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  1. Article ; Online: Activation of CzcS/CzcR during zinc excess regulates copper tolerance and pyochelin biosynthesis of

    Li, Ting / Cao, Huiluo / Duan, Cheng / Chen, Shuzhen / Xu, Zeling

    Applied and environmental microbiology

    2024  Volume 90, Issue 3, Page(s) e0232723

    Abstract: Zinc is an important transition metal that is essential for numerous physiological processes while excessive zinc is cytotoxic. : Importance: CzcS/CzcR is a two-component system that has been found to modulate zinc homeostasis, quorum sensing, and ... ...

    Abstract Zinc is an important transition metal that is essential for numerous physiological processes while excessive zinc is cytotoxic.
    Importance: CzcS/CzcR is a two-component system that has been found to modulate zinc homeostasis, quorum sensing, and antibiotic resistance in
    MeSH term(s) Humans ; Copper/metabolism ; Pseudomonas aeruginosa/genetics ; Pseudomonas aeruginosa/metabolism ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Zinc/metabolism ; Pseudomonas Infections ; Gene Expression Regulation, Bacterial ; Phenols ; Thiazoles
    Chemical Substances Copper (789U1901C5) ; pyochelin (69772-54-9) ; Bacterial Proteins ; Zinc (J41CSQ7QDS) ; Phenols ; Thiazoles
    Language English
    Publishing date 2024-02-20
    Publishing country United States
    Document type Journal Article
    ZDB-ID 223011-2
    ISSN 1098-5336 ; 0099-2240
    ISSN (online) 1098-5336
    ISSN 0099-2240
    DOI 10.1128/aem.02327-23
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.B 201: Show issues Location:
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    ab Jg. 2022: Lesesaal (EG)

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  2. Article ; Online: Advances in mining and expressing microbial biosynthetic gene clusters

    Xu, Zeling / Park, Tae-Jin / Cao, Huiluo

    Critical Reviews in Microbiology. 2023 Jan. 2, v. 49, no. 1 p.18-37

    2023  

    Abstract: Natural products (NPs) especially the secondary metabolites originated from microbes exhibit great importance in biomedical, industrial and agricultural applications. However, mining biosynthetic gene clusters (BGCs) to produce novel NPs has been ... ...

    Abstract Natural products (NPs) especially the secondary metabolites originated from microbes exhibit great importance in biomedical, industrial and agricultural applications. However, mining biosynthetic gene clusters (BGCs) to produce novel NPs has been hindered owing that a large population of environmental microbes are unculturable. In the past decade, strategies to explore BGCs directly from (meta)genomes have been established along with the fast development of high-throughput sequencing technologies and the powerful bioinformatics data-processing tools, which greatly expedited the exploitations of novel BGCs from unculturable microbes including the extremophilic microbes. In this review, we firstly summarized the popular bioinformatics tools and databases available to mine novel BGCs from (meta)genomes based on either pure cultures or pristine environmental samples. Noticeably, approaches rooted from machine learning and deep learning with focuses on the prediction of ribosomally synthesized and post-translationally modified peptides (RiPPs) were dramatically increased in recent years. Moreover, synthetic biology techniques to express the novel BGCs in culturable native microbes or heterologous hosts were introduced. This working pipeline including the discovery and biosynthesis of novel NPs will greatly advance the exploitations of the abundant but unexplored microbial BGCs.
    Keywords bioinformatics ; biosynthesis ; genes ; microbiology ; peptides ; prediction ; secondary metabolites ; synthetic biology ; Biosynthetic gene clusters ; natural products ; transcription activation ; heterologous expression
    Language English
    Dates of publication 2023-0102
    Size p. 18-37.
    Publishing place Taylor & Francis
    Document type Article ; Online
    ZDB-ID 1053620-6
    ISSN 1549-7828 ; 1040-841X
    ISSN (online) 1549-7828
    ISSN 1040-841X
    DOI 10.1080/1040841X.2022.2036099
    Database NAL-Catalogue (AGRICOLA)

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    In stock of ZB MED Bonn / Germany

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  3. Article ; Online: Type I CRISPR-Cas-mediated microbial gene editing and regulation.

