Assessment of genetic diversity, population structure, and phylogenetic relationships among the Northeast Indian and South Indian commercially released tea cultivars using TE-AFLP markers
Commercially cultivated tea clones from Northeast and Southern India were analyzed using TE-AFLP markers. Analysis of molecular variance (AMOVA) and structure analysis showed high genetic variance (74%) within five distinct populations. This study also confirmed that Assam and UPASI (Nilgiri) tea cl...
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| description | Commercially cultivated tea clones from Northeast and Southern India were analyzed using TE-AFLP markers. Analysis of molecular variance (AMOVA) and structure analysis showed high genetic variance (74%) within five distinct populations. This study also confirmed that Assam and UPASI (Nilgiri) tea clones have originated from two different tea populations introduced from imported China tea seeds by British. We evaluated the genetic variation and population structure in 30 tea clones of Tea Research Association (TRA), Tocklai Experimental station (Tockali ES), Jorhat, from North Eastern India and 30 clones of United Planters Association of South India (UPASI), Valparai, from South-India, released for commercial plantations and four
C. japonica
accessions (Total 64) used as outliers using Three Endonuclease-AFLP markers. Six primer combinations were selected from the best 10 primer combinations that were used on a set of 24 tea accessions as a standardization procedure. Dendrograms were constructed by using Jaccard’s similarity coefficient and Unweighted Pair Group Method of Arithmetic Averages (UPGMA) clustering method based on high coefficient correlation ratios obtained. High level of genetic diversity and clustering of accessions according to morphological proximity was established with minor aberrations. Analysis of molecular variance (AMOVA) showed highest genetic variance (79%) within five populations whereas the lowest variance (21%) was found among populations. These values change to the highest 87% and the lowest 13% when
Camellia japonica
accessions were removed from the analysis. Population structure analyses were performed to establish the genetic diversity and exact type each clones vis-a-vis to their molecular and morphological characteristics at present. Attempts were made to find out the population structure of Northeast and Southern India tea germplasm with their relatedness to existing morphological type. These analyses confirmed that all tea clones were genetically diverse and grouped based on their morphological characteristics and geographic regions. |
| doi_str_mv | 10.1007/s11295-019-1387-9 |
| format | Article |
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C. japonica
accessions (Total 64) used as outliers using Three Endonuclease-AFLP markers. Six primer combinations were selected from the best 10 primer combinations that were used on a set of 24 tea accessions as a standardization procedure. Dendrograms were constructed by using Jaccard’s similarity coefficient and Unweighted Pair Group Method of Arithmetic Averages (UPGMA) clustering method based on high coefficient correlation ratios obtained. High level of genetic diversity and clustering of accessions according to morphological proximity was established with minor aberrations. Analysis of molecular variance (AMOVA) showed highest genetic variance (79%) within five populations whereas the lowest variance (21%) was found among populations. These values change to the highest 87% and the lowest 13% when
Camellia japonica
accessions were removed from the analysis. Population structure analyses were performed to establish the genetic diversity and exact type each clones vis-a-vis to their molecular and morphological characteristics at present. Attempts were made to find out the population structure of Northeast and Southern India tea germplasm with their relatedness to existing morphological type. These analyses confirmed that all tea clones were genetically diverse and grouped based on their morphological characteristics and geographic regions.