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An integrated genetic linkage map of cultivated peanut (Arachis hypogaea L.) constructed from two RIL populations

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Abstract

Construction and improvement of a genetic map for peanut (Arachis hypogaea L.) continues to be an important task in order to facilitate quantitative trait locus (QTL) analysis and the development of tools for marker-assisted breeding. The objective of this study was to develop a comparative integrated map from two cultivated × cultivated recombinant inbred line (RIL) mapping populations and to apply in mapping Tomato spotted wilt virus (TSWV) resistance trait in peanut. A total of 4,576 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 end-sequences were used for screening polymorphisms. Two 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, seven homoeologous groups were defined and 17 LGs (A1–A10, B1–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 by comparing with published cultivated peanut maps. High consistence with cultivated peanut maps derived from different populations may support this integrated map as a reliable reference map for peanut whole genome sequencing assembling. Further two major QTLs for TSWV resistance were identified for each RILs, which illustrated the application of this map.

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Acknowledgments

We thank Billy Wilson, Jake Fountain, Stephanie Lee, Lucero Gutierrez and Sara Beth Pelham for technical assistance in the field and the laboratory, and Dr. Douglas Cook of UC-Davis for providing BAC end-sequence SSRs. Dr. Tingbo Jiang’s assistance and advice in the early stage of the genotyping and Dr. Ye Chu’s help with the FAD genes was much appreciated. This research was partially supported by funds provided by the USDA Agricultural Research Service, the Georgia Agricultural Commodity Commission for Peanuts, Peanut Foundation and National Peanut Board. Mention of trade names or commercial products in this publication is solely for the purpose of providing specific information and does not imply recommendation or endorsement by the US Department of Agriculture.

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Authors and Affiliations

  1. Department of Plant Pathology, University of Georgia, Tifton, GA, USA

    Hongde Qin, Suping Feng & Albert Culbreath

  2. Cash Crop Research Institute, Hubei Academy of Agricultural Sciences, Wuhan, China

    Hongde Qin

  3. College of Bioscience and Biotechnolgy, Qiongzhou University, Sanya, Hainan, China

    Suping Feng

  4. National Peanut Research Laboratory, Agricultural Research Service, US Department of Agriculture, Dawson, GA, USA

    Charles Chen

  5. Center for Applied Genetic Technologies, University of Georgia, Athens, GA, USA

    Yufang Guo & Steven Knapp

  6. Center for Plant Biotechnology, Tuskegee University, Tuskegee, AL, USA

    Guohao He

  7. Plant Genetic Resources Conservation Unit, Agricultural Research Service, US Department of Agriculture, Griffin, GA, USA

    Ming Li Wang

  8. Peanut Research Unit, Henan Academy of Agricultural Sciences, Zhengzhou, China

    Xinyou Zhang

  9. Crop Genetics and Breeding Research Unit, Agricultural Research Service, US Department of Agriculture, Tifton, GA, USA

    C. Corley Holbrook

  10. Department of Horticulture, University of Georgia, Tifton, GA, USA

    Peggy Ozias-Akins

  11. Crop Protection and Management Research Unit, Agricultural Research Service, US Department of Agriculture, Tifton, GA, USA

    Baozhu Guo

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  1. Hongde Qin
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  2. Suping Feng
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  3. Charles Chen
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  5. Steven Knapp
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  6. Albert Culbreath
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  7. Guohao He
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  8. Ming Li Wang
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  9. Xinyou Zhang
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  10. C. Corley Holbrook
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  11. Peggy Ozias-Akins
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  12. Baozhu Guo
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Corresponding author

Correspondence to Baozhu Guo.

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Communicated by G. Bryan.

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Qin, H., Feng, S., Chen, C. et al. An integrated genetic linkage map of cultivated peanut (Arachis hypogaea L.) constructed from two RIL populations. Theor Appl Genet 124, 653–664 (2012). https://doi.org/10.1007/s00122-011-1737-y

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  • DOI: https://doi.org/10.1007/s00122-011-1737-y

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