Assessing genetic diversity and population structure in a citrus germplasm collection utilizing simple sequence repeat markers (SSRs) - PubMed (original) (raw)
Comparative Study
. 2006 May;112(8):1519-31.
doi: 10.1007/s00122-006-0255-9. Epub 2006 Apr 20.
Affiliations
- PMID: 16699791
- DOI: 10.1007/s00122-006-0255-9
Comparative Study
Assessing genetic diversity and population structure in a citrus germplasm collection utilizing simple sequence repeat markers (SSRs)
Noelle A Barkley et al. Theor Appl Genet. 2006 May.
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.
Similar articles
- Phylogenetic relationships among citrus and its relatives as revealed by SSR markers.
Pang XM, Hu CG, Deng XX. Pang XM, et al. Yi Chuan Xue Bao. 2003 Jan;30(1):81-7. Yi Chuan Xue Bao. 2003. PMID: 12812081 - Exploiting BAC-end sequences for the mining, characterization and utility of new short sequences repeat (SSR) markers in Citrus.
Biswas MK, Chai L, Mayer C, Xu Q, Guo W, Deng X. Biswas MK, et al. Mol Biol Rep. 2012 May;39(5):5373-86. doi: 10.1007/s11033-011-1338-5. Epub 2011 Dec 15. Mol Biol Rep. 2012. PMID: 22170603 - Genome-wide regulatory gene-derived SSRs reveal genetic differentiation and population structure in fiber flax genotypes.
Saha D, Rana RS, Das S, Datta S, Mitra J, Cloutier SJ, You FM. Saha D, et al. J Appl Genet. 2019 Feb;60(1):13-25. doi: 10.1007/s13353-018-0476-z. Epub 2018 Oct 27. J Appl Genet. 2019. PMID: 30368734 - Simple sequence repeat polymorphisms (SSRPs) for evaluation of molecular diversity and germplasm classification of minor crops.
Park YJ, Lee JK, Kim NS. Park YJ, et al. Molecules. 2009 Nov 10;14(11):4546-69. doi: 10.3390/molecules14114546. Molecules. 2009. PMID: 19924085 Free PMC article. Review.
Cited by
- Development and Assessment of SNP Genotyping Arrays for Citrus and Its Close Relatives.
Hiraoka Y, Ferrante SP, Wu GA, Federici CT, Roose ML. Hiraoka Y, et al. Plants (Basel). 2024 Feb 29;13(5):691. doi: 10.3390/plants13050691. Plants (Basel). 2024. PMID: 38475537 Free PMC article. - Molecular genetic divergence analysis amongst high curcumin lines of Golden Crop (Curcuma longa L.) using SSR marker and use in trait-specific breeding.
Gogoi A, Munda S, Paw M, Begum T, Siddiqui MH, Gaafar AZ, Kesawat MS, Lal M. Gogoi A, et al. Sci Rep. 2023 Nov 11;13(1):19690. doi: 10.1038/s41598-023-46779-5. Sci Rep. 2023. PMID: 37952010 Free PMC article. - Protease inhibitor ASP enhances freezing tolerance by inhibiting protein degradation in kumquat.
Yang H, Qiao KW, Teng JJ, Chen JB, Zhong YL, Rao LQ, Xiong XY, Li H. Yang H, et al. Hortic Res. 2023 Feb 16;10(4):uhad023. doi: 10.1093/hr/uhad023. eCollection 2023 Apr. Hortic Res. 2023. PMID: 37786860 Free PMC article. - Comprehensive genome-wide identification and transferability of chromosome-specific highly variable microsatellite markers from citrus species.
Singh J, Sharma A, Sharma V, Gaikwad PN, Sidhu GS, Kaur G, Kaur N, Jindal T, Chhuneja P, Rattanpal HS. Singh J, et al. Sci Rep. 2023 Jul 5;13(1):10919. doi: 10.1038/s41598-023-37024-0. Sci Rep. 2023. PMID: 37407627 Free PMC article.
References
- Theor Appl Genet. 1992 Jun;84(1-2):49-56 - PubMed
- Am J Hum Genet. 1980 May;32(3):314-31 - PubMed
- Theor Appl Genet. 1996 Jul;93(1-2):190-8 - PubMed
- Genome. 2001 Jun;44(3):432-8 - PubMed
- Nature. 1994 Mar 31;368(6470):455-7 - PubMed
Publication types
MeSH terms
Substances
LinkOut - more resources
Full Text Sources