Login | Create Account (DAF staff only)

Integrating sorghum whole genome sequence information with a compendium of sorghum QTL studies reveals uneven distribution of QTL and of gene-rich regions with significant implications for crop improvement.

Mace, E.S. and Jordan, D.R. (2011) Integrating sorghum whole genome sequence information with a compendium of sorghum QTL studies reveals uneven distribution of QTL and of gene-rich regions with significant implications for crop improvement. TAG Theoretical and Applied Genetics, 123 (1). pp. 169-191.

Full text not currently attached. Access may be available via the Publisher's website or OpenAccess link.

Article Link(s): http://dx.doi.org/10.1007/s00122-011-1575-y

Publisher URL: http://www.springerlink.com

Abstract

A comprehensive analysis was conducted using 48 sorghum QTL studies published from 1995 to 2010 to make information from historical sorghum QTL experiments available in a form that could be more readily used by sorghum researchers and plant breeders. In total, 771 QTL relating to 161 unique traits from 44 studies were projected onto a sorghum consensus map. Confidence intervals (CI) of QTL were estimated so that valid comparisons could be made between studies. The method accounted for the number of lines used and the phenotypic variation explained by individual QTL from each study. In addition, estimated centimorgan (cM) locations were calculated for the predicted sorghum gene models identified in Phytozome (JGI GeneModels SBI v1.4) and compared with QTL distribution genome-wide, both on genetic linkage (cM) and physical (base-pair/bp) map scales. QTL and genes were distributed unevenly across the genome. Heterochromatic enrichment for QTL was observed, with approximately 22% of QTL either entirely or partially located in the heterochromatic regions. Heterochromatic gene enrichment was also observed based on their predicted cM locations on the sorghum consensus map, due to suppressed recombination in heterochromatic regions, in contrast to the euchromatic gene enrichment observed on the physical, sequence-based map. The finding of high gene density in recombination-poor regions, coupled with the association with increased QTL density, has implications for the development of more efficient breeding systems in sorghum to better exploit heterosis. The projected QTL information described, combined with the physical locations of sorghum sequence-based markers and predicted gene models, provides sorghum researchers with a useful resource for more detailed analysis of traits and development of efficient marker-assisted breeding strategies.

Item Type:Article
Corporate Creators:Department of Employment, Economic Development & Innovations (DEEDI), Agri-Science, Crop and Food Science
Business groups:Agri-Science, Crop and Food Science
Additional Information:© Her Majesty the Queen in Rights of Australia as represented by The State of Queensland 2011
Keywords:Comparisons; crops; genes; genetic markers; genetic parameters; genetics; genomes; heterosis; history; linkage; models; nucleotide sequences; phenotypes; phenotypic variation; plant breeding; quantitative trait loci; recombination; sorghum; DNA sequences; hybrid vigour; outbreeding.
Subjects:Science > Biology > Genetics
Plant culture > Field crops > Sorghum
Deposited On:29 Nov 2011 07:37
Last Modified:08 Aug 2017 14:44

Repository Staff Only: item control page