水稻与拟南芥全基因组丝氨酸羧肽酶类蛋白家族比较分析(英文)

    基于水稻与拟南芥全基因组序列,在基因组与蛋白质组水平上对这2种模式植物的丝氨酸羧肽酶 (SCPs)基因家族进行比较分析.利用隐马可夫模型(hidden Markov models,HMM),发现水稻与拟南芥中分别存在71个与54个丝氨酸羧肽酶类(serine carboxypeptidases like,SCPL)蛋白编码基因,它们广泛分布于基因组中各条染色体上,并且存在多个基因簇聚区.基因结构分析显示,拟南芥的SCPL基因存在广泛的交替剪接方式,而这种现象在水稻SCPL基因中却不常见.蛋白结构分析表明,所有SCPL家族成员均具有α/β水解酶折叠亚族与S10家族典型的保守结构域与二级结构特征.系统进化分析表明,这125个SCPL蛋白可以分成3大类,与水稻不同,大多数拟南芥SCPL (88.9%)可归属于双链羧肽酶Ⅰ或Ⅱ.

Genome-wide comparative study of rice and Arabidopsis serine carboxypeptidase-like protein families

The genomes from the model plants rice and Arabidopsis thaliana were systematically mined for serine carboxypeptidases (SCPs) genes and a comparative analysis of them were done at both gene and protein levels. Based on hidden Markov models (HMM), 71 and 54 SCPL (serine carboxypeptidases like) proteins coding genes were identified from rice and Arabidopsis thaliana, respectively. Those genes were widely distributed across the genomes, with the exception of several gene clusters probably resulted from recently gene duplication. Gene structure analysis indicated that remarkable number of Arabidopsis thaliana SCPL genes harbored alternative splice sites contrasting to seldom alternative splicing happened in those of rice genes. All SCPL family members shared conserved sequence motifs and secondary structure characteristics with S10 family enzymes and other members of the larger α/β hydrolase fold superfamily of enzymes. Phylogenetics analysis of the 125 putative genes and other SCPs distinguished three distinct clades, and although most Arabidopsis thaliana genes (88.9%) belong to two chains carboxypeptidase or Ⅱ, the 71 rice genes show no tendency of distribution. Based on the phylogenetic relationships with other SCPs of known function, the functional roles of SCPL family members were discussed.