Article
Microbiology
Ola H. Moghnia, Nourah A. Al-Sweih
Summary: The spread of carbapenem-resistant E. coli and K. pneumoniae is a global concern. This study aimed to investigate the genetic characteristics and variations of multidrug resistant isolates. Whole genome sequencing was carried out on eight carbapenem-resistant isolates, and various resistance genes were detected. This research is important for understanding and combating antimicrobial resistance.
Article
Infectious Diseases
Aline I. Moser, Edgar I. Campos-Madueno, Vincent Perreten, Andrea Endimiani
Summary: This study investigated the structural changes and accumulation of core-genome single nucleotide variants (cgSNVs) in multidrug-resistant bacteria during a few propagation steps under laboratory conditions. It was found that some strains experienced structural changes and accumulated cgSNVs. This phenomenon could also occur in a short time in the clinical setting, especially under antibiotic treatment. Therefore, the researchers suggested that this phenomenon should be carefully considered in epidemiological genomic analyses.
JOURNAL OF GLOBAL ANTIMICROBIAL RESISTANCE
(2022)
Article
Infectious Diseases
Guixiang Tao, Hua Tan, Qian Chen
Summary: This research aimed to analyze the genetic characteristics of three Enterobacteriaceae strains that produce both NDM-5 and OXA-181 carbapenemases in pediatric patients. The strains were collected from a children's hospital in China. The results showed that these strains carried both bla(NDM-5) and bla(OXA-181) resistance genes, and further analysis revealed their genotypes and plasmid types. This is the first report of such strains isolated from pediatric patients in China, highlighting the need for infection control measures.
INFECTION AND DRUG RESISTANCE
(2023)
Article
Immunology
Ching-Hsun Wang, Ling Ma, Li-Yueh Huang, Kuo-Ming Yeh, Jung-Chung Lin, L. Kristopher Siu, Feng-Yee Chang
Summary: This study investigated the molecular epidemiology and resistance patterns of bla(OXA)-48 Klebsiella pneumoniae and Escherichia coli in Taiwan. The isolates showed high-level carbapenem resistance and broad resistance against many beta-lactam antibiotics, with the presence of multiple clones dissemination in bla(OXA-48) K. pneumoniae.
JOURNAL OF MICROBIOLOGY IMMUNOLOGY AND INFECTION
(2021)
Article
Immunology
Ziyi Liu, Ruifei Chen, Poshi Xu, Zhiqiang Wang, Ruichao Li
Summary: The study characterized an emerging NDM-encoding IncHI5-like plasmid from Klebsiella pneumoniae, revealing its distribution, genetic composition, and evolution mechanisms. Comparative genomic analysis showed that this plasmid shared similarities with four other IncHI5-like plasmids and the IncHI5 plasmid. This study expands our knowledge of the evolutionary history of IncHI5-like plasmids.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2021)
Article
Infectious Diseases
Mingju Hao, Jessica Schuyler, Haifang Zhang, Elena Shashkina, Hong Du, Derrick E. Fouts, Michael Satlin, Barry N. Kreiswirth, Liang Chen
Summary: A study on CRKp isolates from New York and New Jersey revealed low in vitro activity of apramycin and a high resistance rate, mainly among the K. pneumoniae ST258 strains. The study identified the presence of a novel cointegrate plasmid, p59494-RX116.1, demonstrating the potential spread of apramycin resistance through plasmids.
JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY
(2021)
Article
Biochemistry & Molecular Biology
Sumeet Manandhar, Amy Scott-Thomas, Michael Harrington, Priyanka Sinha, Anna Pilbrow, Arthur Mark Richards, Vicky Cameron, Madhav Bhatia, Stephen T. Chambers
Summary: This study measured the concentrations of hydrogen sulfide (H2S) and substance P (SP) in the peripheral blood of patients with Escherichia coli or Klebsiella pneumoniae bacteraemia. The study found that the concentrations of H2S and SP varied with the site of infection.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Genetics & Heredity
Yanping Xu, Jianfeng Zhang, Meng Wang, Meng Liu, Guitian Liu, Hongping Qu, Jialin Liu, Zixin Deng, Jingyong Sun, Hong-Yu Ou, Jieming Qu
Summary: This study revealed that a nonconjugative virulence plasmid in ST11 CRKP strains can potentially be mobilized from hvKP or E. coli intermediates with the assistance of conjugative IncF plasmids. The virulence plasmid can be mobilized in four modes, and most putative helper plasmids and virulence plasmids carry a specific 28-bp fusion site. This highlights the rapid dissemination of virulence plasmids and the continuous emergence of hypervirulent carbapenem-resistant K. pneumoniae (hv-CRKP) strains.
