Genome-wide association studies of Ca and Mn in the seeds of the common bean (Phaseolus vulgaris L.)

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dc.contributor.authorErdogmus, S.
dc.contributor.authorAtes, D.
dc.contributor.authorNemli, S.
dc.contributor.authorYagmur, B.
dc.contributor.authorAsciogul, T.K.
dc.contributor.authorOzkuru, E.
dc.contributor.authorTanyolac, M.B.
dc.date.accessioned2020-12-01T11:52:25Z
dc.date.available2020-12-01T11:52:25Z
dc.date.issued2020
dc.departmentEge Üniversitesien_US
dc.description.abstractSNP markers linked to genes controlling Ca and Mn uptake were identified in the common bean seeds using DArT-based association mapping (AM). The Ca concentration in the seeds varied between 475 and 3,100 mg kg?1 with an average of 1,280.9 mg kg?1 and the Mn concentration ranged from 4.87 to 27.54 mg kg?1 with a mean of 11.76 mg kg?1. A total of 19,204 SNP markers were distributed across 11 chromosomes that correspond to the haploid genome number of the common bean. The highest value of ?K was determined as K = 2, and 173 common bean genotypes were split into two main subclusters as POP1 (Mesoamerican) and POP2 (Andean). The results of the UPGMA dendrogram and PCA confirmed those of STRUCTURE analysis. MLM based on the Q + K model identified a large number of markers-trait associations. Of the 19,204 SNPs, five (on Pv2, 3, 8, 10 and 11) and four (on Pv2, 3, 8 and 11) SNPs were detected to be significantly related to the Ca content of the beans grown in Bornova and Menemen, respectively in 2015. In 2016, six SNPs (on Pv1–4, 8 and 10) were identified to be significantly associated with the Ca content of the seeds obtained from Bornova and six SNPs (on Pv1–4, 8 and 10) from Menemen. Eight (on Pv3, 5 and 11) and four (on Pv2, 5 and 11) SNPs had a significant association with Mn content in Bornova in 2015 and 2016, respectively. In Menemen, eight (on Pv3, 5, 8 and 11) and 11 (on Pv1, 2, 5, 10 and 11) SNPs had a significant correlation with Mn content in 2015 and 2016, respectively. © 2020 Elsevier Inc.en_US
dc.description.sponsorshipTürkiye Bilimsel ve Teknolojik Araştirma Kurumu, TÜBITAK: TUBITAK-114O555en_US
dc.description.sponsorshipThe study was financially supported by The Scientific and Technological Research Council of Turkey (TUBITAK) with project no TUBITAK-114O555 . We would like to especially thank Paul Gepts from the University of California-Davis (USA) for kindly sharing his control group of common bean accessions (the Mesoamerican and Andean gene pools).en_US
dc.identifier.doi10.1016/j.ygeno.2020.03.030en_US
dc.identifier.endpage4546en_US
dc.identifier.issn0888-7543
dc.identifier.issue6en_US
dc.identifier.pmid32763354en_US
dc.identifier.scopus2-s2.0-85089348268en_US
dc.identifier.scopusqualityQ2en_US
dc.identifier.startpage4536en_US
dc.identifier.urihttps://doi.org/10.1016/j.ygeno.2020.03.030
dc.identifier.urihttps://hdl.handle.net/11454/61533
dc.identifier.volume112en_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.language.isoenen_US
dc.publisherAcademic Press Inc.en_US
dc.relation.ispartofGenomicsen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectAssociation mappingen_US
dc.subjectCalciumen_US
dc.subjectCommon beanen_US
dc.subjectDArTen_US
dc.subjectManganeseen_US
dc.subjectSNPen_US
dc.titleGenome-wide association studies of Ca and Mn in the seeds of the common bean (Phaseolus vulgaris L.)en_US
dc.typeArticleen_US

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