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基于同一健康策略探究老挝人、动物和环境中多黏菌素耐药性的传播特征 Article
周宇晴, Refath Farzana, Somsavanh Sihalath, Sayaphet Rattanavong, Manivanh Vongsouvath, Mayfong Mayxay, Kirsty Sands, Paul N. Newton, David A.B. Dance, Brekhna Hassan, Timothy R. Walsh
《工程(英文)》 2022年 第15卷 第8期 页码 45-56 doi: 10.1016/j.eng.2022.01.013
This study was designed to investigate the molecular epidemiology of mobile colistin resistance (mcr) using a "One-Health" approach in Laos and to predict whether any dominant plasmid backbone and/or strain type influences the dissemination of mcr. We collected 673 samples from humans (rectal normal flora), poultry, and the environment (water, flies, birds, etc.) in Vientiane, Lao People's Democratic Republic (Laos), from May to September 2018. A total of 238 Escherichia coli (E. coli) isolated from nonduplicative samples, consisting of 98 MCR-positive E. coli (MCRPEC) ("mcr" denotes the gene encoding mobile colistin resistance, and "MCR" denotes the subsequent protein encoded by mcr) and 140 MCRnegative E. coli (MCRNEC), were characterized by phenotype and Illumina sequencing. A subset of MCRPEC was selected for MinION sequencing, conjugation assay, plasmid stability, and growth kinetics in vitro. The prevalence of MCRPEC was found to be 14.6% (98/673), with the highest prevalence in human rectal swabs (45.9% (45/98), p < 0.0001, odds ratio (OR): 0.125, 95% confidence interval (CI): 0.077–0.202). The percentages of MCRPEC from other samples were 14.3% (2/14) in dog feces, 12.0% (24/200) in flies, 11.0% (11/100) in chicken meat, 8.9% (8/90) in chicken cloacal, 8.0% (4/50) in chicken caeca, and 7.5% (4/53) in wastewater. MCRPEC was significantly more resistant to co-amoxiclav, sulfamethoxazoletrimethoprim, levofloxacin, ciprofloxacin, and gentamicin than MCRNEC (p < 0.05). Genomic analysis revealed the distribution of MCRPEC among diverse clonal types. The putative plasmid Inc types associated with mcr-1 were IncX4, IncHI2, IncP1, IncI2, and IncFIA, and those associated with mcr-3 were IncFII, IncFIA, IncFIB, IncP1, and IncR. Recovery of highly similar plasmids from both flies and other sampling sectors implied the role of flies in the dissemination of mcr-1. mcr-positive plasmids were shown to be conjugative, and a significantly high transfer rate into a hypervirulent clone ST1193 was observed. Plasmids containing mcr irrespective of Inc type were highly stable and invariably did not exert a fitness effect upon introduction into a new host. These findings signify the urgent need for a standard infection control program to radically decontaminate the source of resistance.
首次从猪体内分离鉴定人苍白杆菌 Article
谷世江, 侯瑞卿, 高盛果, 孙哲, 李向东, 翟路峰, 金云云, 朱巧艳, 廖永洪, 田克恭
《工程(英文)》 2020年 第6卷 第1期 页码 49-55 doi: 10.1016/j.eng.2019.08.014
