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Analysis of an intraspecific RIL population uncovers genomic segments harbouring multiple QTL for seed relevant traits in lentil (Lens culinaris L.)

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Abstract

Improving seed related traits remains key objective in lentil breeding. In recent years, genomic resources have shown great promise to accelerate crop improvement. However, limited genomic resources in lentil greatly restrict the use of genomics assisted breeding. The present investigation aims to build an intraspecific genetic linkage map and identify the QTL associated with important seed relevant traits using 94 recombinant inbreds (WA 8649090 × Precoz). A total of 288 polymorphic DNA markers including simple sequence repeat (SSR), inter simple sequence repeat (ISSR) and random amplified polymorphic DNA (RAPD) were assayed on mapping population. The resultant genetic linkage map comprised 220 loci spanning 604.2 cM of the lentil genome, with average inter-marker distance of 2.74 cM. QTL mapping in this RIL population uncovered a total of 18 QTL encompassing nine major and nine minor QTL. All major QTL were detected for seed related traits viz., seed diameter (SD), seed thickness (ST), seed weight (SW) and seed plumpness (SP) across two locations. A considerable proportion of the phenotypic variation (PV) was accounted to these QTL. For instance, one major QTL on LG5 controlling SW (QTL 15) explained 50% PV in one location, while the same QTL accounted for 34.18% PV in other location. Importantly, the genomic region containing multiple QTL for different seed traits was mapped to a 17-cM region on LG5. The genomic region harbouring QTL for multiple traits opens up exciting opportunities for genomics assisted improvement of lentil.

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Acknowledgements

RJ and TRS acknowledge financial support from the department of biotechnology (DBT), India. Special thanks are due to Dr. Fred Muehlbauer (Grain Legume Genetics & Physiology Research Unit, USDA-ARS, Washington State University, Pullman, USA) for providing experimental population.

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Author notes

  1. Rintu Jha and Abhishek Bohra have contributed equally to this work.

Authors and Affiliations

  1. Chaudhary Sarwan Kumar Krishi Viswavidyalaya, Palampur, Himachal Pradesh, 176062, India

    Rintu Jha, Rakesh Kumar Chahota & Tilak Raj Sharma

  2. Crop Improvement Division, Indian Institute of Pulses Research, Kanpur, 208024, India

    Abhishek Bohra & Uday Chand Jha

  3. Indian Grassland and Fodder Research Institute, Jhansi, Uttar Pradesh, 284003, India

    Maneet Rana

  4. International Center for Agricultural Research in the Dry Areas, 114/5055, Beirut, Lebanon

    Shiv Kumar

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  1. Rintu Jha
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Correspondence to Abhishek Bohra.

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Jha, R., Bohra, A., Jha, U.C. et al. Analysis of an intraspecific RIL population uncovers genomic segments harbouring multiple QTL for seed relevant traits in lentil (Lens culinaris L.). Physiol Mol Biol Plants 23, 675–684 (2017). https://doi.org/10.1007/s12298-017-0438-7

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