Phaseolus vulgaris ARRA Release, version 0.9 PRE-RELEASE

Overview
2014

This Phaseolus vulgaris assembly for the Andean line G19833 was made available by Phytozome as a PRE-RELEASE and has been deprecated in favour of the newest published release available here. This pre-release assembly was used in our Common Bean 454 SNP Discovery Project to anchor the reads for SNP calling and is made available here simply to provide context for that analysis. The main assembly was generated using Newbler version 2.5.3. This is an improved preliminary release of Phaseolus vulgaris that uses all of the ARRA generated data (DOE-JGI, ARRA, and USDA-ARS funding).

Genome Assembly Statistics:

  • Main genome scaffold total: 10132
  • Main genome contig total: 46828
  • Main genome scaffold sequence total: 486.9 MB
  • Main genome contig sequence total: 430.4 MB (-> 11.6% gap)
  • Main genome scaffold N/L50: 279/391.3 KB
  • Main genome contig N/L50: 7457/15.8 KB
  • Number of scaffolds > 50 KB: 1601
  • % main genome in scaffolds > 50 KB: 87.4%

Citation: A reference genome for common bean and genome-wide analysis of dual domestications. Jeremy Schmutz, Phillip E McClean, Sujan Mamidi, G Albert Wu, Steven B Cannon, Jane Grimwood, Jerry Jenkins, Shengqiang Shu, Qijian Song, Carolina Chavarro, Mirayda Torres-Torres, Valerie Geffroy, Samira Mafi Moghaddam, Dongying Gao, Brian Abernathy, Karrie Barry, Matthew Blair, Mark A Brick, Mansi Chovatia, Paul Gepts, David M Goodstein, Michael Gonzales, Uffe Hellsten, David L Hyten, Gaofeng Jia, James D Kelly, Dave Kudrna, Rian Lee, Manon M S Richard, Phillip N Miklas, Juan M Osorno, Josiane Rodrigues, Vincent Thareau, Carlos A Urrea, Mei Wang, Yeisoo Yu, Ming Zhang, Rod A Wing, Perry B Cregan, Daniel S Rokhsar and Scott A Jackson Nature Genetics 46, 707 - 713 (2014) doi:10.1038/ng.3008

Properties
Additional information about this project:
Property NameValue
TypeGenome Assembly
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