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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Characterization of chloroplast DNA microsatellites from Saccharum spp and related species

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Author(s):
Melotto-Passarin, D. M. [1] ; Tambarussi, E. V. [1] ; Dressano, K. [1] ; De Martin, V. F. [1] ; Carrer, H. [1]
Total Authors: 5
Affiliation:
[1] Univ Sao Paulo, Escola Super Agr Luiz de Queiroz, Dept Ciencias Biol, Piracicaba, SP - Brazil
Total Affiliations: 1
Document type: Journal article
Source: Genetics and Molecular Research; v. 10, n. 3, p. 2024-2033, 2011.
Web of Science Citations: 18
Abstract

Microsatellites, or simple sequence repeats (SSRs), and their flanking regions in chloroplast genomes (plastomes) of some species of the family Poaceae were analyzed in silico to look for DNA sequence variations. Comparison of the complete chloroplast DNA sequences (cpDNAs) of sugarcane (Saccharum hybrid cv. SP-80-3280 and S. officinarum cv. NCo310) and related species, Agrostis stolonifera, Brachypodium distachyon, Hordeum vulgare subsp vulgare, Lolium perenne, Oryza nivara, O. sativa subsp indica, O. sativa subsp japonica, Sorghum bicolor, Triticum aestivum, Zea mays, and Z. mays cv. B73, allowed us to examine the organization of chloroplast SSRs (cpSSRs) in genic and intergenic regions. We identified 204 cpSSRs in the sugarcane cpDNA; 22.5% were in genic regions. The ndh, rps, trn, and rpl gene clusters of the chloroplasts had the most repeats. Mononucleotide repeats were the most abundant cpSSRs in these species; however, di-, tri-, tetra-, penta-, and hexanucleotide repeats were also identified. Many base substitutions and deletions/insertions were identified in the cpSSR loci and their flanking regions. Multiple alignments of all cpSSR sequences of Poaceae species made identification of nucleotide variability possible; repeat motifs are not uniformly distributed across the Poaceae plastomes, but are mostly confined to intergenic regions. Phylogeny was determined by maximum parsimony and neighbor-joining inference methods. The cpSSRs of these species were found to be polymorphic. It appears that individual cpSSRs in the Poaceae are stable, at least over short periods of evolutionary time. We conclude that the plastome database can be exploited for phylogenetic analysis and biotechnological development. (AU)

FAPESP's process: 07/05795-0 - Development of biotechnological methods for micropropagation, regeneration and genetic transformation of teak (Tectona grandis L. f.) to resistance for Hyblaea puera
Grantee:Evandro Vagner Tambarussi
Support Opportunities: Scholarships in Brazil - Master