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- Title
Genome-Wide Identification of the Alba Gene Family in Plants and Stress-Responsive Expression of the Rice Alba Genes.
- Authors
Verma, Jitendra Kumar; Wardhan, Vijay; Singh, Deepali; Chakraborty, Subhra; Chakraborty, Niranjan
- Abstract
Architectural proteins play key roles in genome construction and regulate the expression of many genes, albeit the modulation of genome plasticity by these proteins is largely unknown. A critical screening of the architectural proteins in five crop species, viz., <italic>Oryza sativa</italic>, <italic>Zea mays</italic>, <italic>Sorghum bicolor</italic>, <italic>Cicer arietinum</italic>, and <italic>Vitis vinifera</italic>, and in the model plant <italic>Arabidopsis thaliana</italic> along with evolutionary relevant species such as <italic>Chlamydomonas reinhardtii</italic>, <italic>Physcomitrella patens</italic>, and <italic>Amborella trichopoda</italic>, revealed 9, 20, 10, 7, 7, 6, 1, 4, and 4 <italic>Alba</italic> (acetylation lowers binding affinity) genes, respectively. A phylogenetic analysis of the genes and of their counterparts in other plant species indicated evolutionary conservation and diversification. In each group, the structural components of the genes and motifs showed significant conservation. The chromosomal location of the <italic>Alba</italic> genes of rice (<italic>OsAlba</italic>), showed an unequal distribution on 8 of its 12 chromosomes. The expression profiles of the <italic>OsAlba</italic> genes indicated a distinct tissue-specific expression in the seedling, vegetative, and reproductive stages. The quantitative real-time PCR (qRT-PCR) analysis of the <italic>OsAlba</italic> genes confirmed their stress-inducible expression under multivariate environmental conditions and phytohormone treatments. The evaluation of the regulatory elements in 68 <italic>Alba</italic> genes from the 9 species studied led to the identification of conserved motifs and overlapping microRNA (miRNA) target sites, suggesting the conservation of their function in related proteins and a divergence in their biological roles across species. The 3D structure and the prediction of putative ligands and their binding sites for OsAlba proteins offered a key insight into the structure–function relationship. These results provide a comprehensive overview of the subtle genetic diversification of the <italic>OsAlba</italic> genes, which will help in elucidating their functional role in plants.
- Subjects
CHROMOSOMAL proteins; PHYSCOMITRELLA patens; PHYLOGENETIC models; CHLAMYDOMONAS; MICRORNA
- Publication
Genes, 2018, Vol 9, Issue 4, p183
- ISSN
2073-4425
- Publication type
Article
- DOI
10.3390/genes9040183