Skip to content
Home
About Us
Resources
Profiles Metrics
Authors Directory
Institutions Directory
Top Authors
Top Institutions
Top Sponsors
AI Digest
Contact Us
Menu
Home
About Us
Resources
Profiles Metrics
Authors Directory
Institutions Directory
Top Authors
Top Institutions
Top Sponsors
AI Digest
Contact Us
Home
About Us
Resources
Profiles Metrics
Authors Directory
Institutions Directory
Top Authors
Top Institutions
Top Sponsors
AI Digest
Contact Us
Menu
Home
About Us
Resources
Profiles Metrics
Authors Directory
Institutions Directory
Top Authors
Top Institutions
Top Sponsors
AI Digest
Contact Us
Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
biochemistry, genetics and molecular biology
Gene-Based Single Nucleotide Polymorphism Markers for Genetic and Association Mapping in Common Bean
BMC Genetics, Volume 13, Article 48, Year 2012
Notification
URL copied to clipboard!
Description
Background: In common bean, expressed sequence tags (ESTs) are an underestimated source of gene-based markers such as insertion-deletions (Indels) or single-nucleotide polymorphisms (SNPs). However, due to the nature of these conserved sequences, detection of markers is difficult and portrays low levels of polymorphism. Therefore, development of intron-spanning EST-SNP markers can be a valuable resource for genetic experiments such as genetic mapping and association studies.Results: In this study, a total of 313 new gene-based markers were developed at target genes. Intronic variation was deeply explored in order to capture more polymorphism. Introns were putatively identified after comparing the common bean ESTs with the soybean genome, and the primers were designed over intron-flanking regions. The intronic regions were evaluated for parental polymorphisms using the single strand conformational polymorphism (SSCP) technique and Sequenom MassARRAY system. A total of 53 new marker loci were placed on an integrated molecular map in the DOR364 × G19833 recombinant inbred line (RIL) population. The new linkage map was used to build a consensus map, merging the linkage maps of the BAT93 × JALO EEP558 and DOR364 × BAT477 populations. A total of 1,060 markers were mapped, with a total map length of 2,041 cM across 11 linkage groups. As a second application of the generated resource, a diversity panel with 93 genotypes was evaluated with 173 SNP markers using the MassARRAY-platform and KASPar technology. These results were coupled with previous SSR evaluations and drought tolerance assays carried out on the same individuals. This agglomerative dataset was examined, in order to discover marker-trait associations, using general linear model (GLM) and mixed linear model (MLM). Some significant associations with yield components were identified, and were consistent with previous findings.Conclusions: In short, this study illustrates the power of intron-based markers for linkage and association mapping in common bean. The utility of these markers is discussed in relation with the usefulness of microsatellites, the molecular markers by excellence in this crop. © 2012 Galeano et al.; licensee BioMed Central Ltd.
Available Materials
https://efashare.b-cdn.net/share/pmc/articles/PMC3464600/bin/1471-2156-13-48-S1.xlsx
https://efashare.b-cdn.net/share/pmc/articles/PMC3464600/bin/1471-2156-13-48-S2.xlsx
https://efashare.b-cdn.net/share/pmc/articles/PMC3464600/bin/1471-2156-13-48-S3.pptx
https://efashare.b-cdn.net/share/pmc/articles/PMC3464600/bin/1471-2156-13-48-S4.docx
https://efashare.b-cdn.net/share/pmc/articles/PMC3464600/bin/1471-2156-13-48-S5.pptx
https://efashare.b-cdn.net/share/pmc/articles/PMC3464600/bin/1471-2156-13-48-S6.pptx
https://efashare.b-cdn.net/share/pmc/articles/PMC3464600/bin/1471-2156-13-48-S7.xlsx
https://efashare.b-cdn.net/share/pmc/articles/PMC3464600/bin/1471-2156-13-48-S8.xlsx
Authors & Co-Authors
Galeano, Carlos H.
Belgium, Heverlee
Centre of Microbial and Plant Genetics Cmpg
Cortés, Andrés J.
Sweden, Uppsala
Evolutionsbiologiskt Centrum
Fernández, Andrea C.
United States, Washington, D.c.
Usda Agricultural Research Service
Soler, Alvaro
Colombia, Cali
Centro Internacional de Agricultura Tropical
Franco-Herrera, Natalia
Colombia, Cali
Centro Internacional de Agricultura Tropical
Makunde, Godwill S.
Zimbabwe, Harare
Crop Breeding Institute
Vanderleyden, Jos X.
Belgium, Heverlee
Centre of Microbial and Plant Genetics Cmpg
Blair, Matthew Wohlgemuth
Colombia, Cali
Centro Internacional de Agricultura Tropical
United States, Ithaca
Cornell University
Statistics
Citations: 91
Authors: 8
Affiliations: 6
Identifiers
Doi:
10.1186/1471-2156-13-48
e-ISSN:
14712156
Research Areas
Genetics And Genomics
Study Design
Cross Sectional Study