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United States Department of Agriculture

Agricultural Research Service

Research Project: RESEARCH, ACQUISITION, MANAGEMENT, AND DOCUMENTATION OF PLANT GENETIC RESOURCES

Location: Plant Germplasm Introduction and Testing

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

Authors
item Iqbal, Muhammad -
item Mamidi, Sujan -
item Ahsan, Rubina -
item Kianian, Shahryar -
item Coyne, Clarice
item Hamama, Anwar -
item Narina, Satya -
item Bhardwaj, Harbans -

Submitted to: Theoretical and Applied Genetics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: March 10, 2012
Publication Date: March 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.

Last Modified: 9/10/2014
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