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Development of SSR markers and construction of a linkage map in jute

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Abstract

Jute is an important natural fibre crop, which is only second to cotton in its importance at the global level. It is mostly grown in Indian subcontinent and has been recently used for the development of genomics resources. We recently initiated a programme to develop simple sequence repeat markers and reported a set of 2469 SSR that were developed using four SSR-enriched libraries (Mir et al. 2009). In this communication, we report an additional set of 607 novel SSR in 393 SSR containing sequences. However, primers could be designed for only 417 potentially useful SSR. Polymorphism survey was carried out for 374 primer pairs using two parental genotypes (JRO 524 and PPO4) of a mapping population developed for fibre fineness; only 66 SSR were polymorphic. Owing to a low level of polymorphism between the parental genotypes and a high degree of segregation distortion in recombinant inbred lines, genotypic data of only 53 polymorphic SSR on the mapping population consisting of 120 RIL could be used for the construction of a linkage map; 36 SSR loci were mapped on six linkage groups that covered a total genetic distance of 784.3 cM. Hopefully, this map will be enriched with more SSR loci in future and will prove useful for identification of quantitative trait loci/genes for molecular breeding involving improvement of fibre fineness and other related traits in jute.

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Authors and Affiliations

  1. Molecular Biology Laboratory, Department of Genetics and Plant Breeding, Ch. Charan Singh University, Meerut, 250 004, India

    MOUMITA DAS, SUMANA BANERJEE, RAMAN DHARIWAL, HARINDRA S. BALYAN & PUSHPENDRA K. GUPTA

  2. Biotechnology Unit, Division of Crop Improvement, Central Research Institute for Jute and Allied Fibres (ICAR), Barrackpore, 743 101, India

    NILADRI TOPDAR, AVIJIT KUNDU, DEBABRATA SARKAR & MOHIT K. SINHA

  3. Interdisciplinary Centre for Plant Genomics and Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi, 110 021, India

    SHAILENDRA VYAS & JITENDRA P. KHURANA

  4. Department of Plant Breeding and Genetics, Sher-e-Keshmir University of Agricultural Sciences and Technology of Jammu, Chatha, 180 009, India

    REYAZUL R. MIR

  5. National Institute of Plant Genome Research, Aruna Asaf Ali Marg, P.O. Box 10531, New Delhi, 110 067, India

    AKHILESH K. TYAGI

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  1. MOUMITA DAS
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  2. SUMANA BANERJEE
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  3. RAMAN DHARIWAL
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  5. REYAZUL R. MIR
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  6. NILADRI TOPDAR
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  7. AVIJIT KUNDU
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  8. JITENDRA P. KHURANA
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  9. AKHILESH K. TYAGI
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  10. DEBABRATA SARKAR
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  11. MOHIT K. SINHA
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  12. HARINDRA S. BALYAN
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  13. PUSHPENDRA K. GUPTA
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Correspondence to PUSHPENDRA K. GUPTA.

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[Das M., Banerjee S., Dhariwal R., Vyas S., Mir R. R., Topdar N., Kundu A., Khurana J. P., Tyagi A. K., Sarkar D., Sinha M. K., Balyan H. S. and Gupta P. K. 2012 Development of SSR markers and construction of a linkage map in jute. J. Genet. 91, xx–xx]

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DAS, M., BANERJEE, S., DHARIWAL, R. et al. Development of SSR markers and construction of a linkage map in jute. J Genet 91, 21–31 (2012). https://doi.org/10.1007/s12041-012-0151-9

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