</description><identifier>ISSN: 1614-2942</identifier><identifier>EISSN: 1614-2950</identifier><identifier>DOI: 10.1007/s11295-019-1387-9</identifier><language>eng</language><publisher>Berlin/Heidelberg: Springer Berlin Heidelberg</publisher><subject>Amplified fragment length polymorphism ; Biomedical and Life Sciences ; Biotechnology ; Camellia japonica ; Cloning ; Clustering ; Cultivars ; Endonuclease ; Forestry ; Genetic analysis ; Genetic diversity ; Genetic variance ; Germplasm ; Life Sciences ; Markers ; Mathematical analysis ; Molecular structure ; Morphology ; Original Article ; Outliers (statistics) ; Phylogeny ; Physical characteristics ; Plant Breeding/Biotechnology ; Plant Genetics and Genomics ; Population ; Population genetics ; Population structure ; Population studies ; Populations ; Seeds ; Standardization ; Structural analysis ; Tea ; Tree Biology ; Variance analysis</subject><ispartof>Tree genetics & genomes, 2020-02, Vol.16 (1), Article 7</ispartof><rights>Springer-Verlag GmbH Germany, part of Springer Nature 2019</rights><rights>Tree Genetics and Genomes is a copyright of Springer, (2019). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c316t-5725fd1f9f413af1c3f29ee4d7116cf076094aa3af094bd0fa48516c5f2d192e3</citedby><cites>FETCH-LOGICAL-c316t-5725fd1f9f413af1c3f29ee4d7116cf076094aa3af094bd0fa48516c5f2d192e3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11295-019-1387-9$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11295-019-1387-9$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids></links><search><creatorcontrib>Negi, Madan Singh</creatorcontrib><creatorcontrib>Sharma, Shyam Sundar</creatorcontrib><creatorcontrib>Bera, Biswajit</creatorcontrib><creatorcontrib>Tripathi, Shashi Bhushan</creatorcontrib><title>Assessment of genetic diversity, population structure, and phylogenetic relationships among the Northeast Indian and South Indian commercially released tea cultivars using TE-AFLP markers</title><title>Tree genetics & genomes</title><addtitle>Tree Genetics & Genomes</addtitle><description>Commercially cultivated tea clones from Northeast and Southern India were analyzed using TE-AFLP markers. Analysis of molecular variance (AMOVA) and structure analysis showed high genetic variance (74%) within five distinct populations. This study also confirmed that Assam and UPASI (Nilgiri) tea clones have originated from two different tea populations introduced from imported China tea seeds by British. We evaluated the genetic variation and population structure in 30 tea clones of Tea Research Association (TRA), Tocklai Experimental station (Tockali ES), Jorhat, from North Eastern India and 30 clones of United Planters Association of South India (UPASI), Valparai, from South-India, released for commercial plantations and four
C. japonica
accessions (Total 64) used as outliers using Three Endonuclease-AFLP markers. Six primer combinations were selected from the best 10 primer combinations that were used on a set of 24 tea accessions as a standardization procedure. Dendrograms were constructed by using Jaccard’s similarity coefficient and Unweighted Pair Group Method of Arithmetic Averages (UPGMA) clustering method based on high coefficient correlation ratios obtained. High level of genetic diversity and clustering of accessions according to morphological proximity was established with minor aberrations. Analysis of molecular variance (AMOVA) showed highest genetic variance (79%) within five populations whereas the lowest variance (21%) was found among populations. These values change to the highest 87% and the lowest 13% when
Camellia japonica
accessions were removed from the analysis. Population structure analyses were performed to establish the genetic diversity and exact type each clones vis-a-vis to their molecular and morphological characteristics at present. Attempts were made to find out the population structure of Northeast and Southern India tea germplasm with their relatedness to existing morphological type. 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Sharma, Shyam Sundar ; Bera, Biswajit ; Tripathi, Shashi Bhushan</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c316t-5725fd1f9f413af1c3f29ee4d7116cf076094aa3af094bd0fa48516c5f2d192e3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Amplified fragment length polymorphism</topic><topic>Biomedical and Life Sciences</topic><topic>Biotechnology</topic><topic>Camellia japonica</topic><topic>Cloning</topic><topic>Clustering</topic><topic>Cultivars</topic><topic>Endonuclease</topic><topic>Forestry</topic><topic>Genetic analysis</topic><topic>Genetic diversity</topic><topic>Genetic variance</topic><topic>Germplasm</topic><topic>Life Sciences</topic><topic>Markers</topic><topic>Mathematical analysis</topic><topic>Molecular structure</topic><topic>Morphology</topic><topic>Original Article</topic><topic>Outliers (statistics)</topic><topic>Phylogeny</topic><topic>Physical characteristics</topic><topic>Plant Breeding/Biotechnology</topic><topic>Plant Genetics and Genomics</topic><topic>Population</topic><topic>Population genetics</topic><topic>Population