SNP Mining and Gene Functional Annotation in Puccinia helianthi Transcriptome Group

doi:10.7668/hbnxb.2018.03.015

Abstract

Abstract: To understand the function and pathogenicity of the single nucleotide polymorphisms(SNP) gene in the Puccinia helianthi Schw., we used SOAPsnp to search for the SNP of 59 409 Unigenes sequence in the transcriptome data of different germination stages (0, 4, 8 h) of race 330 of P. helianthi. The frequency of sequences with SNP was calculated. Nr,Nt annotation,GO classification,COG classification,KEGG metabolic pathway annotation,and PHI(Pathogen Host Interaction)alignment were performed. The SNP-containing Unigenes were independently assessed for homology matches against NCBI's non-redundant nucleotide database,non-redundant protein database and for orthologs against the Cluster Orthologous Groups of proteins(COG)database using Blast search strategies. And Blast analysis of the PHI database. A total of 29 966 SNPs was identified in 8 321 Unigenes,the frequency of SNPs was 1/2 764 bp,including transition 19 599 and transversion 10 367. A/G and C/T were the main types,accounting for 32.80% and 32.60% of all the SNPs. The annotation results showed that there were 79.64% and 43.00% Unigene annotated to Nr and Nt libraries,genes involved in genetic information process pathways are mostly of translation. Finally,the SNP-containing Unigenes were predicted to have pathogenic function by Blast analysis of the PHI database,there were 961 Unigenes which might be related to pathogenicity of sunflower rust. Therefore,we believed that the pathogenicity of rust is caused by fungal cell wall modification proteins and potential caused by effector protein. This will provide a theoretical basis for the development of SNP genetic polymorphism and construction of genetic maps and lay the foundation for further studies on the virulence and function of sunflower rust,and is of great significance for the study of sunflower disease resistance breeding.

Key words: Puccinia helianthi Schw., Transcriptome group, Single nucleotide polymorphism, Functional annotation

CLC Number:

S435.655
Q78

WANG Yan, JING Lan, LI Xinchun. SNP Mining and Gene Functional Annotation in Puccinia helianthi Transcriptome Group[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2018, 33(3): 92-98. doi: 10.7668/hbnxb.2018.03.015.

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