Faculty of Biosciences, Institute of Biosciences and Technology, Shri Ramswaroop Memorial University, -Deva Road, Barabanki, Lucknow, Uttar Pradesh, 225003, India.
Experiome Biotech Private Limited, B1-517, Vijaypur Colony, DLF MyPAD, Vibhutikhand, Gomtinagar, Lucknow, Uttar Pradesh, 226010, India.
J Appl Genet. 2023 Dec;64(4):615-644. doi: 10.1007/s13353-023-00774-8. Epub 2023 Aug 25.
Plant ATP-binding cassette (ABC) protein family is the largest multifunctional highly conserved protein superfamily that transports diverse substrates across biological membranes by the hydrolysis of ATP and is also the part of the several other biological processes like cellular detoxification, growth and development, stress biology, and signaling processes. In the agriculturally important legume crop Cajanus cajan, a genome-wide identification and characterization of the ABC gene family was carried out. A total of 159 ABC genes were identified that belong to eight canonical classes CcABCA to CcABCG and CcABCI based on the phylogenetic analysis. The number of genes was highest in CcABCG followed by CcABCC and CcABCB class. A total of 85 CcABC genes were found on 11 chromosomes and 74 were found on scaffold. Tandem duplication was the major driver of CcABC gene family expansion. The dN/dS ratio revealed the purifying selection. The phylogenetic analysis revealed class-specific eight superclades which reflect their functional importance. The largest clade was found to be CcABCG which reflects their functional significance. CcABC proteins were mainly basic in nature and found to be localized in the plasma membrane. The secondary structure prediction revealed the dominance of α-helix. The canonical transmembrane and nucleotide binding domain, signature motif LSSGQ, Walker A, Walker B region, and Q loop were also identified. A class-specific exon-intron pattern was also observed. In addition to core elements, different cis-acting regulatory elements like stress, hormone, and cellular responsive were also identified. Expression profiling of CcABC genes at various developmental stages of different anatomical tissues was performed and it was noticed that CcABCF3, CcABCF4, CcABCF5, CcABCG66, and CcABCI3 had the highest expression. The results of the current study endow us with the further functional analysis of Cajanus ABC in the future.
植物三磷酸腺苷结合盒（ABC）蛋白家族是最大的多功能高度保守蛋白超家族，通过水解 ATP 跨生物膜转运各种底物，也是细胞解毒、生长发育、应激生物学和信号转导等其他几个生物学过程的一部分。在农业上重要的豆科作物木豆中，进行了 ABC 基因家族的全基因组鉴定和特征分析。基于系统发育分析，共鉴定出 159 个 ABC 基因，它们属于八个典型的类群 CcABCA 到 CcABCG 和 CcABCI。CcABCG 类的基因数量最多，其次是 CcABCC 和 CcABCB 类。共有 85 个 CcABC 基因位于 11 条染色体上，74 个位于支架上。串联重复是 CcABC 基因家族扩张的主要驱动力。dN/dS 比值表明存在纯化选择。系统发育分析揭示了具有功能重要性的类特异性八个超家族。最大的类群是 CcABCG，反映了它们的功能意义。CcABC 蛋白主要是碱性的，被发现定位于质膜上。二级结构预测显示α-螺旋占主导地位。还鉴定了典型的跨膜和核苷酸结合结构域、特征基序 LSSGQ、Walker A、Walker B 区域和 Q 环。还观察到了类特异性的外显子-内含子模式。除了核心元件外，还鉴定了不同的顺式作用调控元件，如应激、激素和细胞反应元件。对不同解剖组织不同发育阶段的 CcABC 基因进行了表达谱分析，发现 CcABCF3、CcABCF4、CcABCF5、CcABCG66 和 CcABCI3 表达量最高。本研究的结果为我们今后对木豆 ABC 的进一步功能分析提供了依据。
