Genetic Diversity in Switchgrass Collections Assessed by EST-SSR Markers

By B. Narasimhamoorthy, M. Saha, T. Swaller, J. Bouton. Bioenergy Research, 2008

98 citations recorded by the source corpus.

Switchgrass (Panicum virgatum L.), is a warm season C4 perennial grass, native to North American tall grass prairies. The high biomass production potential of switchgrass with low inputs makes it an excellent choice as a sustainable bioenergy crop. The objective of this study was to determine the genetic variability within and among 31 switchgrass populations obtained from Germplasm Resources Information Network (GRIN). Six plants from each population (186 genotypes) were characterized with 24 conserved grass expressed sequence tag-simple sequence repeats (EST-SSR) and 39 switchgrass EST-SSR markers. The partitioning of variance components based on the analysis of molecular variance (AMOVA) revealed that the variability within population was significantly higher (80%) than among populations (20%). Pair-wise genetic distance estimates based on SSR data revealed dissimilarity coefficients for genotypes ranging from 0.45 to 0.81. The uplands and lowlands were generally grouped in distinct sub-clusters. The genotypes were grouped into the different adaptive zones based on the geographical locations of the collections. Ploidy estimation showed that 20 of the accessions were tetraploid, four of them were octoploids and the remaining seven had mixed ploidy levels. Flow cytometry analysis of genotypes within cultivars collected from commercial seed sources did not always support the ploidy mixtures that were found in GRIN collections. Three genotypes of two accessions that clustered differently from other genotypes of the same accessions also had different ploidy levels.

Subfields: Agronomy and Crop Science, Biomedical Engineering, Mechanics of Materials

View Paper: https://www.semanticscholar.org/paper/a0f1b90a3f8a2ba44fa4ba354a669834fa6c1097

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In Agronomy and Crop Science

1. Michael D. Casler
2. Laura M. Cortese
3. S. Bonos
4. J. Honig
5. Chris E. Miller
6. Zeng‐Yu Wang

In Biomedical Engineering

1. Laura M. Cortese
2. S. Bonos
3. J. Honig
4. Chris E. Miller
5. Michael D. Casler
6. Zeng‐Yu Wang

In Mechanics of Materials

1. Laura M. Cortese
2. S. Bonos
3. J. Honig
4. Chris E. Miller
5. Michael D. Casler

Citations in the corpus

• Natural Variation for Nutrient Use and Remobilization Efficiencies in Switchgrass (2009, background): “2, 8, 11, 12, 14, 15, 16, and 31) were classified as lowland ecotypes and the remaining 23 accessions as upland types [ 24 ].”
• Genome‐size Variation in Switchgrass (Panicum virgatum): Flow Cytometry and Cytology Reveal Rampant Aneuploidy (2010, background): “Th e one cultivar (Cave-in-Rock) where we found more than one ploidy is widely considered a “mixed” accession (Narasimhamoorthy et al., 2008).”
• Switchgrass Breeding, Genetics, and Genomics (2012, background): “Individual accessions of switchgrass, samples of plants collected from a single remnant site, typically possess between 65 and 80% of the genetic variability observable within the species, based on DNA markers [8, 11, 12, 17–22].”
• The Switchgrass Genome: Tools and Strategies (2011, background): “A number of genetic tools have also been developed to facilitate genomic studies of switchgrass (Missaoui et al., 2005; Narasimhamoorthy et al., 2008; Okada et al., 2010; Tobias et al., 2005, 2008).”
• Genetic Diversity of Twelve Switchgrass Populations Using Molecular and Morphological Markers (2010, methodology): “In a cluster analysis of SSR markers in 31 switchgrass accessions, upland ecotypes Caddo, Argentina, Turkey, Sunburst, and Shawnee were all included in the same cluster [34].”