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Simple sequence repeats as useful resources to study transcribed genes of cotton

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Abstract

Microsatellites or Simple Sequence Repeats(SSRs) are informative molecular genetic markers in many crop species. SSRs are PCR-based, highly polymorphic, abundant, widely distributed throughout the genome and inherited in a co-dominant manner in most cases. Here we describe the presence of SSRs in cDNAs of cotton. Thirty one SSR primer pairs of 220 (∼14%) tested led to PCR amplification of discrete fragments using cotton leaf cDNA as template. Sequence analysis showed 25% of 24randomly selected cDNA clones amplified with different SSR primer pairs contained repeat motifs. We further showed that sequences from the SSR-containing cDNAs were conserved across G. barbadense and G. hirsutum, revealing the importance of the SSR markers for comparative mapping of transcribed genes. Data mining for plant SSR-ESTs from the publicly available databases identified SSRs motifs in many plant species,including cotton, in a range of 1.1 to4.8% of the submitted ESTs for a given species.

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Authors and Affiliations

  1. USDA-ARS, Crop Science Research Laboratory, P.O. Box 5367, Mississippi State, MS, 39762, U.S.A

    Sukumar Saha & Johnie N. Jenkins

  2. Department of Field Crops, Faculty of Agriculture, Akdeniz University, 07059, Antalya, Turkey

    Mehmet Karaca & Allan E. Zipf

  3. Biotechnology Center, Alcorn State University, MS, 39096, U.S.A

    O. Umesh K. Reddy

  4. Department of Plant Breeding, Cornell University, Ithaca, NY, 14853, U.S.A

    Ramesh V. Kantety

Authors
  1. Sukumar Saha
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  2. Mehmet Karaca
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  3. Johnie N. Jenkins
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  4. Allan E. Zipf
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  5. O. Umesh K. Reddy
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  6. Ramesh V. Kantety
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Saha, S., Karaca, M., Jenkins, J.N. et al. Simple sequence repeats as useful resources to study transcribed genes of cotton. Euphytica 130, 355–364 (2003). https://doi.org/10.1023/A:1023077209170

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