Development and interspecific transferability of genic microsatellite markers in Spartina spp. with different genome size

Niranjan Baisakh, Prasanta K. Subudhi, K. Arumuganathan, Arnold P. Parco, Stephen A. Harrison, Carrie A. Knott, Michael D. Materne

Research output: Contribution to journalArticlepeer-review

13 Scopus citations

Abstract

Flow cytometry analysis showed variation of nuclear DNA content among different species of Spartina. Spartina alterniflora had the biggest genome (1763.9 Mbp) and S. cynosuroides had the smallest genome (756.35 Mbp), whereas the genomes of S. patens (969.36 Mbp) and S. spartinae (979.78 Mbp) were comparable. Mining simple sequence repeats (SSR) from 1227 expressed sequence tags (EST) generated from salt stressed S. alterniflora showed an abundance of di- and tri-nucleotide repeats. Of 100 ESSR (EST-derived SSR) loci with five or more repeats, 81 loci were successfully amplified in eight S. alterniflora genotypes and 15 (22.2%) ESSR markers were polymorphic. Eleven of the 15 polymorphic ESSRs showed amplification across six different species of Spartina while 100% cross transferability was observed with at least one species of Spartina. The average number of alleles per marker was 3.9 and 5.8 within S. alterniflora and among Spartina species, respectively. The ESSR markers discriminated different members within and between species of Spartina genus.

Original languageEnglish
Pages (from-to)262-266
Number of pages5
JournalAquatic Botany
Volume91
Issue number4
DOIs
StatePublished - Nov 2009

Bibliographical note

Funding Information:
The authors acknowledge the help of Dr. Richard H. Neil and Garret P. Thomassie, USDA-NRCS, 6 Golden Meadow Plant Materials Center, Galliano, LA in collection of different species of Spartina. We thank Suman Andru for his help in POPGENE 1.32. This study was supported by a special grant from USDA-CSRESS. This manuscript is approved for publication by the Director of Louisiana Agricultural Experiment Station as manuscript number 2009-306-3643.

Keywords

  • DNA content
  • Expressed sequence tag
  • Polymorphism
  • Simple sequence repeat
  • Spartina
  • Transferability

ASJC Scopus subject areas

  • Aquatic Science
  • Plant Science

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