Location: Crop Protection and Management Research
Title: The Genome of Arachis hypogaea: Genetic Linkage Map will aid the Whole Genome Sequence Assembly Author
Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: May 27, 2011
Publication Date: June 10, 2011
Citation: Guo, B. 2011. The Genome of Arachis hypogaea: Genetic Linkage Map will aid the Whole Genome Sequence Assembly. Meeting Abstract. Proceedings of the 5th International Conference of the Peanut Research Community: Advances in Arachis through Genomics & Biotechnology in Brasilia, Brazil on June 13-17, 2011. Technical Abstract: The allotetraploid peanut genome assembly will be a valuable resource to researchers studying other polyploidy species, in addition to providing new insight into peanut genome evolution and domestication other than facilitating quantitative trait locus (QTL) analysis and the tools for marker-assisted breeding. Unlike other plant genome sequencing projects there is no complete linkage or physical map already available at this time. Therefore, a peanut genome-wide linkage map will aid genome assembly, acting as an independent resource against which contig assembly can be validated. The objective of this study was to develop a comparative integrated map from two recombinant inbred line (RIL) populations with diverse backgrounds in which two runner type cultivars, one Spanish type cultivar and one breeding line derived from a cross of Virginia type and hirsuta type were used as parents. A total of 4576 simple sequence repeat (SSR) markers from three sources: published SSR markers, newly developed SSR markers from expressed sequence tags (EST) and from bacterial artificial chromosome (BAC) end-sequences were used for screening polymorphisms. Two CAPS (cleaved amplified polymorphic sequence) markers were also included to differentiate ahFAD2A alleles and ahFAD2B alleles. A total of 324 markers were anchored on this integrated map covering 1,352.1 cM with 21 linkage groups (LGs). Combining information from duplicated loci between LGs and comparing with published diploid maps, 7 homoeologous groups were defined and 17 LGs (A1 to A10, B1 to B4, B7, B8, and B9) were aligned to corresponding A-subgenome or B-subgenome of diploid progenitors. One reciprocal translocation was confirmed in the tetraploid cultivated peanut genome. Several chromosomal rearrangements were observed. This genetic linkage map and others could provide a framework for QTL analysis and a scaffold for integration of the physical map and genome sequence assembly.