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ARS Home » Southeast Area » Stuttgart, Arkansas » Dale Bumpers National Rice Research Center » Research » Publications at this Location » Publication #334083

Research Project: Genomic Approaches and Genetic Resources for Improving Rice Yield and Grain Quality

Location: Dale Bumpers National Rice Research Center

Title: Exploring the power of rice (O. sativa x O. rufipogon) chromosome segment substitution line libraries

Author
item Eizenga, Georgia
item Singh, Namrata - Cornell University - New York
item Shakiba, Ehsan - University Of Arkansas
item Ali, Liakat - University Of Missouri
item Kim, Hyunjung - University Of California
item Declerck, Genevieve - Cornell University - New York
item Wright, Mark - Stanford University
item Ahn, Sangnag - Chungnam National University
item Mccouch, Susan - Cornell University - New York

Submitted to: Crop Science Society of America
Publication Type: Abstract Only
Publication Acceptance Date: 9/26/2016
Publication Date: 11/4/2016
Citation: Eizenga, G.C., Singh, N., Shakiba, E., Ali, L., Kim, H., Declerck, G.A., Wright, M.H., Ahn, S., Mccouch, S.R. 2016. Exploring the power of rice (O. sativa x O. rufipogon) chromosome segment substitution line libraries. Crop Science Society of America. https://scisoc.confex.com/scisoc/2016am/webprogram/Paper100932.html.

Interpretive Summary:

Technical Abstract: Transgressive variation was reported as an increase in grain yield for several rice (Oryza sativa x O. rufipogon) advanced backcross mapping populations. The objective of this study was to develop chromosome segment substitution line (CSSL) libraries to further dissect the reported transgressive variation with these mapping populations. Six CSSL libraries were developed by crossing two adapted rice varieties, IR64 (subspecies indica) and Cybonnet (subspecies japonica), as recurrent parents to three accessions of the wild rice ancestral species, O. rufipogon, as donor parents. Two accessions clustered with O. sativa representing the subspecies indica (IRGC106148) and japonica (W1944), whereas the third (IRGC105567) clustered several with O. rufipogon accessions. SNP markers were part of the marker assisted backcrossing method used to select the individual pre-CSSLs which were advanced each generation based on the targeted wild segments. Each of the final CSSL libraries has 81 to 90 lines, with each line having 4-5MB of a targeted wild donor introgression and 95-100% recurrent parent background. Genotyping by Sequencing was used for the final CSSL selections, thus providing a high density of polymorphic SNP markers which can be used for fine mapping. Collectively, the set of CSSLs for a given library represents the entire genome of the wild donor parent in the background of either IR64 or Cybonnet. The usefulness of CSSL libraries for identifying genes underlying agronomically important traits will be demonstrated with segregating F2 lines derived from selected heterozygous pre-CSSLs segregating for certain target segments. In the future, we will use these CSSL libraries to understand the genetic basis of transgressive variation, identify novel genes or alleles contributed by the wild donor, characterize genetic interactions between wild donor and divergent elite cultivated background, and broaden the gene pool of cultivated rice.