The Study of Worldwide <i>Brucella canis</i> of Phylogenetic Groups by Comparative Genomics-based Approaches

doi:10.13523/j.cb.1907053

China Biotechnology

2020, Vol. 40

Issue (3): 38-47 DOI: 10.13523/j.cb.1907053

Orginal Article

The Study of Worldwide Brucella canis of Phylogenetic Groups by Comparative Genomics-based Approaches

JIANG Ji-zhe^1,^**,PAN Hang^2,^**,YUE Min^2,^***(

),ZHANG Le^1,^***(

)

1 School of Computer Science (Software), Sichuan University, Chengdu 610065, China
2 Institute of Animal Preventive Medicine, College of Animal Science, Zhejiang University, Hangzhou 310058, China

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Abstract

Canine brucellosis is a zoonotic disease that causes livestock abortion and human Malta fever worldwide. Recently, with the increase in the number of related host animals such as dogs, infection reports of family children are not uncommon, so study Brucella canis has important public health implications. Using 91 strains around the world, Bayesian method was used to cluster the strains, and based on the core-SNPs and molecular clock model, the evolutionary tree was constructed for population structure and spatiotemporal distribution analysis, and COG function clustering was used to study the functional differences. The four phylogenetic groups (PG) found were significantly associated with their geographic origin. Among PG1-3, there was transmission from Asia to Africa, Europe and America. PG4 was colonized in North America, and its drug resistance genes were gradually missing. Functional gene has different presence/absence profiles in 4 PGs, PG3 is the most complete, and other PGs have unique functional gene absence, especially PG2 mostly lacks ABC-type transport system components. Understanding the global distribution and spread of Brucella canis and its genomic variation will help develop new diagnostic and vaccine targets to combat the epidemic caused by Brucella canis.

Key words： Brucella canis SNP Comparative genomics PG Branch length optimization algorithm

Received: 30 July 2019 Published: 18 April 2020

ZTFLH:

TP3-05

Corresponding Authors: Min YUE,Le ZHANG E-mail: myue@zju.edu.cn;zhangle06@scu.edu.cn

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	JIANG Ji-zhe
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Cite this article:

JIANG Ji-zhe, PAN Hang, YUE Min, ZHANG Le. The Study of Worldwide Brucella canis of Phylogenetic Groups by Comparative Genomics-based Approaches. China Biotechnology, 2020, 40(3): 38-47.

URL:

https://manu60.magtech.com.cn/biotech/10.13523/j.cb.1907053 OR https://manu60.magtech.com.cn/biotech/Y2020/V40/I3/38

Fig.1 The construction process of phylogenetic three based on core-SNPs

Fig.2 Branch topological relation W, X, Y and Z are four subtrees, and l_w, l_x, l_y and l_z are the lengths of the four branches connected to the roots of W, X, Y and Z, respectively. U and V are the subtrees on the left and right, respectively, of the internal branch, and l_a is the internal branch length that maximize the likelihood of the corresponding phylogeny

Fig.3 The phylogenetic tree based on core-SNPs

Table 1 The amount of strains in different places of PG

Fig.4 Spatial and temporal distribution of maximum likelihood phylogenetic tree

Fig.5 The function loss in four PGs (a)The loss in PG1 (b) The loss in PG2 (c) The loss in PG3 (d) The loss in PG4


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