nOu98Ubp0a0H_6uZ8Xd928_N9fl9sfVzeZyWxou2FT2XDOmdWdop43unTNcA2fQG0otd0zXlNUCnNV93zYd1bZ2taFgW8hcaH5WfFnmHlL8NVuc5D7OKadByVjdcVZRwbOKLiqTv4nJOnlIPid9lhTksR651CNzPfJYj3zKHrZ4MGvDYNO_yf8zfVpMe5xienml4lXXsrbO_PPCnYpSDcmjvNsxoBUAtJw2Hf8DKOyodA</recordid><startdate>20140501</startdate><enddate>20140501</enddate><creator>Satya, Pratik</creator><creator>Karan, Maya</creator><creator>Chakraborty, Kaustav</creator><creator>Biswas, Chinmay</creator><creator>Karmakar, P. 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G</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Comparative analysis of diversification and population structure of kenaf (Hibiscus cannabinus L.) and roselle (H. sabdariffa L.) using SSR and RGA (resistance gene analogue) markers</atitle><jtitle>Plant systematics and evolution</jtitle><stitle>Plant Syst Evol</stitle><date>2014-05-01</date><risdate>2014</risdate><volume>300</volume><issue>5</issue><spage>1209</spage><epage>1218</epage><pages>1209-1218</pages><issn>0378-2697</issn><eissn>1615-6110</eissn><eissn>2199-6881</eissn><abstract>Multiple DNA marker systems and complementary analytical approaches are often useful in population genetic analysis and speciation of plants. We investigated population structure of kenaf (Hibiscus cannabinus) and roselle (H. sabdariffa) for gaining insight in evolution and geographic separation of these crop species using SSR and RGA (resistance gene analogues) markers through Bayesian clustering and principal coordinate analysis (PCoA) methods. Genotyping by 12 SSR and 16 RGA markers amplified a total of 172 loci in the study population. The RGA markers generated higher number of alleles per marker (8.2) as compared to SSR (3.4), but exhibited lower heterozygosity in the population. Genetic variance and heterozygosity in roselle population for both marker systems were lower than in kenaf. RGA markers revealed higher variation among populations. Bayesian structure as well as PCoA analysis using RGA marker revealed distinct cluster for roselle, while SSR-based classification revealed high admixture. Results indicate geographic isolation and natural selection for adaptive RGA alleles in kenaf. The Indian kenaf landraces were distinct from the exotic kenaf accessions, suggesting separate lineage formation by geographic separation. Possible origin and domestication of roselle in South India is proposed.</abstract><cop>Vienna</cop><pub>Springer-Verlag</pub><doi>10.1007/s00606-013-0956-x</doi><tpages>10</tpages></addata></record> |
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| subjects | Admixtures Alleles Bayesian analysis Biological evolution Biomedical and Life Sciences Clustering Comparative analysis Deoxyribonucleic acid DNA Domestication Evolution Evolutionary genetics Genetic analysis Genetic diversity Genetic loci Genetic variance Genotypes Genotyping Heterozygosity Hibiscus cannabinus Hibiscus sabdariffa Kenaf landraces Life Sciences loci Markers Mathematical analysis microsatellite repeats Natural selection Original Article Plant Anatomy/Development Plant Ecology Plant Sciences Plant Systematics/Taxonomy/Biogeography Plants Population Population genetics Population parameters Population structure Population studies Roselle Separation Speciation |
| title | Comparative analysis of diversification and population structure of kenaf (Hibiscus cannabinus L.) and roselle (H. sabdariffa L.) using SSR and RGA (resistance gene analogue) markers |
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