    Xu, Zeling / Chen, Shuzhen / Wu, Weiyan / Wen, Yongqi / Cao, Huiluo

    AIMS microbiology

    2023  Volume 9, Issue 4, Page(s) 780–800

    Abstract: There are six major types of CRISPR-Cas systems that provide adaptive immunity in bacteria and archaea against invasive genetic elements. The discovery of CRISPR-Cas systems has revolutionized the field of genetics in many organisms. In the past few ... ...

    Abstract There are six major types of CRISPR-Cas systems that provide adaptive immunity in bacteria and archaea against invasive genetic elements. The discovery of CRISPR-Cas systems has revolutionized the field of genetics in many organisms. In the past few years, exploitations of the most abundant class 1 type I CRISPR-Cas systems have revealed their great potential and distinct advantages to achieve gene editing and regulation in diverse microorganisms in spite of their complicated structures. The widespread and diversified type I CRISPR-Cas systems are becoming increasingly attractive for the development of new biotechnological tools, especially in genetically recalcitrant microbial strains. In this review article, we comprehensively summarize recent advancements in microbial gene editing and regulation by utilizing type I CRISPR-Cas systems. Importantly, to expand the microbial host range of type I CRISPR-Cas-based applications, these structurally complicated systems have been improved as transferable gene-editing tools with efficient delivery methods for stable expression of CRISPR-Cas elements, as well as convenient gene-regulation tools with the prevention of DNA cleavage by obviating deletion or mutation of the Cas3 nuclease. We envision that type I CRISPR-Cas systems will largely expand the biotechnological toolbox for microbes with medical, environmental and industrial importance.
    Language English
    Publishing date 2023-12-18
    Publishing country United States
    Document type Journal Article ; Review
    ISSN 2471-1888
    ISSN (online) 2471-1888
    DOI 10.3934/microbiol.2023040
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Advances in mining and expressing microbial biosynthetic gene clusters.

    Xu, Zeling / Park, Tae-Jin / Cao, Huiluo

    Critical reviews in microbiology

    2022  Volume 49, Issue 1, Page(s) 18–37

    Abstract: Natural products (NPs) especially the secondary metabolites originated from microbes exhibit great importance in biomedical, industrial and agricultural applications. However, mining biosynthetic gene clusters (BGCs) to produce novel NPs has been ... ...

    Abstract Natural products (NPs) especially the secondary metabolites originated from microbes exhibit great importance in biomedical, industrial and agricultural applications. However, mining biosynthetic gene clusters (BGCs) to produce novel NPs has been hindered owing that a large population of environmental microbes are unculturable. In the past decade, strategies to explore BGCs directly from (meta)genomes have been established along with the fast development of high-throughput sequencing technologies and the powerful bioinformatics data-processing tools, which greatly expedited the exploitations of novel BGCs from unculturable microbes including the extremophilic microbes. In this review, we firstly summarized the popular bioinformatics tools and databases available to mine novel BGCs from (meta)genomes based on either pure cultures or pristine environmental samples. Noticeably, approaches rooted from machine learning and deep learning with focuses on the prediction of ribosomally synthesized and post-translationally modified peptides (RiPPs) were dramatically increased in recent years. Moreover, synthetic biology techniques to express the novel BGCs in culturable native microbes or heterologous hosts were introduced. This working pipeline including the discovery and biosynthesis of novel NPs will greatly advance the exploitations of the abundant but unexplored microbial BGCs.
    MeSH term(s) Computational Biology ; Peptides ; Multigene Family ; Biosynthetic Pathways/genetics
    Chemical Substances Peptides
    Language English
    Publishing date 2022-02-15
    Publishing country England
    Document type Review ; Journal Article
    ZDB-ID 1053620-6
    ISSN 1549-7828 ; 1040-841X
    ISSN (online) 1549-7828
    ISSN 1040-841X
    DOI 10.1080/1040841X.2022.2036099
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 1025: Show issues Location:
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    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)

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  5. Article: Harnessing the CRISPR-Cas Systems to Combat Antimicrobial Resistance.