Article
Microbiology
Patricia Perez-Palacios, Ana Gual-de-Torrella, Mercedes Delgado-Valverde, Jesus Oteo-Iglesias, Carmen Hidalgo-Diaz, Alvaro Pascual, Felipe Fernandez-Cuenca
Summary: The study found that biofilm formation can affect the spread of OXA-48-Kpn, especially in high-risk clones. The presence of biocides reduced the fold changes in CF-BF/CF-PK in HR isolates, while it had minimal effect on non-HR isolates.
MICROBIOLOGICAL RESEARCH
(2022)
Article
Infectious Diseases
Jacqueline Findlay, Roberto Sierra, Otavio Hallal Ferreira Raro, Marta Aires-de-Sousa, Diego O. Andrey, Patrice Nordmann
Summary: This study analysed a collection of E. coli strains harbouring acquired fosA genes and found high-level resistance to fosfomycin. The strains also carried other antibiotic resistance genes and were capable of transmission through conjugation.
JOURNAL OF GLOBAL ANTIMICROBIAL RESISTANCE
(2023)
Article
Chemistry, Multidisciplinary
Yishuai Lin, Ying Zhang, Shixing Liu, Dandan Ye, Liqiong Chen, Na Huang, Weiliang Zeng, Wenli Liao, Yizhou Zhan, Tieli Zhou, Jianming Cao
Summary: Colistin, considered as a last resort treatment for Gram-negative bacteria infections, is becoming ineffective against colistin-resistant strains of Escherichia coli and Klebsiella Pneumoniae. The combination of quercetin with colistin efficiently eradicates colistin-resistant bacteria by downregulating resistance genes and enhancing bacterial cell membrane damage. This colistin/quercetin combination shows promise as an alternative pathway against colistin-resistant infections.
FRONTIERS IN CHEMISTRY
(2021)
Article
Microbiology
Samanta Freire, Teresa Grilo, Bruna Rodrigues, Rui Oliveira, Carla Esteves, Antonio Marques, Laurent Poirel, Marta Aires-de-Sousa
Summary: This study aimed to analyze the occurrence and characteristics of ESBL- and carbapenemase-producing E. coli among bivalves. Out of 522 collected bivalve samples, E. coli growth was observed in 39% of the samples. Nine samples (4.4%) were contaminated with ESBL producers and one sample (0.5%) was contaminated with a carbapenemase-producing K. pneumoniae. The presence of ESBL- and carbapenemase-producing Enterobacteriaceae in bivalves indicates that the marine environment could be a reservoir of critical bacterial pathogens, posing a potential risk to human health.
Article
Infectious Diseases
Alix Benedicte Kagambega, Rene Dembele, Lea Bientz, Fatima M'Zali, Laure Mayonnove, Alassane Halawen Mohamed, Hiliassa Coulibaly, Nicolas Barro, Veronique Dubois
Summary: This study screened for carbapenemase-producing bacteria in hospital wastewater and found the presence of clinically relevant isolates with multiple resistance determinants. These findings highlight the need for intensified antimicrobial resistance surveillance.
Article
Immunology
Dakang Hu, Yuming Li, Ping Ren, Dongxing Tian, Wenjie Chen, Pan Fu, Weiwen Wang, Xiaobin Li, Xiaofei Jiang
Summary: The positive rates of virulence genes in Klebsiella pneumoniae vary significantly, with iucA, p-rmpA2, and p-rmpA being the primary genes leading to Hv-bla (KPC)(+)-KP. The formation of Hv-bla (KPC)(+)-KP is mostly due to bla (KPC)(+)-KP acquiring another plasmid carrying virulence genes.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2021)
Article
Infectious Diseases
Frederik Pankok, Stefan Taudien, Denise Dekker, Thorsten Thye, Kwabena Oppong, Charity Wiafe Akenten, Maike Lamshoeft, Anna Jaeger, Martin Kaase, Simone Scheithauer, Konstantin Tanida, Hagen Frickmann, Juergen May, Ulrike Loderstaedt
Summary: This study provided valuable information on the epidemiology of third-generation cephalosporine resistance-mediating plasmids in Ghana, revealing the transversal spread of plasmids among K. pneumoniae lineages. The observation of resistance gene-encoding plasmids with international spread hints at the global dissemination of resistance mechanisms.
