Systematic Analysis and Comparison of ABC Proteins Superfamily Confer Structural, Functional and Evolutionary insights into Four Cotton Species

作者：棉花生物学国家重点实验室 日期：2022-08-30 访问量：

Waqar Afzal Malik, Maria Afzal, Xiugui Chen, Ruifeng Cui, Xuke Lu, Shuai Wang, Jing Wang, Imran Mahmood, Wuwei Ye

Industrial Crops & Products

Doi: 10.1016/j.indcrop.2021.114433

Abstract：

ATP binding cassette transporters (ABCTs) is one of the largest gene superfamily comprising of integral membrane proteins that are ubiquitously found in all domains of life and implicated in ATP dependent active transport of ligands across the concentration gradient. We present here the identification and distribution of ABC proteins from seven plant species into four groups (Full, Half, Quarter and ABC2 molecules), eight families (ABCA to ABCG and ABCI) and twelve sub families (MDR, PDR, MRP, PMP, AOH, ATH, ATM, TAP, WBC, RLI, GCN and NAP) based on topology, orientation, size, and phylogenetic relationships with main focus on four cotton species especially tetraploid Gossypium hirsutum (Gh) encoding 320 ORFs. Dynamics of complex formation of structurally characterized ABCTs from each subfamily shows their kinetic and molecular mechanisms to combine the ATP hydrolysis and binding for substrate translocation, portraying a "structure to function relationship". Analysis of protein motif and genomic organizations displayed structural and functional conservation within same subfamily but diverged among the different subfamilies. Abundance of small sized single ABCs signifies the higher gene death/birth rate and ongoing evolution for functional advancements and environmental adaptability. Gene duplication relationship analysis illustrates the major role of tandem and segmental duplication in large scale expansion of ABC gene family in mentioned species. The overall Ka/Ks ratio indicated the intense purifying selection of ABC genes in four cotton species during evolution. In addition, tissue specific expression profiling, abiotic stress resistance and Co-expression networking of GhABCs infers their role in diverse range of molecular, cellular and biological processes. Cis-elements and gene enrichments also supported their predicted roles in substrates translocation, xenobiotic detoxification, lipid metabolism, hormonal and abiotic stresses responses. Forward and reverse genetics along with evolutionary trajectories, structural dynamics and validated expression profiling will provide much-needed clarity and a qualitative molecular framework for future research. This study will further broaden our insights into the evolution and functional elucidation of ABC gene family in cotton.