In silico identification and analyses of single nucleotide polymorphisms (SNPs) present in drought responsive genes in 20 varieties of rice (Oryza sativa L.)

Date

4-2008

Degree

Bachelor of Science in Biology

Major Course

Major in Cell Biology

College

College of Arts and Sciences (CAS)

Adviser/Committee Chair

Ivan-Marcelo A. Duka

Abstract

Fifty five drought responsive genes were collected from online journals and used in identifying embedded Single Nucleotide Polymorphisms (SNPs) along its region. Twelve genes where found to have SNPs, these were CYP707A1, OsMPK2, OsMPK4, OsMPK8, OsMPK12, OsMPK 17, Vin2, OsPIP1,3, OsTIP3,1, OsTIP3:2, OsTIP4; I, and OsNIP3,3 Fifty two SNPs were identified from the collected genes. Seventeen SNPs were found to be part of exon and 35 of them were found to be part of intron Analyses on the SNPs were elucidated by locating them in 20 varieties of rice. Nine of the SNPs were found to cause missense amino acid substitution and eight were found to cause same sense amino acid substitution Only one (CSU18076041) of the SNPs which caused amino acid substitution was found to cause changes in the secondary structure of a protein Two of them, CSU17870021and CSU17870581, did not cause any changes. The rest of the SNPs showed no predictions. Change in the secondary structure may be due to the change or replacement of amino acids

Language

English

Location

UPLB Main Library Special Collections Section (USCS)

Call Number

Thesis

Document Type

Thesis

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