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United States Department of Agriculture

Agricultural Research Service

Research Project: RESPONSE OF DIVERSE RICE GERMPLASM TO BIOTIC AND ABIOTIC STRESSES Title: Development of inter-specific chromosomes segment substitution libraries (CSSL) in rice

item Singh, Namrata -
item Kim, Hyun-Jung -
item Ali, M. Liakat -
item Akther, Kazi -
item Ahn, Sang-Nag -
item Eizenga, Georgia
item Mccouch, Sarah -

Submitted to: International Plant and Animal Genome IX Conference
Publication Type: Abstract Only
Publication Acceptance Date: November 30, 2012
Publication Date: December 10, 2012
Citation: Singh, N., Kim, H., Ali, M., Akther, K.M., Ahn, S., Eizenga, G.C., Mccouch, S.R. 2012. Development of inter-specific chromosomes segment substitution libraries (CSSL) in rice. International Plant and Animal Genome Conference. XXI. January 12-16, 2013 San Diego, CA.

Technical Abstract: Six libraries of inter-specific Chromosome Segment Substitution Lines (CSSLs) of rice are being developed as pre-breeding materials and genetic stocks. Three accessions of O. rufipogon were selected as donors, based on phylogenetic, geographical and morphological divergence, and crossed with two recurrent parents, Cybonnet, a US tropical japonica cultivar known for its desirable grain quality, and IR64, a high yielding indica cultivar developed by IRRI and grown globally. Each CSSL carries a single 4-5 Mb target introgression, along with 0-3 spurious donor segments in the genetic background and there are 70-80 backcrossed (BC3-BC5) CSSLs in each library. Genotyping for targeted introgression sites and recurrent background selection was performed using either an Illumina 384-SNP OPA or Genotyping-by-Sequencing (GBS) based on 384-plex bar-coded libraries. We compare the efficiency and resolution of the two genotyping assays for CSSL construction. When completed, these CSSLs will be used to screen for wild O. rufipogon introgressions conferring agronomically important traits that will expand the pool of genetic variation available to rice breeders in two elite breeding backgrounds, Cybonnet and IR64.

Last Modified: 11/27/2015
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