Novel SSR markers from BAC-end sequences, DArT arrays and a comprehensive genetic map with 1,291 marker loci for chickpea (Cicer arietinum L.)

dc.creatorThudi, M.
dc.creatorBohra, A.
dc.creatorNayak, S.N.
dc.creatorVarghese, N.
dc.creatorShah, T.
dc.creatorPenmetsa, R.V.
dc.creatorThirunavukkarasu, N.
dc.creatorGudipati, S.
dc.creatorPooran M. Gaur
dc.creatorKulwal, P.L.
dc.creatorUpadhyaya, H.
dc.creatorKavi Kishor Bilhan Polavarapu
dc.creatorWinter, P.
dc.creatorKahl, G.
dc.creatorTown, C.D.
dc.creatorKilian, A.
dc.creatorCook, D.
dc.creatorVarshney, R.K.
dc.date2022-10-04T00:00:15Z
dc.date2022-10-04T00:00:15Z
dc.date2011
dc.date.accessioned2023-07-17T20:09:37Z
dc.date.available2023-07-17T20:09:37Z
dc.identifierhttps://hdl.handle.net/10883/22223
dc.identifier10.1371/journal.pone.0027275
dc.identifier.urihttps://repositorioslatinoamericanos.uchile.cl/handle/2250/7513978
dc.descriptionChickpea (Cicer arietinum L.) is the third most important cool season food legume, cultivated in arid and semi-arid regions of the world. The goal of this study was to develop novel molecular markers such as microsatellite or simple sequence repeat (SSR) markers from bacterial artificial chromosome (BAC)-end sequences (BESs) and diversity arrays technology (DArT) markers, and to construct a high-density genetic map based on recombinant inbred line (RIL) population ICC 4958 (C. arietinum)×PI 489777 (C. reticulatum). A BAC-library comprising 55,680 clones was constructed and 46,270 BESs were generated. Mining of these BESs provided 6,845 SSRs, and primer pairs were designed for 1,344 SSRs. In parallel, DArT arrays with ca. 15,000 clones were developed, and 5,397 clones were found polymorphic among 94 genotypes tested. Screening of newly developed BES-SSR markers and DArT arrays on the parental genotypes of the RIL mapping population showed polymorphism with 253 BES-SSR markers and 675 DArT markers. Segregation data obtained for these polymorphic markers and 494 markers data compiled from published reports or collaborators were used for constructing the genetic map. As a result, a comprehensive genetic map comprising 1,291 markers on eight linkage groups (LGs) spanning a total of 845.56 cM distance was developed (http://cmap.icrisat.ac.in/cmap/sm/cp/thudi/). The number of markers per linkage group ranged from 68 (LG 8) to 218 (LG 3) with an average inter-marker distance of 0.65 cM. While the developed resource of molecular markers will be useful for genetic diversity, genetic mapping and molecular breeding applications, the comprehensive genetic map with integrated BES-SSR markers will facilitate its anchoring to the physical map (under construction) to accelerate map-based cloning of genes in chickpea and comparative genome evolution studies in legumes.
dc.languageEnglish
dc.publisherPublic Library of Science
dc.rightsCIMMYT manages Intellectual Assets as International Public Goods. The user is free to download, print, store and share this work. In case you want to translate or create any other derivative work and share or distribute such translation/derivative work, please contact CIMMYT-Knowledge-Center@cgiar.org indicating the work you want to use and the kind of use you intend; CIMMYT will contact you with the suitable license for that purpose
dc.rightsOpen Access
dc.source11
dc.source6
dc.source1932-6203
dc.sourcePLoS ONE
dc.sourcee27275
dc.subjectAGRICULTURAL SCIENCES AND BIOTECHNOLOGY
dc.subjectMolecular Markers
dc.subjectRecombinant Inbred Lines
dc.subjectGENETIC MARKERS
dc.subjectMICROSATELLITES
dc.subjectPLANTS
dc.subjectDNA
dc.subjectCHICKPEAS
dc.subjectARRAYS
dc.subjectTECHNOLOGY
dc.subjectCHROMOSOME MAPPING
dc.subjectGENETIC VARIATION
dc.subjectGENOTYPES
dc.subjectMOLECULAR CLONING
dc.titleNovel SSR markers from BAC-end sequences, DArT arrays and a comprehensive genetic map with 1,291 marker loci for chickpea (Cicer arietinum L.)
dc.typeArticle
dc.typePublished Version
dc.coverageSan Francisco, CA (USA)


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