Niu Dandan, Ke Yankun, Lv Qiuying, Zhang Zhen, Liu Tengyingzi, Xu Zhongyao, Li Tong, Zhang Yingluan, Zhang Renli, Zhang Xiaomin, Cai Shunping, You Xiaonan, Chen Yuqing, Wu Hanguang, Li Yingxin, Yin Chan, Wang Danzhu, Duan Xinhua, Guo Yongchao, Liu Rongqi, Feng Tiejian
Department of Communicable Diseases Control and Prevention, Shenzhen Center for Disease Control and Prevention, Shenzhen, China; Shenzhen Research Center for Communicable Disease Control and Prevention, Chinese Academy of Medical Sciences, Shenzhen, China.
Shenzhen Center for Animal Disease Control and Prevention, Shenzhen, China.
Infect Genet Evol. 2025 Jul;131:105755. doi: 10.1016/j.meegid.2025.105755. Epub 2025 Apr 29.
Identifying the pathogen spectrum of animals and surrounding environment is essential for the prevention and control of zoonotic diseases. From February 1 to June 30, 2023, we randomly collected respiratory and intestinal samples from animals and swab samples from surrounding environment in 33 units in Shenzhen, and carried out pathogen/gene screening using pathogen targeted next-generation sequencing technology. A total of 2000 samples were collected and mixed to obtain 415 samples for detection. The detection rate of respiratory pathogens (76.9 %, χ2 = 15.892, P < 0.001), drug resistance genes (59.0 %, χ2 = 52.888, P < 0.001), the co-detection proportion of intestinal pathogens (87.0 %, χ2 = 9.605, P = 0.002) in livestock and poultry, and drug resistance genes in surrounding environment (30.5 %, χ2 = 14.932, P < 0.001) were higher than dogs and cats, and wild animals. Escherichia coli (37.3 %, 30.5 %) and β-lactamase-resistance NDM genes (31.3 %, 27.1 %) were the main respiratory pathogens in livestock and poultry, and surrounding environment. The detection rate of Pasteurella multocide was 25.0 % in dogs and cats. The detection rates of intestinal pathogens Campylobacter coli and Clostridium perfringens in livestock and pourtry were 23.9 % and 17.9 %, and Clostridium perfringens in dogs and cats and wild animal was 18.2 % and 15.7 %. The total detection rate of intestinal pathogens of wild animals in wildlife parks (44.0 %) and indoor pet parks (38.9 %) was higher than that in animal nature reserves (χ2 = 15.686, P = 0.001). The respiratory/intestinal pathogens in animals and surrounding environment was common in Shenzhen. The drug resistance genes in livestock and poultry, and intestinal pathogens of wild animals in indoor pet parks needed more attention.
确定动物及其周围环境中的病原体谱对于人畜共患病的预防和控制至关重要。2023年2月1日至6月30日，我们在深圳的33个单位随机采集了动物的呼吸道和肠道样本以及周围环境的拭子样本，并使用病原体靶向新一代测序技术进行病原体/基因筛查。共采集2000份样本并混合得到415份样本进行检测。畜禽呼吸道病原体的检出率（76.9%，χ2 = 15.892，P < 0.001）、耐药基因的检出率（59.0%，χ2 = 52.888，P < 0.001）、肠道病原体的共检出比例（87.0%，χ2 = 9.605，P = 0.002）以及周围环境中耐药基因的检出率（30.5%，χ2 = 14.932，P < 0.001）均高于犬猫和野生动物。大肠杆菌（37.3%，30.5%）和耐β-内酰胺酶的NDM基因（31.3%，27.1%）是畜禽和周围环境中的主要呼吸道病原体。犬猫中多杀性巴氏杆菌的检出率为25.0%。畜禽中结肠弯曲杆菌和产气荚膜梭菌肠道病原体的检出率分别为23.9%和17.9%，犬猫和野生动物中产气荚膜梭菌的检出率分别为18.2%和15.7%。野生动物园（44.0%）和室内宠物公园（38.9%）野生动物肠道病原体的总检出率高于动物自然保护区（χ2 = 15.686，P = 0.001）。深圳动物及其周围环境中的呼吸道/肠道病原体较为常见。畜禽中的耐药基因以及室内宠物公园中野生动物的肠道病原体需要更多关注。
