Abstract:
:We conducted a comprehensive analysis of codon usage bias (CUB) based on the available non-redundant full-length cDNA (nrFLcDNA) and expressed sequence tags (ESTs) data of cultivar Micro-Tom and evaluated the associations of observed CUB and measurements of transcriptional and translational effectiveness. The analysis presented in our study suggests a correlation, which is negative but highly correlated between Axis 1 and GC3s (r=-0.827, P<0.01), indicating that mutational bias has a significant and dominant repressive role to the choices of GC3. We also observed a strong positive correlation between codon adaptation index (CAI) and translational adaptation index (tAIg) (0.407, P<0.01), which demonstrates the facilitation of efficient translation by the optimal codon usage patterns of the highly expressed genes. We believe that the complete set of optimal codon usage patterns detected in this study will serve as a model to enhance the transgenesis in the studied cultivar of Solanum lycopersicum.
journal_name
Genomicsjournal_title
Genomicsauthors
Sablok G,Wu X,Kuo J,Nayak KC,Baev V,Varotto C,Zhou Fdoi
10.1016/j.ygeno.2013.02.008subject
Has Abstractpub_date
2013-05-01 00:00:00pages
290-5issue
5eissn
0888-7543issn
1089-8646pii
S0888-7543(13)00037-2journal_volume
101pub_type
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