structure</topic><topic>Population studies</topic><topic>Populations</topic><topic>Seeds</topic><topic>Standardization</topic><topic>Structural analysis</topic><topic>Tea</topic><topic>Tree Biology</topic><topic>Variance analysis</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Negi, Madan Singh</creatorcontrib><creatorcontrib>Sharma, Shyam Sundar</creatorcontrib><creatorcontrib>Bera, Biswajit</creatorcontrib><creatorcontrib>Tripathi, Shashi Bhushan</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Agricultural Science Collection</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 One Sustainability</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>Engineering Research Database</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>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>Genetics Abstracts</collection><jtitle>Tree genetics & genomes</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Negi, Madan Singh</au><au>Sharma, Shyam Sundar</au><au>Bera, Biswajit</au><au>Tripathi, Shashi Bhushan</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Assessment of genetic diversity, population structure, and phylogenetic relationships among the Northeast Indian and South Indian commercially released tea cultivars using TE-AFLP markers</atitle><jtitle>Tree genetics & genomes</jtitle><stitle>Tree Genetics & Genomes</stitle><date>2020-02-01</date><risdate>2020</risdate><volume>16</volume><issue>1</issue><artnum>7</artnum><issn>1614-2942</issn><eissn>1614-2950</eissn><abstract>Commercially cultivated tea clones from Northeast and Southern India were analyzed using TE-AFLP markers. Analysis of molecular variance (AMOVA) and structure analysis showed high genetic variance (74%) within five distinct populations. This study also confirmed that Assam and UPASI (Nilgiri) tea clones have originated from two different tea populations introduced from imported China tea seeds by British. We evaluated the genetic variation and population structure in 30 tea clones of Tea Research Association (TRA), Tocklai Experimental station (Tockali ES), Jorhat, from North Eastern India and 30 clones of United Planters Association of South India (UPASI), Valparai, from South-India, released for commercial plantations and four
C. japonica
accessions (Total 64) used as outliers using Three Endonuclease-AFLP markers. Six primer combinations were selected from the best 10 primer combinations that were used on a set of 24 tea accessions as a standardization procedure. Dendrograms were constructed by using Jaccard’s similarity coefficient and Unweighted Pair Group Method of Arithmetic Averages (UPGMA) clustering method based on high coefficient correlation ratios obtained. High level of genetic diversity and clustering of accessions according to morphological proximity was established with minor aberrations. Analysis of molecular variance (AMOVA) showed highest genetic variance (79%) within five populations whereas the lowest variance (21%) was found among populations. These values change to the highest 87% and the lowest 13% when
Camellia japonica
accessions were removed from the analysis. Population structure analyses were performed to establish the genetic diversity and exact type each clones vis-a-vis to their molecular and morphological characteristics at present. Attempts were made to find out the population structure of Northeast and Southern India tea germplasm with their relatedness to existing morphological type. These analyses confirmed that all tea clones were genetically diverse and grouped based on their morphological characteristics and geographic regions.</abstract><cop>Berlin/Heidelberg</cop><pub>Springer Berlin Heidelberg</pub><doi>10.1007/s11295-019-1387-9</doi></addata></record> |
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| subjects | Amplified fragment length polymorphism Biomedical and Life Sciences Biotechnology Camellia japonica Cloning Clustering Cultivars Endonuclease Forestry Genetic analysis Genetic diversity Genetic variance Germplasm Life Sciences Markers Mathematical analysis Molecular structure Morphology Original Article Outliers (statistics) Phylogeny Physical characteristics Plant Breeding/Biotechnology Plant Genetics and Genomics Population Population genetics Population structure Population studies Populations Seeds Standardization Structural analysis Tea Tree Biology Variance analysis |
| title | Assessment of genetic diversity, population structure, and phylogenetic relationships among the Northeast Indian and South Indian commercially released tea cultivars using TE-AFLP markers |
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