    Duan, Cheng / Cao, Huiluo / Zhang, Lian-Hui / Xu, Zeling

    Frontiers in microbiology

    2021  Volume 12, Page(s) 716064

    Abstract: The emergence of antimicrobial-resistant (AMR) bacteria has become one of the most serious threats to global health, necessitating the development of novel antimicrobial strategies. CRISPR (clustered regularly interspaced short palindromic repeats)-Cas ( ... ...

    Abstract The emergence of antimicrobial-resistant (AMR) bacteria has become one of the most serious threats to global health, necessitating the development of novel antimicrobial strategies. CRISPR (clustered regularly interspaced short palindromic repeats)-Cas (CRISPR-associated) system, known as a bacterial adaptive immune system, can be repurposed to selectively target and destruct bacterial genomes other than invasive genetic elements. Thus, the CRISPR-Cas system offers an attractive option for the development of the next-generation antimicrobials to combat infectious diseases especially those caused by AMR pathogens. However, the application of CRISPR-Cas antimicrobials remains at a very preliminary stage and numerous obstacles await to be solved. In this mini-review, we summarize the development of using type I, type II, and type VI CRISPR-Cas antimicrobials to eradicate AMR pathogens and plasmids in the past a few years. We also discuss the most common challenges in applying CRISPR-Cas antimicrobials and potential solutions to overcome them.
    Language English
    Publishing date 2021-08-20
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2587354-4
    ISSN 1664-302X
    ISSN 1664-302X
    DOI 10.3389/fmicb.2021.716064
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article: Genomic Investigation of

    Li, Xin / Cao, Huiluo / Chen, Jonathan Hon-Kwan / Ng, Yuey-Zhun / Fung, Ka-Kin / Cheng, Vincent Chi-Chung / Ho, Pak-Leung

    Microorganisms

    2023  Volume 11, Issue 3

    Abstract: Typhoid fever is a notable disease in Hong Kong. We noticed two local cases of typhoid fever caused ... ...

    Abstract Typhoid fever is a notable disease in Hong Kong. We noticed two local cases of typhoid fever caused by
    Language English
    Publishing date 2023-03-06
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2720891-6
    ISSN 2076-2607
    ISSN 2076-2607
    DOI 10.3390/microorganisms11030667
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article: Evaluation of a Lateral Flow Immunoassay for Rapid Detection of CTX-M Producers from Blood Cultures.

    Fang, Hanshu / Lee, Chung-Ho / Cao, Huiluo / Jiang, Shuo / So, Simon Yung-Chun / Tse, Cindy Wing-Sze / Cheng, Vincent Chi-Chung / Ho, Pak-Leung

    Microorganisms

    2023  Volume 11, Issue 1

    Abstract: Bacteremia caused by extended-spectrum β-lactamases- ... ...

    Abstract Bacteremia caused by extended-spectrum β-lactamases-producing
    Language English
    Publishing date 2023-01-04
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2720891-6
    ISSN 2076-2607
    ISSN 2076-2607
    DOI 10.3390/microorganisms11010128
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Prevalence and molecular characteristics of polymyxin-resistant

    Xiao, Chenlu / Li, Xuming / Huang, Lianjiang / Cao, Huiluo / Han, Lizhong / Ni, Yuxing / Xia, Han / Yang, Zhitao

    Frontiers in cellular and infection microbiology

    2023  Volume 13, Page(s) 1118122

    Abstract: Introduction: Polymyxin-resistant : Methods: Polymyxin-resistant : Results: Of the 1,216 isolates collected, 32 (2.6%) across 12 wards were polymyxin-resistant (minimum inhibitory concentration (MIC) range, PMB 4-256 mg/ml, and colistin 4 ≥ 16 mg/ ...

