Abstract
Expressed sequences are important sources in the development of functional heterologous microsatellite markers in phylogenetic related groups, that is, soybean and commom bean. The objective of this work was to identify and characterize expressed sequence tag (EST)-simple sequence repeats (SSRs) in silico candidates of resistance to Meloidogyne spp. in common bean. Seven DNA sequences from soybean associated with genetic resistance have been identified and obtained in the NCBI database. Its homology in common bean genome was verified using the BLAST tool. The cellular processes involved were also checked using the Blast2GO program. The identification of microsatellite markers and design of the primer pairs was performed using the SSRLocator and Primer3 programs, respectively. The transferability rate of common beans the target sequences identified was 86%, demonstrating the power of success of this method. All the cellular processes involved in the original DNA sequences were verified from EST on beans, with E-value between 0 and 2.9×10-168. Fifteen EST-SSRs candidates for common bean resistance were identified, which have proved to be suitable for their amplification by PCR. The transferability analysis of ESTs related to resistance to Meloidogyne spp., especially among soybeans and common beans is efficient. Based on this study, 15 EST-SSRs candidates are available for validation and later use. Key words: simple sequence repeats (SSRs) markers, assisted selection, ontology, pre-breeding.
Highlights
The common bean (Phaseolus vulgaris) is a leguminous vegetable cultivated in 113 tropical and subtropical countries, which has a high economic value and market acceptance due to its balanced chemical composition, including various proteins, complex carbohydrates, minerals and vitamin B complex (Broughton et al, 2003)
With this study we propose to identify and characterize in silico microsatellite markers candidates in P. vulgaris associated with genes that confer resistance to root-knot nematode (Meloidogyne spp.)
From the sequences of the selected genes were identified regions of about 70% homology in common beans, except for the Pectin Esterase 1 gene, generating a sequence transferability rate of 87%. This success of genomics synteny between the two species is already well reported in the literature, which is due to the fact that they are phylogenetically sister groups, favoring the high occurrence of orthologous genes between them (Schmutz et al, 2014)
Summary
The common bean (Phaseolus vulgaris) is a leguminous vegetable cultivated in 113 tropical and subtropical countries, which has a high economic value and market acceptance due to its balanced chemical composition, including various proteins, complex carbohydrates, minerals and vitamin B complex (Broughton et al, 2003). Brazil is the world leader in the production and consumption of beans, it is not yet self-sufficient. In the production of the same (Wander, 2005). The bean is cultivated in most Brazilian states, in a variety of soils, climates, growing season and farming systems (Silva and Wander, 2013). The adversities which the beans have been exposed contribute to high diversity found in the culture, enabling the selection, that is, genetic variation for breeding (Burle et al, 2010)
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