In Silico Analysis of Mobilome Response to Salt Stress in Phaseolus vulgaris L.

Yıl 2018, Cilt: 5 Sayı: 1, 31 - 39, 28.02.2018

Behcet İnal

https://doi.org/10.19159/tutad.336202

Öz

Common bean is an important legume that grown
and consumed as animal feed and for human nutrition. It is also an important
source of protein in developing countries. Transposable elements (TEs)
constitute a large part of the genome in various eukaryotic species. TE was
described as garbage DNA by researchers for a long time. Recently, it has been
found that TEs can move near stress response genes and they have known effects
on plant resistance to diverse stresses. With the acquisition of common bean
genome sequence, one of the next step is
to annotate the genome and define the functional DNA elements. TEs are the most
abundant genetic elements of plant genomes and have an important impact on
genome stress evolution and genetic variation. So, it is important to determine
TEs in the common bean genome. In the current
study, genome-wide transposon annotation and definition were achieved in root
and leaf tissues of common bean under salt stress. Homology and sequence
structure-based methods were used. Tont2-I-Copia and Copia-39 Copia
retrotransposons were found to be more in salt-treated
roots and leaves respectively. As a
result of the analysis, we found TEs number ranging from 46 to 50 belonging to
about twenty different plants. Gene ontology analysis of transposon sequences
brought the light on diverse important pathways related to abiotic stress
conditions.

Anahtar Kelimeler

Abiotic stress, common bean, gene ontology, genome wide, transposon

In Silico Analysis of Mobilome Response to Salt Stress in Phaseolus vulgaris L.

Öz

Common bean is an important legume that grown and consumed as animal feed and for human nutrition. It is also an important source of protein in developing countries. Transposable elements (TEs) constitute a large part of the genome in various eukaryotic species. TE was described as garbage DNA by researchers for a long time. Recently, it has been found that TEs can move near stress response genes and they have known effects on plant resistance to diverse stresses. With the acquisition of common bean genome sequence, one of the next step is to annotate the genome and define the functional DNA elements. TEs are the most abundant genetic elements of plant genomes and have an important impact on genome stress evolution and genetic variation. So, it is important to determine TEs in the common bean genome. In the current study, genome-wide transposon annotation and definition were achieved in root and leaf tissues of common bean under salt stress. Homology and sequence structure-based methods were used. Tont2-I-Copia and Copia-39 Copia retrotransposons were found to be more in salt-treated roots and leaves respectively. As a result of the analysis, we found TEs number ranging from 46 to 50 belonging to about twenty different plants. Gene ontology analysis of transposon sequences brought the light on diverse important pathways related to abiotic stress conditions.

Anahtar Kelimeler

Abiotic stress, common bean, gene ontology, genome wide, transposon

Kaynakça

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