Assessment of the genetic variability amongst mandarin (Citrus reticulata Blanco) accessions in Bhutan using AFLP markers
Identifieur interne : 000777 ( Main/Exploration ); précédent : 000776; suivant : 000778Assessment of the genetic variability amongst mandarin (Citrus reticulata Blanco) accessions in Bhutan using AFLP markers
Auteurs : Kinley Dorji [Bhoutan] ; Chinawat Yapwattanaphun [Thaïlande]Source :
- BMC Genetics [ 1471-2156 ] ; 2015.
Abstract
Bhutan is a small Himalayan country lying within the region considered to be the origin of citrus. Diverse citrus wild types grow naturally in different climates, elevations and edaphic conditions, but only mandarin is cultivated commercially. The first report of Huanglongbing (also known as greening disease) in Bhutan in 2003, and the threat it posed to the country’s citrus orchards prompted the collection of mandarin germplasm from across the country. This paper describes the genetic diversity of mandarin accessions in Bhutan using amplified fragment length polymorphic (AFLP) markers.
Twenty three accessions of Bhutanese mandarin were analyzed using AFLP markers to assess the genetic variability that is believed to exist only in Bhutan and some parts of North East India and South China. Five primer pairs (E-ACA/M-CAG, E-ACG/M-CAT, E-ACC/M-CTT, E-AAG/M-CAA and E-ACA/M-CTC) were identified (based on the number and quality of polymorphic bands produced) and used for the analyses. A total of 244 bands were scored visually of which 126 (52%) were polymorphic with an average polymorphism information content of 0.95 per marker. A cluster dendrogram based on multiscale bootstrap sampling categorized twenty three accessions into two broad groups containing eight and 14 accessions, respectively. Group A consisted accessions (
This study indicates that Bhutanese mandarin germplasm collected from across the country are genetically diverse although the level of variability differed among the accessions assessed. The variation in genetic variability was observed irrespective of where the accessions were collected suggesting that phenotype and geographical location can serve a basis for future germplasm collection in Bhutan. Further, five primer pair combinations could separate 23 mandarins accessions considered in this study, suggesting that AFLP markers can be a useful tool for future identification.
Url:
DOI: 10.1186/s12863-015-0198-8
PubMed: 25902849
PubMed Central: 4407367
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Assessment of the genetic variability amongst mandarin (<italic>Citrus reticulata</italic> Blanco) accessions in Bhutan using AFLP markers</title><author><name sortKey="Dorji, Kinley" sort="Dorji, Kinley" uniqKey="Dorji K" first="Kinley" last="Dorji">Kinley Dorji</name><affiliation wicri:level="1"><nlm:aff id="Aff1">Department of Agriculture, Renewable Natural Resources Research and Development Center, Bajo, Wangduephodrang, Bhutan</nlm:aff><country xml:lang="fr">Bhoutan</country><wicri:regionArea>Department of Agriculture, Renewable Natural Resources Research and Development Center, Bajo, Wangduephodrang</wicri:regionArea><wicri:noRegion>Wangduephodrang</wicri:noRegion></affiliation></author><author><name sortKey="Yapwattanaphun, Chinawat" sort="Yapwattanaphun, Chinawat" uniqKey="Yapwattanaphun C" first="Chinawat" last="Yapwattanaphun">Chinawat Yapwattanaphun</name><affiliation wicri:level="1"><nlm:aff id="Aff2">Department of Horticulture, Kasetsart University, Bangkok, 10900 Thailand</nlm:aff><country xml:lang="fr">Thaïlande</country><wicri:regionArea>Department of Horticulture, Kasetsart University, Bangkok</wicri:regionArea><wicri:noRegion>Bangkok</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">25902849</idno><idno type="pmc">4407367</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4407367</idno><idno type="RBID">PMC:4407367</idno><idno type="doi">10.1186/s12863-015-0198-8</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000566</idno><idno type="wicri:Area/Pmc/Curation">000565</idno><idno type="wicri:Area/Pmc/Checkpoint">000598</idno><idno type="wicri:Area/Ncbi/Merge">001B01</idno><idno type="wicri:Area/Ncbi/Curation">001B01</idno><idno type="wicri:Area/Ncbi/Checkpoint">001B01</idno><idno type="wicri:Area/Main/Merge">000777</idno><idno type="wicri:Area/Main/Curation">000777</idno><idno type="wicri:Area/Main/Exploration">000777</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Assessment of the genetic variability amongst mandarin (<italic>Citrus reticulata</italic> Blanco) accessions in Bhutan using AFLP markers</title><author><name sortKey="Dorji, Kinley" sort="Dorji, Kinley" uniqKey="Dorji