Document Type: Original Article

Authors

1 Crop Production and Plant Breeding Department, School of Agriculture, Shiraz University, Shiraz, Iran

2 Department of Genetic and Animal Breeding, Agriculture Faculty, Shahid Bahonar University of Kerman, Iran

3 Departments of Microbiology, Faculty of Basic sciences, Islamic Azad University, Kerman Branch, Kerman, Iran

4 Departments of Medicine, Medicinal University, Shiraz University, Shiraz, Iran

Abstract

In order to study and compare the phosphate transporter gene codon usage and it's respond to the traits like salt tolerance, day length, Pollination and temperature in different plants, 100 isoform from 10 plants are extracted from NCBI website and then analyzed with Gene Infinity and Minitab 16 software. The result shows that the highest codon usage similarity (81.95%) was for wheat and oryza (annual, self-polinated and Psychrophilic) from Poaceae family. The result for poaceae family shows that the highest mean abundance was for codons that have U or G at the end. In this study Cucurbita maxima (salt tolerance, annual and cross pollinated) have the lowest codon usage similarity (70.37%) in compare with other plants in this study. The highest difference between families was for Fabaceae (77.64%) but they are divided in one group at the cluster. So the results show that the families that have lowest distance have the highest codon usage similarity in terms of salt tolerance, day length, Pollination and temperature. It is conceivable that a direct relationship would exist between preferred codons and division of plant families.

Keywords

Calderon-Vazquez C, Sawers RJ, Herrera-Estrella L (2011) Phosphate deprivation in maize: genetics and genomics. Plant Physiol 156: 1067-1077

Davies, T.G.E., Ying, J., Xu, Q., Li, Z.S., Li, J. and Gordon-Weeks, R. (2002) Expression analysis of putative high-affinity phosphate transporters in Chinese winter wheats. Plant Cell Environment. 25: 1325-1339.

Ermolaeva, M.D. Synonymous codon usage in bacteria. (2001). Current Issues in Molecular Biology. 3: 91–97.

Grantham R, Perrin P, Mouchiroud D. Patterns in codon usage of different kinds of species (1986). Oxford Surveys in Evolutionary Biology. 1986;3:48–81.

Keim, D. L., J. R. Welsh and R. L. McConnet. (1973). Inheritance of photoperiodic heading response in winter and spring cultivars of bread wheat. Can. J. Pl. Sci. 53: 247-250.

Koyama M.L., A. Levesley, R.M.D. Koebner, T.J. Flowers and A.R. Yeo. (2001). Quantitative trait loci for component physiological traits determining salt tolerance in rice. Plant Physiology 125 :406-422.

Law, C. N., J. Sutka and A. J. Worland. (1978). A genetic study of day-length response in wheat. Heredity 41: 185-191.

 Pugsley, A. T. (1965). Inheritance of correlated day length response in spring wheat. Nature 207: 108.

Pugsley, A. T. 1966. The photoperiodic sensitivity of some wheats with special reference to variety Thatcher. Austral. J. Agri. Res. 17: 591-599.

Scarth, R. and C. N. Law. (1983). the location of the photoperiodic gene, Ppd2, and an additional factor for ear-emergence time on chromosome 2B of wheat. Heredity 51: 607-619.

Smith, F.W., Mudge, S.R., Rae, A.L. and Glassop, D. (2003) Phosphate transport in plants. Plant and Soil. 248 (1): 71-83.

Smith, F.W., Rae, A.L. and Hawkesford, M.J. (2000) Molecular mechanisms of phosphate and sulphate transport in plants. Biochimica et Biophysica Acta. 1465: 236–245.

The National Center for Biotechnology (NCBI). December (2013). Available from: http://www.ncbi.nlm.nih.gov/

The Web Bench.  December (2013). Available from: http://www.geneinfinity.org/sms/sms_codonusage.html

Wain-Hobson, S., Nussinov, R., Brown, R.J. and Sussman, J.L. (1981). Preferential codon usage in genes. Gene. 13: 355−364.

Welsh, J. R., D. L. Keim, B. Pirasteh and R. D. Richards. (1973). Genotypic control of photoperiod response in wheat. In: Sears, E. and L. Sears (Eds.), Proceedings of 4th International Wheat Genetics Symposium, pp 879-884. University of Missouri, Columbia, Missouri, USA.