从具有神经症状的临床发病猪的脑中分离出一株革兰氏阴性杆菌,该猪脑组织病理检查结果显示有脑膜炎。从大脑样本中成功分离的这株菌经生化反应(API 20 NE)鉴定为人苍白杆菌(O. anthropi ),并通过基因测序进行了确证。
基于系统发育和比较基因组分析揭示与发酵乳杆菌缓解结肠炎相关的关键基因 Article
赵岩, 张程程, 于雷雷, 田丰伟, 赵建新, 张灏, 陈卫, 翟齐啸
《工程(英文)》 2022年 第17卷 第10期 页码 170-182 doi: 10.1016/j.eng.2020.09.016
越来越多的研究表明,发酵乳杆菌可以用于溃疡性结肠炎的预防和治疗。本研究中,我们从中国不同地区的人群粪便样本中分离出了105 株发酵乳杆菌,并对其基因组草图进行了测序。我们分析了这些菌株的泛基因组和系统发育特征,并对4 个模型菌株(发酵乳杆菌3872、CECT5716、IFO3956 和VRI003)也进行了分析。系统发育分析表明,发酵乳杆菌基因组的进化方向与宿主的地理位置、性别、族群和年龄没有明显的关系。我们挑选了3 株来自不同的系统发育支系的发酵乳杆菌(FWXBH115、FGDLZR121和FXJCJ61)和发酵乳杆菌模式菌株CECT5716,通过构建右旋糖酐硫酸钠(DSS)诱导的结肠炎小鼠模型,
杆菌的抗炎作用可能与一些特定基因有关。
越南广平和顺化两省猪场分离副猪嗜血杆菌的抗生素耐药表型和耐药基因之间的相关性研究 Article
Chao Nguyen Van, 张丽君, Tam Vu Thi Thanh, Hung Pham Hoang Son, Tuan Tran Ngoc, 黄琦, 周锐
《工程(英文)》 2020年 第6卷 第1期 页码 40-48 doi: 10.1016/j.eng.2019.10.014
副猪嗜血杆菌是一种对全球养猪业造成重大经济损失的病原菌。副猪嗜血杆菌防控失败的原因之一是细菌耐药性不断加重。越南拥有亚洲排名第二的生猪产量,但是缺乏针对副猪嗜血杆菌耐药性的相关研究和数据。本研究的目的是调查越南副猪嗜血杆菌的耐药性,并分析耐药性和耐药性基因之间的关系。本研究所使用的副猪嗜血杆菌分离菌株来自我们之前研究中从越南广平省和顺化省猪场分离到的菌株。本研究首次揭示了越南中部地区副猪嗜血杆菌的耐药性情况,有助于该疾病的临床控制,能够为降低越南中部的养猪业中该菌的耐药性以及为相关政策制定和临床用药提供指导。
关键词: 副猪嗜血杆菌,抗药性,耐药基因,越南
用于分枝杆菌碱基编辑的PAM扩展型嗜热链球菌Cas9 C到T和C到G碱基编辑器 Article
张洪源, 张翼飞, 王卫晓, 陈未中, 张侠, 黄行许, 陈伟, 季泉江
《工程(英文)》 2022年 第15卷 第8期 页码 67-77 doi: 10.1016/j.eng.2022.02.013
结核分枝杆菌(Mycobacterium tuberculosis, MTB)耐药性是临床治疗面临的重大挑战,迫切需要开发治疗耐药结核病的新型策略通过筛选不同的碱基编辑器,发现广泛使用的酿脓链球菌CRISPR相关蛋白9(SpCas9)或毛螺科菌Cpf1(LbCpf1)胞嘧啶碱基编辑器在分枝杆菌中不具有活性,而嗜热链球菌Cas9(St1Cas9)胞嘧啶碱基编辑器活性较好将CTBE和CGBE用于耻垢分枝杆菌的基因编辑时,产物的纯度得到了提高,并且能够进行多位点编辑。首先在耻垢分枝杆菌中测试了CTBE和CGBE的编辑效率,随后测试了CTBE在MTB中的编辑效率。本文提出的方法显著减少了在MTB中进行精确遗传操作所需要的时间,并将推动分枝杆菌功能基因组学、抗生素-耐药性机制研究和药物-靶点研究的发展。
植物乳杆菌CCFM8610缓解肠易激综合征并改善肠道菌群失调——一项随机、双盲、安慰剂对照的先导性临床试验 Article
刘洋, 郁辛杰, 于雷雷, 田丰伟, 赵建新, 张灏, 钱龙, 王群, 薛正青, 翟齐啸, 陈卫
《工程(英文)》 2021年 第7卷 第3期 页码 376-385 doi: 10.1016/j.eng.2020.06.026
重构异戊二烯焦磷酸代谢以促进萜类化合物的合成 Article
徐显皓, 吕雪芹, 崔世修, 刘延峰, 夏洪志, 李江华, 堵国成, 李兆丰, Rodrigo Ledesma-Amaro, 陈坚, 刘龙
《工程(英文)》 2023年 第28卷 第9期 页码 166-178 doi: 10.1016/j.eng.2023.03.019
一种基于Caco-2细胞单层膜的筛选抵抗特定代谢性疾病益生菌的模型 Article
刘阳, 彭江, 朱诗雅, 于雷雷, 田丰伟, 赵建新, 张灏, 陈卫, 翟齐啸
《工程(英文)》 2023年 第25卷 第6期 页码 222-233 doi: 10.1016/j.eng.2022.02.014
基于荧光原位杂交技术的UASB颗粒污泥中苯酚降解微生物生态位分化研究 Article
Kengo Kubota, Kei Igarashi, Masayoshi Yamada, Yasuyuki Takemura, Yu-You Li, Hideki Harada
《工程(英文)》 2022年 第9卷 第2期 页码 61-66 doi: 10.1016/j.eng.2021.05.012
关键词: 隐杆厌氧菌(Cryptanaerobacter) 荧光原位杂交 苯酚厌氧降解 互营杆菌(Syntrophorhabdaceae) 互养菌(Syntrophus)
碳青霉烯类耐药性在人源和动物源产NDM酶大肠埃希菌间的传播 Article
沈应博, 胡付品, 王永强, 尹丹丹, 杨璐, 陈义强, 许春燕, 李基云, 蒋君瑶, 王雪杨, 付玉林, 邵东延, 刘德俊, 马藤菲, 蔡畅, 沈张奇, 王少林, 李娟, 张嵘, 柯跃斌, 吴聪明, 沈建忠, Timothy R. Walsh, 汪洋
《工程(英文)》 2022年 第15卷 第8期 页码 24-33 doi: 10.1016/j.eng.2021.07.030
