Genomic affinities of Arachis genus and interspecific hybrids were revealed by SRAP markers

Abstract

The Arachis genus is native to South America, and contains 70-80 described species assembled into nine sections. A better understanding of the level of speciation and taxonomic relationships is a prerequisite to the effective use of Arachis species in peanut breeding programs. Forty-eight genotypes representing 19 species in 6 sections were evaluated to assay the genetic variability within and among species, and 10 recombinant lines and those parents were identified with introgression of Arachis species chromosome segments into A. hypogaea genome using SRAP markers. Sixty of sixty-four SRAP primers tested were selected for DNA amplification reactions. A dendrogram and principal component analysis were constructed based on 353 SRAP polymorphic bands of the accessions. The number of scored polymorphic bands per each primer combination varied from 1 to 25 with an average of 5.9 per reaction. Estimates of genetic distance among the 48 accessions Arachis species ranged from 0.11 to 0.76. A-genome accessions 475845 (A. duranensis), and 331197 (A. villosa) were most closely associated to A. hypogaea. The first two PCAs accounted for 77.74% (62.02 and 15.72%) of the total variation observed and separated the different genomic groups. SRAPs also identified introgression of Arachis species chromosome segments into A. hypogaea. genome with 10 recombinant lines and those parents. The present results indicated that SRAPs can be used to determine the genetic relationships among species of the different sections of the genus Arachis and to identify introgression of Arachis genus chromosome segments into A. hypogaea genome.

Phylogeny of Arachis based on internal transcribed spacer sequences

“…Cunha et al (2008) also found the B-genome species, A. hoehnei (Fernandez and Krapovickas 1994;Holbrook and Stalker 2003) grouped to A-genome species and shared the smallest number of bands with A. batizocoi (Also a B-genome species). Sequence data of the trnT-F region (Tallury et al 2005) also placed A. hoehnei in the A-genome clade, so did SRAP (Sequence-related amplification polymorphism) analysis by Ren et al (2010). Further cytogenetic studies may reveal the genomic classification of A. hoehnei (Cunha et al 2008).…”

Genetic Diversity Among Indian Coffee Cultivars Determined via Molecular Markers

“…A comparison of the three marker systems revealed that SRAP assay detected a higher number of cultivarspecific markers, indicating its higher efficiency in detecting polymorphism in arabica coffee. The efficiency of the SRAP marker system over other marker systems has been documented in many plant species (Ren et al 2010;Youssef et al 2010;Amar et al 2011). In coffee, no comparative genetic diversity assessment among arabica coffee cultivars has been documented using SRAP markers; the present study describes the efficiency of SRAP markers in genetic analysis of coffee for the first time.…”

Morphological and genetic characteristics of F1 hybrids introgressed from Brassica napus to B. rapa in Taiwan

“…SRAP markers were developed to amplify open reading frames (ORFs) with forward and reverse primers containing GC-and AT-rich sequences near the 5ʹ and 3ʹ ends, respectively, to identify genome variations in ORFs. By using SRAP marker analysis, F 1 hybrids have been characterized in various crops, including Paeonia, Arachis, and Coffea genus hybrids (Hao et al 2008;Ren et al 2010;Mishra et al 2011).…”