Article
Infectious Diseases
Teng Xu, Jian Wang, Jianchao Ying, Tingyuan Zhu, Yabo Liu, Lei Xu, Pingping Li, Peizhen Li, Jun Ying, Kewei Li, Huiguang Yi, Junwan Lu, Yunliang Hu, Tieli Zhou, Qiyu Bao
INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS
(2018)
Article
Microbiology
Pingping Li, Kai Shen, Ying Zhang, Jianchao Ying, Yabo Liu, Lei Xu, Chaoqing Lin, Kaibo Zhang, Peizhen Li, Junwan Lu, Kewei Li, Huiguang Yi, Qiyu Bao, Teng Xu
FRONTIERS IN MICROBIOLOGY
(2018)
Article
Infectious Diseases
Min Yin, Yi Jiang, Changrui Qian, Fei Wu, Yuanyuan Ying, Chongyang Wu, Peizhen Li, Jun Ying, Kewei Li, Teng Xu, Qiyu Bao, Caixia Sung
INFECTION AND DRUG RESISTANCE
(2018)
Article
Microbiology
Lingli Hou, Alexander Debru, Qianqian Chen, Qiyu Bao, Kewei Li
FRONTIERS IN MICROBIOLOGY
(2019)
Article
Biochemistry & Molecular Biology
Fei Wu, Yuanyuan Ying, Min Yin, Yi Jiang, Chongyang Wu, Changrui Qian, Qianqian Chen, Kai Shen, Cong Cheng, Licheng Zhu, Kewei Li, Teng Xu, Qiyu Bao, Junwan Lu
INTERNATIONAL JOURNAL OF GENOMICS
(2019)
Article
Biochemistry & Molecular Biology
Yuanyuan Ying, Fei Wu, Chongyang Wu, Yi Jiang, Min Yin, Wangxiao Zhou, Xinyi Zhu, Cong Cheng, Licheng Zhu, Kewei Li, Junwan Lu, Teng Xu, Qiyu Bao
INTERNATIONAL JOURNAL OF GENOMICS
(2019)
Article
Microbiology
Qianqian Chen, Wangxiao Zhou, Changrui Qian, Kai Shen, Xinyi Zhu, Danying Zhou, Zhewei Sun, Wei Lu, Hongmao Liu, Kewei Li, Teng Xu, Qiyu Bao, Junwan Lu
FRONTIERS IN MICROBIOLOGY
(2019)
Article
Biochemistry & Molecular Biology
Wangxiao Zhou, Qianqian Chen, Changrui Qian, Kai Shen, Xinyi Zhu, Danying Zhou, Wei Lu, Zhewei Sun, Hongmao Liu, Kewei Li, Teng Xu, Qiyu Bao, Junwan Lu
INTERNATIONAL JOURNAL OF GENOMICS
(2019)
Letter
Immunology
Huiguang Yi
CLINICAL INFECTIOUS DISEASES
(2020)
Article
Immunology
Yabo Liu, Fei Wu, Qing Chen, Yuanyuan Ying, Yi Jiang, Junwan Lu, Xi Lin, Kewei Li, Teng Xu, Qiyu Bao, Liyan Ni
COMPARATIVE IMMUNOLOGY MICROBIOLOGY AND INFECTIOUS DISEASES
(2020)
Article
Biochemistry & Molecular Biology
Jianchao Ying, Jun Ye, Teng Xu, Qian Wang, Qiyu Bao, Aifang Li
INTERNATIONAL JOURNAL OF GENOMICS
(2019)
Article
Infectious Diseases
Jian Wang, Teng Xu, Jun Ying, Wangxiao Zhou, Qianqian Chen, Changrui Qian, Xinyi Zhu, Kai Shen, Peizhen Li, Kewei Li, Qiyu Bao, Junwan Lu
INFECTION AND DRUG RESISTANCE
(2019)
Article
Immunology
Tingyuan Zhe, Suzhen Liu, Yuanyuan Ying, Lei Xu, Yabo Liu, Junjie Jin, Jun Ying, Junwan Lu, Xi Lin, Kewei Li, Teng Xu, Qiyu Bao, Peizhen Li
COMPARATIVE IMMUNOLOGY MICROBIOLOGY AND INFECTIOUS DISEASES
(2020)
Letter
Oncology
Zheng Dong, Huiguang Yi
CANCER COMMUNICATIONS
(2021)
Article
Biochemical Research Methods
Huiguang Yi, Yanling Lin, Qing Chang, Wenfei Jin
Summary: Alignment-based RNA-seq quantification methods involve time-consuming alignment process, while alignment-free RNA-seq quantification methods bypass this step and achieve significant speed improvements. However, existing alignment-free methods relying on EM algorithm only provide locally optimal solutions, leaving room for further accuracy improvement. In this study, we introduce TQSLE, the first alignment-free RNA-seq quantification method providing a globally optimal solution for transcript abundances estimation. TQSLE outperforms other alignment-free methods in terms of accuracy, while maintaining comparable speed. TQSLE is freely available.
BRIEFINGS IN BIOINFORMATICS
(2023)