Genetic diversity of cultivated and wild-type peanuts evaluated with M13-tailed SSR markers and sequencing.
Thirty-one genomic SSR markers with a M13 tail attached were used to assess the genetic diversity of the peanut mini core collection. The M13-tailed method was effective in discriminating almost all the cultivated and wild accessions. A total of 477 alleles were detected with an average of 15.4 alleles per locus. The mean polymorphic information content (PIC) score was 0.687. The cultivated peanut (Arachis hypogaea L.) mini core produced a total of 312 alleles with an average of 10.1 alleles per locus. A neighbour-joining tree was constructed to determine the interspecific and intraspecific relationships in this data set. Almost all the peanut accessions in this data set classified into subspecies and botanical varieties such as subsp. hypogaea var. hypogaea, subsp. fastigiata var. fastigiata, and subsp. fastigiata var. vulgaris clustered with other accessions with the same classification, which lends further support to their current taxonomy. Alleles were sequenced from one of the SSR markers used in this study, which demonstrated that the repeat motif is conserved when transferring the marker across species borders. This study allowed the examination of the diversity and phylogenetic relationships in the peanut mini core which has not been previously reported.
Barkley
Noelle A
NA
USDA-ARS, Plant Genetic Resources Conservation Unit, 1109 Experiment Street, Griffin, GA 30223, USA.
Dean
Rob E
RE
Pittman
Roy N
RN
Wang
Ming L
ML
Holbrook
Corley C
CC
Pederson
Gary A
GA
D010367:Arachis / Q000145:classification / Q000235:genetics*; D017104:Bacteriophage M13 / Q000235:genetics*; D001483:Base Sequence; D018556:Crops, Agricultural / Q000235:genetics*; D017931:DNA Primers / Q000032:analysis / Q000235:genetics; D014644:Genetic Variation; D018895:Microsatellite Repeats / Q000235:genetics*; D008969:Molecular Sequence Data; D010802:Phylogeny; D017422:Sequence Analysis, DNA / Q000379:methods*; D012689:Sequence Homology, Nucleic Acid
D017931:DNA Primers