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ARS Home » Pacific West Area » Pullman, Washington » Plant Germplasm Introduction and Testing Research » Research » Publications at this Location » Publication #273524

Title: Population structure and linkage disequilibrium in Lupinus albus L. germplasm and its implication for association mapping

Author
item Iqbal, Muhammad - North Dakota State University
item Mamidi, Sujan - North Dakota State University
item Ahsan, Rubina - North Dakota State University
item Kianian, Shahryar - North Dakota State University
item Coyne, Clarice - Clare
item Hamama, Anwar - Virginia State University
item Narina, Satya - Virginia State University
item Bhardwaj, Harbans - Virginia State University

Submitted to: Theoretical and Applied Genetics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 3/10/2012
Publication Date: 3/28/2012
Citation: Iqbal, M.J., Mamidi, S., Ahsan, R., Kianian, S.F., Coyne, C.J., Hamama, A.A., Narina, S.S., Bhardwaj, H.L. 2012. Population structure and linkage disequilibrium in Lupinus albus L. germplasm and its implication for association mapping. Theoretical and Applied Genetics. DOI 10.1007/s00122-012-1850-6.

Interpretive Summary: White lupin is an undertilized high protein and moderate oil seed crop with potential nutraceutical value for human food and as animal feed. We studied the genetic similarity, population structure and marker trait association in a USDA germplasm collection for their current and future application in this crop improvement of a potential new crop for USA producers.

Technical Abstract: White lupin (Lupinus albus L.) has been around since 300 B.C. and is recognized for its ability to grow on poor soils and applications as green manure in addition to seed harvest. The seed has very high levels of protein (33-47%) and oil (6-13%). It also has many secondary metabolites that are potentially of nutraceutical value to animals and humans. Despite such a great potential, lupins role in modern agriculture began only in the twentieth century. Although a large collection of Lupinus germplasm accessions is available worldwide, rarely have they been genetically characterized. Additionally, scarce genomic resources in terms of recombinant populations and genome information have been generated for L. albus. With the advancement in association mapping methods, the natural populations have the potential to replace the recombinant populations in gene mapping and marker trait associations. Therefore, we studied the genetic similarity, population structure and marker trait association in a USDA germplasm collection for their current and future application in this crop improvement. A total of 122 PI (Plant Inventory) lines were screened with 18 AFLP primer pairs that generated 2277 fragments. The cluster analysis failed to group accessions on the basis of their passport information and a weak structure and low linkage disequilibrium (LD) were observed indicating the usefulness of the collection for association mapping. Moreover, we were also able to identify two markers (a p-value of 1.53x10-4and 2.3x10-4) that explained 8.05 and 4.86 % of seed weight variation. The implications of lack of geographic clustering, population structure, low LD and the ability of AFLP to map seed weight trait using association mapping and the usefulness of the PI collections in breeding programs are discussed.