QTL mapping including codominant SNP markers with ploidy level information in a sugarcane progeny

QTL mapping including codominant SNP markers with ploidy level information in a sugarcane progeny

Author Costa, E. A. Autor UNIFESP Google Scholar
Anoni, C. O. Google Scholar
Mancini, M. C. Google Scholar
Santos, F. R. C. Google Scholar
Marconi, T. G. Google Scholar
Gazaffi, R. Google Scholar
Pastina, M. M. Google Scholar
Perecin, D. Google Scholar
Mollinari, M. Google Scholar
Xavier, M. A. Google Scholar
Pinto, L. R. Google Scholar
Souza, A. P. Google Scholar
Garcia, A. A. F. Google Scholar
Abstract Quantitative trait locus (QTL) mapping contributes to sugarcane (Saccharum spp.) breeding programs by providing information about the genetic effects, positioning and number of QTLs. Combined with marker-assisted selection, it can help breeders reduce the time required to develop new sugarcane varieties. We performed a QTL mapping study for important agronomic traits in sugarcane using the composite interval mapping method for outcrossed species. A new approach allowing the 1:2:1 segregation ratio and different ploidy levels for SNP markers was used to construct an integrated genetic linkage map that also includes AFLP and SSR markers. Were used 688 molecular markers with 1:1, 3:1 and 1:2:1 segregation ratios. A total of 187 individuals from a bi-parental cross (IACSP95-3018 and IACSP93-3046) were assayed across multiple harvests from two locations. The evaluated yield components included stalk diameter (SD), stalk weight (SW), stalk height (SH), fiber percentage (Fiber), sucrose content (Pol) and soluble solid content (Brix). The genetic linkage map covered 4512.6 cM and had 118 linkage groups corresponding to 16 putative homology groups. A total of 25 QTL were detected for SD (six QTL), SW (five QTL), SH (four QTL), Fiber (five QTL), Pol (two QTL) and Brix (three QTL). The percentage of phenotypic variation explained by each QTL ranged from 0.069 to 3.87 %, with a low individual effect because of the high ploidy level. The mapping model provided estimates of the segregation ratio of each mapped QTL (1:2:1, 3:1 or 1:1). Our results provide information about the genetic organization of the sugarcane genome and constitute the first step toward a better dissection of complex traits.
Keywords Integrated map
Linkage analysis
Multiple dosage
Polyploidy
Language English
Sponsor Conselho Nacional de Desenvolvimento Cientifico e Tecnologico (CNPq) from Brazil [145478/2012-2]
Fundacao de Amparo a Pesquisa do Estado de Sao Paulo (FAPESP) from Brazil [2005/55258-6, 2008/52197-4, 2010/50031-1, 2010/06715-3, 2010/50549-0]
Instituto Nacional de Ciencia e Tecnologia do Bioetanol [574002/2008-1, 2008/57908-6]
Coordenacao de Aperfeicoamento de Pessoal de Nivel Superior (CAPES, Computacional Biology Program)
CeProBio Project
CNPq
Grant number CNPq:145478/2012-2
FAPESP:2005/55258-6
2008/52197-4
2010/50032-1
2010/06715-3
2010/50549-0
INCT:574002/2008-1
2008/57908-6
Date 2016
Published in Euphytica. Dordrecht, v. 211, n. 1, p. 1-16, 2016.
ISSN 0014-2336 (Sherpa/Romeo, impact factor)
Publisher Springer
Extent 1-16
Origin http://dx.doi.org/10.1007/s10681-016-1746-7
Access rights Closed access
Type Revisão
Web of Science ID WOS:000383128700001
URI http://repositorio.unifesp.br/handle/11600/51114

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