THE RELATIONSHIP BETWEEN CODON USAGE BIAS AND COLD RESISTANT GENES

摘要

This research is based on synonymous codon usage which has been well-known as a feature that affects typicalexpression level of protein in an organism. Different organisms prefer different codons for same amino acid and this iscalled Codon Usage Bias (CUB). The codon usage directly affects the level or even direction of changes in proteinexpression in responses to environmental stimuli. Cold stress is a major abiotic factor that limits the agricultural productivityof plants. In the recent study CUB has been studied in Arabidopsis thaliana cold resistant and housekeeping genes and theirhomologs in rice (Oryza sativa) to understand the cold stress and housekeeping genes relation with CUB. Six cold resistantand three housekeeping genes in Arabidopsis thaliana and their homologs in rice, were subjected to CUB analysis. The threecold resistant genes (DREB1B, RCI and MYB15) showed more than 50% (52%, 61% and 66% respectively) similar codonusage bias for Arabidopsis thaliana and rice. On the other hand three cold resistant genes (MPK3, ICE1 and ZAT12)showed less than 50% (38%, 38% and 47% respectively) similar codon usage bias for Arabidopsis thaliana and rice. Thethree housekeeping genes (Actin, Tubulin and Ubiquitin) showed 76% similar codon usage bias for Arabidopsis thalianaand rice. This study will help to manage the plant gene expression through codon optimization under the cold stress.