A whole genome DArT assay to assess germplasm collection diversity in common beans

dc.creatorBrinez, Boris
dc.creatorBlair, Matthew W.
dc.creatorKilian, Andrzej
dc.creatorMorais Carbonell, Sergio Augusto
dc.creatorChiorato, Allison Fernando
dc.creatorRubiano, Luciana Benchimol
dc.date2012
dc.date2013-09-19T18:05:58Z
dc.date2016-07-01T14:52:50Z
dc.date2013-09-19T18:05:58Z
dc.date2016-07-01T14:52:50Z
dc.date.accessioned2018-03-29T01:54:56Z
dc.date.available2018-03-29T01:54:56Z
dc.identifierMolecular Breeding. Springer, v.30, n.1, p.181-193, 2012
dc.identifier1380-3743
dc.identifierWOS:000304646100015
dc.identifier10.1007/s11032-011-9609-3
dc.identifierhttp://www.repositorio.unicamp.br/jspui/handle/REPOSIP/1864
dc.identifierhttp://repositorio.unicamp.br/jspui/handle/REPOSIP/1864
dc.identifier.urihttp://repositorioslatinoamericanos.uchile.cl/handle/2250/1308671
dc.descriptionFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)
dc.descriptionA Diversity Arrays Technology (DArT) marker system was applied for the first time to common beans (Phaseolus vulgaris L.) and tested on 89 accessions from the IAC and CIAT common bean breeding programs, as well as on landraces from the FAO collection. Seven frequently used restriction endonucleases were tested in combination with a rare-cutting restriction enzyme, PstI, to evaluate their suitability for DArT technology. Two restriction enzyme combinations (PstI/BstNI and PstI/TaqI) were selected to evaluate polymorphisms and PstI/BstNI, which yielded the most polymorphisms, was used to construct the final array. Genotyping was done by labelling the genomic representations with the fluorescent nucleotides cy3-dUTP and cy5-dUTP. The poly-linker fragment was labelled with 6-FAM and used as a control treatment and standard to determine the amount of DNA spotted on the array for each clone. DArTsoft version 7.3 software was used to analyse, identify and score polymorphic markers. Arrays containing individual fragments from these representations generated DArT fingerprints with a genotype call rate of 97.1% and a scoring reproducibility of at least 99.9%. A total of 2,501 polymorphic markers were found. Neighbour-joining distance matrices were used to create dispersion graphs that distinguished the two major gene pools of common beans and classified the accessions as either Andean or Mesoamerican. A principal coordinate analysis of the DArT marker results explained 82% of the total data variation. These results show that the DArT platform was accurate for studying the genetic diversity of the common bean and efficient for the large-scale detection of polymorphisms. These properties make marker technology a choice for future experiments. This is the first report to describe the use of DArT technology for genotyping the common bean.
dc.description30
dc.description1
dc.description181
dc.description193
dc.descriptionFundag (Fundacao de Apoio a Pesquisa Agricola)
dc.descriptionFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)
dc.descriptionFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)
dc.languageeng
dc.publisherSpringer
dc.publisherDordrecht
dc.relationMolecular Breeding
dc.rightsfechado
dc.sourceWOS
dc.subjectAndean and Mesoamerican gene pools
dc.subjectDiversity array technology
dc.subjectGenetic diversity
dc.subjectPhaseolus vulgaris L.
dc.subjectPHASEOLUS-VULGARIS L.
dc.subjectARRAYS TECHNOLOGY DART
dc.subjectGENETIC DIVERSITY
dc.subjectMICROSATELLITE MARKERS
dc.subjectWILD RELATIVES
dc.subjectLANDRACES
dc.subjectRESISTANCE
dc.subjectORIGIN
dc.subjectINTROGRESSION
dc.subjectAFLP
dc.titleA whole genome DArT assay to assess germplasm collection diversity in common beans
dc.typeArtículos de revistas


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