K" first="Kinley" last="Dorji">Kinley Dorji</name><affiliation wicri:level="1"><nlm:aff id="Aff1">Department of Agriculture, Renewable Natural Resources Research and Development Center, Bajo, Wangduephodrang, Bhutan</nlm:aff><country xml:lang="fr">Bhoutan</country><wicri:regionArea>Department of Agriculture, Renewable Natural Resources Research and Development Center, Bajo, Wangduephodrang</wicri:regionArea><wicri:noRegion>Wangduephodrang</wicri:noRegion></affiliation></author><author><name sortKey="Yapwattanaphun, Chinawat" sort="Yapwattanaphun, Chinawat" uniqKey="Yapwattanaphun C" first="Chinawat" last="Yapwattanaphun">Chinawat Yapwattanaphun</name><affiliation wicri:level="1"><nlm:aff id="Aff2">Department of Horticulture, Kasetsart University, Bangkok, 10900 Thailand</nlm:aff><country xml:lang="fr">Thaïlande</country><wicri:regionArea>Department of Horticulture, Kasetsart University, Bangkok</wicri:regionArea><wicri:noRegion>Bangkok</wicri:noRegion></affiliation></author></analytic><series><title level="j">BMC Genetics</title><idno type="eISSN">1471-2156</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Bhutan is a small Himalayan country lying within the region considered to be the origin of citrus. Diverse citrus wild types grow naturally in different climates, elevations and edaphic conditions, but only mandarin is cultivated commercially. The first report of Huanglongbing (also known as greening disease) in Bhutan in 2003, and the threat it posed to the country’s citrus orchards prompted the collection of mandarin germplasm from across the country. This paper describes the genetic diversity of mandarin accessions in Bhutan using amplified fragment length polymorphic (AFLP) markers.</p></sec><sec><title>Results</title><p>Twenty three accessions of Bhutanese mandarin were analyzed using AFLP markers to assess the genetic variability that is believed to exist only in Bhutan and some parts of North East India and South China. Five primer pairs (E-ACA/M-CAG, E-ACG/M-CAT, E-ACC/M-CTT, E-AAG/M-CAA and E-ACA/M-CTC) were identified (based on the number and quality of polymorphic bands produced) and used for the analyses. A total of 244 bands were scored visually of which 126 (52%) were polymorphic with an average polymorphism information content of 0.95 per marker. A cluster dendrogram based on multiscale bootstrap sampling categorized twenty three accessions into two broad groups containing eight and 14 accessions, respectively. Group A consisted accessions (<italic>Tsirang1</italic>, <italic>Tsirang3</italic>, <italic>Sarpang1</italic>, <italic>Dagana4</italic>, <italic>Samtse4</italic>, <italic>Dagana1</italic>, and <italic>Trongsa2</italic>) from five districts (Tsirang, Sarpang, Samtse, Dagana and Trongsa) and their grouping was strongly supported by bootstrap analysis (B <italic>p</italic>-value = 96%, AU <italic>p</italic>-value = 86%). Cluster B consisted of 14 accessions divided into three sub-groups (1, 2 and 3). However, bootstrap value supported significantly for subgroup1 (containing accessions: <italic>Tsirang4</italic>, <italic>Sarpang5</italic>, and <italic>Tsirang2</italic>) <italic>and</italic> subgroup3 (with accessions - <italic>Zhemgang2</italic>, <italic>Zhemgang3</italic> and <italic>Zhemgang4</italic>).</p></sec><sec><title>Conclusion</title><p>This study indicates that Bhutanese mandarin germplasm collected from across the country are genetically diverse although the level of variability differed among the accessions assessed. The variation in genetic variability was observed irrespective of where the accessions were collected suggesting that phenotype and geographical location can serve a basis for future germplasm collection in Bhutan. Further, five primer pair combinations could separate 23 mandarins accessions considered in this study, suggesting that AFLP markers can be a useful tool for future identification.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Das, A" uniqKey="Das A">A Das</name></author><author><name sortKey="Mondal, B" uniqKey="Mondal B">B Mondal</name></author><author><name sortKey="Sarkar, J" uniqKey="Sarkar J">J Sarkar</name></author><author><name sortKey="Chaudhuri, S" uniqKey="Chaudhuri S">S Chaudhuri</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Rahman, Mm" uniqKey="Rahman M">MM Rahman</name></author><author><name sortKey="Nito, N" uniqKey="Nito N">N Nito</name></author><author><name sortKey="Isshiki, S" uniqKey="Isshiki S">S Isshiki</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Koehler Santos, P" uniqKey="Koehler Santos P">P 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