关键词: APETALA1, 植物, 密码子使用偏好性, 碱基组成动力学

Abstract:

To reveal the molecular mechanism of APETALA1（AP1）gene and the evolution among different plants，we selected the complete nucleotide coding sequences of AP1 gene from 8 different plant species for CUB analysis. Using R software，we performed a comparative analysis of codon bias and compositional dynamics of codon usage patterns in AP1 gene across eight different plant species by determining the GC contents，several genetic indices namely effective number of codons（ENC），relative synonymous codon usage（RSCU），and relative codon usage bias（RCBS）etc. Results showed codon usage in AP1 gene in plants were influenced by GC bias，mainly due to GC3s. The majority of optimal codons were A/U ending for the corresponding amino acid，of which ACA，AUA and CAG were over-represented codons in the AP1 gene of all the selected plant species. The codon usage pattern for AP1 in Paeonia lactiflora showed resemblance to that of Paeonia suffruticosa；similarly，and Prunus persica to Malus × domestica. Low Fop（Frequency of optimal codon）and high ENC values suggested a weaker codon bias observed for the AP1 gene in different plant species.

Key words: APETALA1, plant, codon usage bias, compositional dynamics