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Genetic diversity and population structure assessed through simple sequence repeat markers in Saccharum spp. hybrids from Pakistan and Sri Lanka

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Abstract

The Saccharum species members are extremely complex allopolyploids. In this study, sixty Saccharum spp. hybrids were analyzed using simple sequence repeat (SSR) primers to assess genetic diversity and population structure. The sugarcane hybrids were collected from two research stations of Pakistan and one of Sri Lanka. These were sown at the farm of Sugarcane Research Institute, Faisalabad, Pakistan. Genotyping of the hybrids with 125 polymorphic simple sequence repeat (SSR) markers amplified 476 loci. NTSYS software formed four clusters of genotypes and partitioned genotypes of three institutes into separate clusters. Maximum genetic similarity (82%) was found between CSSG-676 and CPSG-2875. Maximum genetic difference (57%) was found between CSSG-676 and SL-7103 and, thus, these genotypes showed highest level of diversity. Analysis through STRUCTURE V2.3.1 software partitioned genotypes into 3 subpopulations, which belonged to each research institute. Findings of present study indicated that SSR markers were excellent tools for genetic diversity assessment and varietal fingerprinting in Saccharum spp. hybrids. The results of this study will help to identify best sugarcane parents for planned crosses to develop elite sugarcane cultivars.

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All data generated or analysed during this study are included as Supplementary Data file.

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Acknowledgements

Authors acknowledge the kind support provided by the Sugarcane Research Institute (SRI), Faisalabad, Pakistan in the form of field facilities for growing sugarcane genotypes.

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Authors and Affiliations

  1. Oilseeds Research Institute, AARI, Faisalabad, Pakistan

    Sundas Shahzad

  2. Department of Botany, Government College University, Faisalabad, Pakistan

    Muhammad Saeed, Shagufta Perveen, Muhammad Azeem, Iqra Sajjad, Shazia Saeed, Muhammad Naeem, Alia Javed, Iqra Sultan, Ukasha Faria, Sana Maryam & Muhammad Zaid Yousaf

  3. Department of Biology, College of Science, University of Bahrain, Zallaq, Kingdom of Bahrain

    Muhammad Azeem

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  1. Sundas Shahzad
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Contributions

SS conducted the research and written the manuscript. MS performed all molecular analyses of the data, edited the manuscript and prepared the final draft for submission. SP, MA, IS, SS, MN, AJ, IS, UF, SM, and MZY reviewed the manuscript.

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Correspondence to Muhammad Saeed.

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Shahzad, S., Saeed, M., Perveen, S. et al. Genetic diversity and population structure assessed through simple sequence repeat markers in Saccharum spp. hybrids from Pakistan and Sri Lanka. Genet Resour Crop Evol 69, 2889–2900 (2022). https://doi.org/10.1007/s10722-022-01411-9

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