Phaseolus vulgaris 454 Sequencing & SNP Discovery Project

Overview
2009 to 2011

Eight germplasm were chosen for this project:CDC WM-2, BAT 93, Expresso, Higuera-E, Jalo EEP-558, PI 430219, SMARC1N-PN1, and W6-15578. Tissue was collected from multiple plants at various developmental stages for RNA extraction which led to the generation of 3'-anchored cDNA libraries using the method described in Parkin et al., 2010. Each line was sequenced using the Roche 454 Titanium sequencing protocol. Sequencing reads were aligned directly to the Phaseolus vulgaris genomic build v0.9 using GMap. Then loci which were polymorphic between at least two of the lines were identified resulting in 133,108 SNPs.  All SNPs were re-mapped to the published genome assembly 1.0 (Phytozome.org; Schmutz et al. 2014).

Properties
Additional information about this project:
Property NameValue
TypeResearch Experiment
Research Area
Breeding & Genetics

Plant breeding is the art and science of changing the traits of plants in order to produce desired characteristics. Plant breeding can be accomplished through many different techniques ranging from simply selecting plants with desirable characteristics for propagation, to more complex molecular techniques. ... [more]

 
Related Species

Dry Bean are high in starch, protein and dietary fiber, as well as being an excellent source of iron, potassium, selenium, molybdenum, thiamine, vitamin B6 and folate. Dry beans take longer to cook then most pulses, although cooking time can be shortened by soaking dried beans before cooking. Dry Bean is a highly variable species with growth habits ranging from bush varieties growing 20-60cm tall to vine varieties growing 2-3m long. While dry bean varieties range in growth habit all have characteristic green or purple alternate leaves and long pods containing 4-6 kidney-shaped seeds. ... [more]

 
Sequences, Variants & Markers
Data Type Number of Sequences Number of Variants Number of Markers
454 Sequencing 133,107*
SNP 133,107*
contig 35,235*