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A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies

OAR@ICRISAT

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Relation http://oar.icrisat.org/8909/
https://pag.confex.com/pag/xxii/webprogram/Paper12543.html
 
Title A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies
 
Creator Ruperao, P
Bayer, P E
Chan, C K K
Azam, S
Karafiatova, M
Hayashi, S
Cizkova, J
Saxena, R K
Simkova, H
Song, C
Vrána, J
Chitikineni, A
Visendi, P
Gaur, P M
Millan, T
Singh, K B
Taran, B
Wang, J
Batley, J
Dolezel, J
Varshney, R K
Edwards, D
 
Subject Chickpea
 
Description The ability to isolate individual chromosomes combined with next generation sequencing permits the validation of genome assemblies at the chromosome level. We demonstrate this approach by the assessment of the recently published chickpea kabuli (Varshney et al 2013) and desi (Jain et al 2013) genomes. While previous genetic analysis suggests that these genomes should be very similar, a comparison of their published assemblies highlights significant differences. Our chromosomal genomics analysis highlights regions that appear to have been mis-assembled in the kabuli genome and identifies large scale mis-assembly in the draft desi genome. The integration of chromosomal genomics with skimGBS based genome assembly tools has the potential to significantly improve genome assemblies. The approach could be applied both for new genome assemblies as well as published assemblies, and complements currently applied genome assembly strategies.
 
Publisher The University of Queensland
 
Date 2014-01-13
 
Type Other
PeerReviewed
 
Format application/pdf
 
Language en
 
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Identifier http://oar.icrisat.org/8909/1/A%20chromosomal%20genomics%20approach%20to%20assess%20and%20validate%20the%20desi%20and%20kabuli%20draft%20chickpea%20genome%20assemblies.pdf
Ruperao, P and Bayer, P E and Chan, C K K and Azam, S and Karafiatova, M and Hayashi, S and Cizkova, J and Saxena, R K and Simkova, H and Song, C and Vrána, J and Chitikineni, A and Visendi, P and Gaur, P M and Millan, T and Singh, K B and Taran, B and Wang, J and Batley, J and Dolezel, J and Varshney, R K and Edwards, D (2014) A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies. The University of Queensland, Australia.