    Abstract Introduction: Polymyxin-resistant
    Methods: Polymyxin-resistant
    Results: Of the 1,216 isolates collected, 32 (2.6%) across 12 wards were polymyxin-resistant (minimum inhibitory concentration (MIC) range, PMB 4-256 mg/ml, and colistin 4 ≥ 16 mg/ ml). A total of 28 (87.5%) of the polymyxin-resistant isolates had reduced susceptibility to imipenem and meropenem (MIC ≥ 16 mg/ml). Of the 32 patients, 15 patients received PMB treatment and 20 survived before discharge. The phylogenetic tree of these isolates showed they belonged to different clones and had multiple origins. The polymyxin-resistant
    Discussion: In our study, a low prevalence of polymyxin-resistant
    MeSH term(s) Humans ; Polymyxins/pharmacology ; Anti-Bacterial Agents/pharmacology ; Multilocus Sequence Typing ; Prevalence ; Phylogeny ; East Asian People ; Drug Resistance, Bacterial/genetics ; Escherichia coli/genetics ; Hospitals, Teaching ; Klebsiella pneumoniae ; Microbial Sensitivity Tests ; Escherichia coli Proteins/genetics
    Chemical Substances Polymyxins ; Anti-Bacterial Agents ; MCR-1 protein, E coli ; Escherichia coli Proteins
    Language English
    Publishing date 2023-04-18
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2619676-1
    ISSN 2235-2988 ; 2235-2988
    ISSN (online) 2235-2988
    ISSN 2235-2988
    DOI 10.3389/fcimb.2023.1118122
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Genomic investigation of

    Chan, You-Xiang / Cao, Huiluo / Jiang, Shuo / Li, Xin / Fung, Ka-Kin / Lee, Chung-Ho / Sridhar, Siddharth / Chen, Jonathan Hon-Kwan / Ho, Pak-Leung

    Microbiology spectrum

    2024  , Page(s) e0054124

    Abstract: Lactococcus garvieae: Importance: Lactococcus ... ...

    Abstract Lactococcus garvieae
    Importance: Lactococcus formosensis
    Language English
    Publishing date 2024-04-30
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2807133-5
    ISSN 2165-0497 ; 2165-0497
    ISSN (online) 2165-0497
    ISSN 2165-0497
    DOI 10.1128/spectrum.00541-24
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article: Sharing of Antimicrobial Resistance Genes between Humans and Food Animals.

    Cao, Huiluo / Bougouffa, Salim / Park, Tae-Jin / Lau, Andes / Tong, Man-Ki / Chow, Kin-Hung / Ho, Pak-Leung

    mSystems

    2022  , Page(s) e0077522

    Abstract: The prevalence and propagation of antimicrobial resistance (AMR) are serious global public health concerns. The large and the ever-increasing use of antibiotics in livestock is also considered a great concern. The extent of the similarity of acquired ... ...

    Abstract The prevalence and propagation of antimicrobial resistance (AMR) are serious global public health concerns. The large and the ever-increasing use of antibiotics in livestock is also considered a great concern. The extent of the similarity of acquired antibiotic resistance genes (ARGs) between humans and food animals and the driving factors underlying AMR transfer between them are not clear, although a link between ARGs in both hosts was proposed. To address this question, with swine and chicken as examples of food animals, we analyzed over 1,000 gut metagenomes of humans and food animals from over the world. A relatively high abundance and diversity of ARGs were observed in swine compared with those in humans as a whole. Commensal bacteria, particularly species from
    Language English
    Publishing date 2022-10-11
    Publishing country United States
    Document type Journal Article
    ISSN 2379-5077
    ISSN 2379-5077
    DOI 10.1128/msystems.00775-22
    Database MEDical Literature Analysis and Retrieval System OnLINE

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