Polymorphisms of Buffalo Stomach LYZ c Gene and Its Functional Bioinformatics Analysis

doi:10.7668/hbnxb.2017.06.017

Abstract

Abstract: The main function of the stomach LYZ c is to break open the microbes in the stomach of ruminants,release their nutrients and provide nutrients for the host body.In order to reveal the genetic characteristics of buffalo stomach LYZ c gene,the variations in the complete coding region of buffalo stomach LYZ c gene were detected in 66 river and 158 swamp buffalo samples by adopting the technique of PCR product direct sequencing.Combined with published homologous sequences of some bovine species,the data in this study were further analysed by the methods of comparative genomics and bioinformatics.A total of 9 SNP sites were found in water buffalo,namely c.87G > T,c.196G > A,c.228G > A,c.336G > C,c.351T > C,c.396C > T,c.423C > T,c.424G > A and c.438C>G,respectively.Among them,SNP87,SNP196,SNP336 and SNP351 were only found in river buffalo,and the other 5 SNPs were shared by river and swamp buffalo.The SNP196 and SNP424 were non-synonymous substitution,which result in p.G66S and p.V142I amino acid changes.This two substitutions were presumed to have no effect on the function of buffalo stomach LYZ c.Based on the variations in buffalo stomach LYZ c gene,7 haplotypes were defined from which 3 protein variants were identified.Among them,variant Buffalo 1 and Buffalo 2 were shared by two kinds of water buffalo,and Buffalo 3 was unique to river buffalo.The amino acid compositions,physiochemical properties and structures of the three variants are basically the same.The above characteristics of buffalo stomach LYZ c are very similar to those of cattle,but the isoelectric point of buffalo stomach LYZ c is lower than that of cattle.The results of this study indicate that buffalo stomach LYZ c is more suitable for the acid environment of the stomach,and it has the function of breaking down the microbes in the stomach.

Key words: Buffalo, Stomach LYZ c gene, Foregut fermentation, Sequence analysis, Bioinformatics analysis

CLC Number:

Q78
S823.03

FAN Xinyang, ZHANG Yongyun, QIU Lihua, CHEN Tao, ZHOU Fangting, HA Fu, MIAO Yongwang. Polymorphisms of Buffalo Stomach LYZ c Gene and Its Functional Bioinformatics Analysis[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2017, 32(6): 113-120. doi: 10.7668/hbnxb.2017.06.017.

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