Journal article
Development of candidate gene markers associated to common bacterial blight resistance in common bean
Theoretical and applied genetics, Vol.125(7), pp.1525-1537
11/2012
Handle:
https://hdl.handle.net/2376/112349
PMID: 22798059
Abstract
Common bacterial blight (CBB), caused by Xanthomonas axonopodis pv. phaseoli (Xap), is a major yield-limiting factor of common bean (Phaseolus vulgaris L.) production around the world. Two major CBB-resistant quantitative trait loci (QTL), linked to the sequence characterized amplified region markers BC420 and SU91, are located at chromosomes 6 and 8, respectively. Using map-based cloning approach, four bacterial artificial chromosome (BAC) clones from the BC420-QTL locus and one BAC clone containing SU91 were sequenced by Roche 454 technique and subsequently assembled using merged assemblies from three different programs. Based on the quality of the assembly, only the sequences of BAC 32H6 and 4K7 were used for candidate gene marker (CGM) development and candidate gene (CG) selection. For the BC420-QTL locus, 21 novel genes were predicted in silico by FGENESH using Medicago gene model, whereas 16 genes were identified in the SU91-QTL locus. For each putative gene, one or more primer pairs were designed and tested in the contrasting near isogenic lines. Overall, six and nine polymorphic markers were found in the SU91- and BC420-QTL loci, respectively. Afterwards, association mapping was conducted in a breeding population of 395 dry bean lines to discover marker-trait associations. Two CGMs per each locus showed better association with CBB resistance than the BC420 and SU91 markers, which include BC420-CG10B and BC420-CG14 for BC420_QTL locus, and SU91-CG10 and SU91-CG11 for SU91_QTL locus. The strong associations between CBB resistance and the CGs 10 and 14 from BC420_QTL locus and the CGs 10 and 11 from SU91_QTL locus indicate that the genes 10 and 14 from the BC420 locus are potential CGs underlying the BC420_QTL locus, whereas the genes 10 and 11 from the SU91 locus are potential CGs underlying the SU91_QTL locus. The superiority of SU91-CG11 was further validated in a recombinant inbred line population Sanilac × OAC 09-3. Thus, co-dominant CGMs, BC420-CG14 and SU91-CG11, are recommended to replace BC420 and SU91 for marker-assisted selection of common bean with resistance to CBB.
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Details
- Title
- Development of candidate gene markers associated to common bacterial blight resistance in common bean
- Creators
- Chun Shi - Greenhouse and Processing Crops Research Centre Agriculture and Agri-Food Canada Harrow ON N0R 1G0 CanadaKangfu Yu - Greenhouse and Processing Crops Research Centre Agriculture and Agri-Food Canada Harrow ON N0R 1G0 CanadaWeilong Xie - Department of Plant Agriculture University of Guelph Crop Science Building Guelph ON N1G 2W1 CanadaGregory Perry - Department of Plant Agriculture University of Guelph Crop Science Building Guelph ON N1G 2W1 CanadaAlireza Navabi - Department of Plant Agriculture University of Guelph Crop Science Building Guelph ON N1G 2W1 CanadaK Peter Pauls - Department of Plant Agriculture University of Guelph Crop Science Building Guelph ON N1G 2W1 CanadaPhillip Miklas - Vegetable and Forage Crop Production Unit U.S. Department of Agriculture Prosser WA 99350 USADeidré Fourie - ARC Grain Crops Institute Potchefstroom Republic of South Africa
- Publication Details
- Theoretical and applied genetics, Vol.125(7), pp.1525-1537
- Academic Unit
- Crop and Soil Sciences, Department of
- Publisher
- Springer-Verlag; Berlin/Heidelberg
- Identifiers
- 99900547720501842
- Language
- English
- Resource Type
- Journal article