大熊猫源致病大肠杆菌CCHTP全基因组测序及耐药和毒力基因分析

doi:10.16288/j.yczz.19-243

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Hereditas(Beijing) ›› 2019, Vol. 41 ›› Issue (12): 1138-1147.doi: 10.16288/j.yczz.19-243

• Research Article • Previous Articles Next Articles

Whole genome sequencing reveals the distribution of resistance and virulence genes of pathogenic Escherichia coli CCHTP from giant panda

Wenwen Deng¹, Caiwu Li¹, Siyue Zhao², Rengui Li¹, Yongguo He¹, Daifu Wu¹, Shengzhi Yang², Yan Huang¹, Hemin Zhang¹, Likou Zou²()

^1. China Conservation and Research Centre of the Giant Panda, Key Laboratory of SFGA on Conservation Biology of Rare Animals in the Giant Panda National Park, Dujiangyan 611830, China
^2. Faculty of Applied Microbiology, College of Resources, Sichuan Agricultural University, Chengdu 611130, China

Received:2019-09-17 Revised:2019-11-25 Online:2019-12-20 Published:2019-11-27
Contact: Zou Likou E-mail:zoulikou@sicau.edu.cn
Supported by:
Supported by the Project of China Conservation and Research Center for the Giant Panda No(CCRCGP181918);the National Natural Science Foundation of China No(31400066)

Abstract

Abstract:

Pathogenic Escherichia coli (E. coli) is the most common pathogen causing urinary tract infection in animals. We investigated the antibiotic resistance and virulence genes of pathogenic E. coli CCHTP derived from urine with occult blood of the giant panda by whole genome sequencing. The flanking sequencing of resistance and virulence genes in genomic islands were also analyzed. Our results demonstrate that E. coli CCHTP contains different families of antibiotic resistance genes, most of which are efflux pump related genes, including multiple drug resistance efflux pump genes mdfA, emrE, and mdtN. A total of 166 virulence factors and 563 virulence genes were identified, and the most virulence factors and related genes are involved in host cell attachment and invasion processes. Furthermore, sequence analysis of 19 genomic islands revealed that antibiotic and virulence genes are associated with mobile genetic elements (transposon and insertion sequence) in GIs011 and GIs017. These structures can mediate horizontal transfer of antibiotic and virulence genes. Our work described the distribution of antibiotic resistance genes and virulence genes in E. coli CCHTP, which may provide an important guidance for treatment and rational drug use of E. coli CCHTP infection in the giant panda.

Key words: giant panda, Escherichia coli, whole genome sequencing, resistance gene, virulence gene

Wenwen Deng, Caiwu Li, Siyue Zhao, Rengui Li, Yongguo He, Daifu Wu, Shengzhi Yang, Yan Huang, Hemin Zhang, Likou Zou. Whole genome sequencing reveals the distribution of resistance and virulence genes of pathogenic Escherichia coli CCHTP from giant panda[J]. Hereditas(Beijing), 2019, 41(12): 1138-1147.

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耐抗生素大类	耐药基因	基因数量
外排泵	macB、adeL、patA、evgS、mdtF、 patB、sav1866和TaeA等	115
糖肽类	vanTG、vanTC、vanRI、vanRF、vanRE、 vanRB、vanHD、vanG、baeS和baeR	12
多肽类	pmrF、pmrE、pmrC、mcr-3、 basS、arnA和arlS	9
四环素类	tetT、tetB(60)、tetA(48)和tet34	7
喹诺酮类	gyrB、gyrA和mfd	4
抗结核药	ndh、katG和kasA	3
磺胺类	sul3和leuO	2
β-内酰胺类	mecC和bla_CMY-63	2
多磷类	glpT和murA	2
大环内酯类	chrB	1
环脂肽类	cls	1
肽类抗生素	bacA	1
林可酰胺类	clbB	1
利福霉素类	rphB	1

类别	抗生素	敏感(S)	耐药(R)
四环素类	四环素		R
β内酰胺抑制剂	阿莫西林/克拉维酸	S
单环内酰胺类	氨曲南	S
氨基糖苷类	卡那霉素		R
氨基糖苷类	庆大霉素		R
大环内酯类	红霉素		R
大环内酯类	阿奇霉素		R
喹诺酮类	诺氟沙星		R
	氧氟沙星		R
	恩诺沙星		R
β-内酰胺类	阿莫西林		R
	氨苄西林		R
	头孢克洛		R
	头孢噻肟		R
	头孢曲松		R

Whole genome sequencing reveals the distribution of resistance and virulence genes of pathogenic Escherichia coli CCHTP from giant panda

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