Although carbapenem use is prohibited in animals in China, carbapenem-resistant Escherichia coli (CREC), especially New Delhi metallo-β-lactamase (NDM)-producing strains, are widely prevalent in foodproducing animals. At present, the impact of livestock-associated CREC strains on human populations at the national level is unknown. Here, we conduct a retrospective cross-sectional study to investigate the prevalence of CREC from clinical settings across 22 Chinese provinces or municipalities and analyze anthropogenic factors associated with their presence. We also ascertain the blaNDM and blaKPC abundance among pig and chicken farms and present a detailed genomic framework for CREC of animal and human origin. Overall, 631/29799 (2.1%) clinical Escherichia coli (E. coli) isolates were identified as CREC. Multivariable analysis revealed that being male, an age below 1, an age between 13 and 18, provinces with greater chicken production, and provinces with higher pig production were associated with higher odds of CREC infection. In general, 73.8% (n = 45/61) of pig farms and 62.2% (n = 28/45) of chicken farms had a blaNDM abundance of 1×10-5 to 1×10-3 and 1×10-3 to 1×10-2, respectively. Among all the Chinese NDM-positive E. coli (n = 463) available at the National Center for Biotechnology Information (NCBI), the genomic analysis revealed that blaNDM-5 and IncX3 were the predominant carbapenemase gene-plasmid combination, while a highly homogeneous relationship between NDM-positive isolates from humans and animals was demonstrated at the plasmid and core genome levels. All the findings suggest frequent CREC transmission between humans and animals, indicating that further discussions on the use of antibiotics in animals and humans are needed, both in China and across the globe.
关键词: Carbapenem resistance Escherichia coli blaNDM-5 One Health Antimicrobial resistance transmission
刘红,杨帆,张笑冰,张继瑜,杨国威,董杰,薛颖,侯云德,袁正宏,闻玉梅,徐建国,陈洪松,马大龙,王宇,杨剑,沈岩,强伯勤,吴洪涛,贺秉坤,吕渭川,金奇
《中国工程科学》 2002年 第4卷 第10期 页码 40-47
关键词: 福氏2a志贺菌301株 全基因组序列测定 痢疾岛 毒力岛
标题 作者 时间 类型 操作
基于同一健康策略探究老挝人、动物和环境中多黏菌素耐药性的传播特征
周宇晴, Refath Farzana, Somsavanh Sihalath, Sayaphet Rattanavong, Manivanh Vongsouvath, Mayfong Mayxay, Kirsty Sands, Paul N. Newton, David A.B. Dance, Brekhna Hassan, Timothy R. Walsh
期刊论文
长双歧杆菌CCFM1077通过调节肠道微生物组成和粪便代谢物来减轻高脂血症——一项随机、双盲、安慰剂对照的临床试验
储传奇, 姜金池, 于雷雷, 李易文, 张松礼, 周巍, 王群, 赵建新, 翟齐啸, 田丰伟, 陈卫
期刊论文
越南广平和顺化两省猪场分离副猪嗜血杆菌的抗生素耐药表型和耐药基因之间的相关性研究
Chao Nguyen Van, 张丽君, Tam Vu Thi Thanh, Hung Pham Hoang Son, Tuan Tran Ngoc, 黄琦, 周锐
期刊论文
植物乳杆菌CCFM8610缓解肠易激综合征并改善肠道菌群失调——一项随机、双盲、安慰剂对照的先导性临床试验
刘洋, 郁辛杰, 于雷雷, 田丰伟, 赵建新, 张灏, 钱龙, 王群, 薛正青, 翟齐啸, 陈卫
期刊论文
基于荧光原位杂交技术的UASB颗粒污泥中苯酚降解微生物生态位分化研究
Kengo Kubota, Kei Igarashi, Masayoshi Yamada, Yasuyuki Takemura, Yu-You Li, Hideki Harada
期刊论文
碳青霉烯类耐药性在人源和动物源产NDM酶大肠埃希菌间的传播
沈应博, 胡付品, 王永强, 尹丹丹, 杨璐, 陈义强, 许春燕, 李基云, 蒋君瑶, 王雪杨, 付玉林, 邵东延, 刘德俊, 马藤菲, 蔡畅, 沈张奇, 王少林, 李娟, 张嵘, 柯跃斌, 吴聪明, 沈建忠, Timothy R. Walsh, 汪洋
期刊论文