Assessing genetic diversity and population structure in a citrus germplasm collection utilizing simple sequence repeat markers (SSRs)

Publication Overview
TitleAssessing genetic diversity and population structure in a citrus germplasm collection utilizing simple sequence repeat markers (SSRs)
AuthorsBarkley N, Roose M, Krueger R, Federici C
TypeJournal Article
Journal NameTheoretical and applied genetics
Volume112
Issue8
Year2006
Page(s)1519-1531
CitationBarkley N, Roose M, Krueger R, Federici C. Assessing genetic diversity and population structure in a citrus germplasm collection utilizing simple sequence repeat markers (SSRs). Theoretical and applied genetics. 2006; 112(8):1519-1531.

Abstract

Twenty-four simple sequence repeat (SSR) markers were used to detect molecular polymorphisms among 370 mostly sexually derived Citrus accessions from the collection of citrus germplasm maintained at the University of California, Riverside. A total of 275 alleles were detected with an average of 11.5 alleles per locus and an average polymorphism information content of 0.625. Genetic diversity statistics were calculated for each individual SSR marker, the entire population, and for specified Citrus groups. Phylogenetic relationships among all citrus accessions and putative non-hybrid Citrus accessions were determined by constructing neighbor-joining trees. There was strong support for monophyly at the species level when hybrid taxa were removed from the data set. Both of these trees indicate that Fortunella clusters within the genus Citrus but Poncirus is a sister genus to Citrus. Additionally, Citrus accessions were probabilistically assigned to populations or multiple populations if their genotype indicated an admixture by a model-based clustering approach. This approach identified five populations in this data set. These separate analyses (distance and model based) both support the hypothesis that there are only a few naturally occurring species of Citrus and most other types of Citrus arose through various hybridization events between these naturally occurring forms.
Features
This publication contains information about 11 features:
Feature NameUniquenameType
AC01AC01genetic_marker
AG14AG14genetic_marker
ATC09ATC09genetic_marker
CAG01CAG01genetic_marker
CAT01CAT01genetic_marker
CCT01CCT01genetic_marker
CT02CT02genetic_marker
CT19CT19genetic_marker
CT21CT21genetic_marker
CTT01CTT01genetic_marker
GT03GT03genetic_marker
Stocks
This publication contains information about 212 stocks:
Stock NameUniquenameType
OlindaOlindacultivar
AbhayapuriAbhayapuriwild_unimproved
AddanimmaAddanimmawild_unimproved
AfricanAfricanwild_unimproved
AlemoenAlemoenwild_unimproved
Anseikan (C. sp.)Anseikan (C. sp.)wild_unimproved
ArajonArajonwild_unimproved
AsahikanAsahikanwild_unimproved
Australian RedAustralian Redwild_unimproved
BadhriBadhriwild_unimproved
BanokanBanokanwild_unimproved
BanpeiyuBanpeiyuwild_unimproved
BatangasBatangascultivar
BearssBearsswild_unimproved
BeladyBeladywild_unimproved
BengalBengalwild_unimproved
BergamotBergamotwild_unimproved
Bergamotto #18Bergamotto #18wild_unimproved
Bishop RedBishop Redwild_unimproved
BitroniBitroniwild_unimproved
Borneo RangpurBorneo Rangpurwild_unimproved
Bouquet des FleursBouquet des Fleurswild_unimproved
BowerBowerwild_unimproved
BrazilianBrazilianwild_unimproved
CabuyaoCabuyaowild_unimproved

Pages

Properties
Additional details for this publication include:
Property NameValue
Publication TypeJournal Article
Publication Date2006
Published Location|||
Language Abbreng
Publication Model[electronic resource].
URLhttp://dx.doi.org/10.1007/s00122-006-0255-9
Keywordsfruit trees, Citrus, Citrus sinensis, oranges, Citrus reticulata, mandarins, Citrus aurantium, Citrus jambhiri, lemons, Citrus aurantiifolia, limes, Citrus medica, Citrus ichangensis, Citrus hystrix, Citrus macrophylla, Citrus maxima, Citrus limonia, pummelos, Citrus paradisi, germplasm, genetic variation, population structure, microsatellite repeats, alleles, linkage (genetics), phylogeny, Citrus latipes, Cirus micrantha, Citrus hanaju
Cross References
This publication is also available in the following databases:
DatabaseAccession
AGL: USDA National Agricultural LibraryAGL:3835410
PMID: PubMedPMID:16699791