副猪嗜血杆菌高自然转化效率菌株的筛选及全基因组测序

doi:10.11843/j.issn.0366-6964.2018.11.016

Abstract

Abstract:

This study aimed to screen highly transformable Haemophilus parasuis (HPS)strains, which in the hope of providing biological materials for the further study of natural competence mechanism and gene function research. Based on the genome sequences of the selected strain and comparative genome analysis, we attempted to investigate the molecular genetic basis of natural transformation of HPS. In this study, 75 HPS field isolates and 15 standard strains were screened by natural transformation method, and the transformation efficiency of the natural competent strain was determined. The genome of the strain SC1401 with high natural transformation efficiency was sequenced using the third-generation sequencing technology on PacBio, and then analyzed using related software for genome assembly, gene prediction, functional annotation and synteny analysis. The sequencing result of SC1401 strain was compared with those of SH0165 strain (GenBank:CP001321), SH03 strain (GenBank:CP009158), KL0318 strain (GenBank:CP009237) and ZJ0906 strain (GenBank:CP005384). The results showed that:1) 11 HPS strains were identified as natural competent strain, which all were wild type, and SC1401 had the highest transformation efficiency among them. 2) The genome size is 2 277 540 bp with GC content of 40.03%. The total gene quantity is 2 220, accounting for 87.75% of the whole genome. This genome sequence had been submitted to GenBank database under the accession number CP015099. 3) Synteny analysis indicated that the relationship between the 5 HPS strains were close-related. 4) Comparative genomics analysis showed that SC1401 isolates contained 385 unique genes, much more than the other 4 strains. Five HPS strains contained a series of identical genes related to natural transformation, and in addition to the tfox, the homogeneity of the amino acid sequences of each gene had reached over 90%. This study is the first report of the whole genome sequence of SC1401, a highly naturally competent strain, and analyzed the basic characterization of the genome, so as to provide a theoretical basis for later research on the mechanism of natural transformation of HPS.

Key words: Haemophilus parasuis, natural transformation strain, strain screening, SC1401, whole-genome sequencing

CLC Number:

S852.612

YANG Zhen, JIN Jin, MA Xiao-yu, DAI Ke, WANG Zheng-hao, CAO San-jie, HUANG Xiao-bo, WU Rui, ZHAO Qin, WEN Yi-ping. Screening the Highly Transformable Haemophilus parasuis Strain and Whole-Genome Sequencing[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2018, 49(11): 2442-2450.

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Screening the Highly Transformable Haemophilus parasuis Strain and Whole-Genome Sequencing

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