Reversal of carbapenem-resistance in Shewanella algae by CRISPR/Cas9 genome editing

Wu, Zong-Yen; Huang, Yao-Ting; Chao, Wen-Cheng; Ho, Shu-Peng; Cheng, Jan-Fang; Liu, Po-Yu

doi:10.1016/j.jare.2019.01.011

Title: Reversal of carbapenem-resistance in Shewanella algae by CRISPR/Cas9 genome editing

Abstract

Antibiotic resistance in pathogens is a growing threat to human health. Of particular concern is resistance to carbapenem, which is an antimicrobial agent listed as critically important by the World Health Organization. With the global spread of carbapenem-resistant organisms, there is an urgent need for new treatment options. Shewanella algae is an emerging pathogen found in marine environments throughout the world that has increasing resistance to carbapenem. The organism is also a possible antibiotic resistance reservoir in humans and in its natural habitat. The development of CRISPR/Cas9-based methods has enabled precise genetic manipulation. A number of attempts have been made to knock out resistance genes in various organisms. The study used a single plasmid containing CRISPR/Cas9 and recE/recT recombinase to reverse an antibiotic-resistant phenotype in S. algae and showed bla _OXA-55-like gene is essential for the carbapenem resistance. This result demonstrates a potential validation strategy for functional genome annotation in S. algae.

Authors:

Wu, Zong-Yen ^[1]; Huang, Yao-Ting ^[2]; Chao, Wen-Cheng ^[3]; Ho, Shu-Peng ^[4]; Cheng, Jan-Fang ^[5];

^[6]

USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); National Chung Hsing Univ., Taichung (Taiwan)
National Chung Cheng Univ., Chia-Yi (Taiwan)
Taichung Veterans General Hospital, Taichung (Taiwan)
National Chung Hsing Univ., Taichung (Taiwan)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
Taichung Veterans General Hospital, Taichung (Taiwan); National Chung Hsing Univ., Taichung (Taiwan); Shu-Zen Junior College of Medicine and Management, Kaohsiung City (Taiwan); National Chung Hsing Univ., Taichung (Taiwan)

Publication Date:: Thu Jan 31 00:00:00 EST 2019

Research Org.:: Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

Sponsoring Org.:: USDOE Office of Science (SC)

OSTI Identifier:: 1560601

Grant/Contract Number:: AC02-05CH11231

Resource Type:: Accepted Manuscript

Journal Name:: Journal of Advanced Research

Additional Journal Information:: Journal Volume: 18; Journal Issue: C; Journal ID: ISSN 2090-1232

Publisher:: Elsevier

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES

Citation Formats


                    Wu, Zong-Yen, Huang, Yao-Ting, Chao, Wen-Cheng, Ho, Shu-Peng, Cheng, Jan-Fang, and Liu, Po-Yu. Reversal of carbapenem-resistance in Shewanella algae by CRISPR/Cas9 genome editing.  United States: N. p., 2019. 
Web.  doi:10.1016/j.jare.2019.01.011.

Copy to clipboard


                    Wu, Zong-Yen, Huang, Yao-Ting, Chao, Wen-Cheng, Ho, Shu-Peng, Cheng, Jan-Fang, & Liu, Po-Yu. Reversal of carbapenem-resistance in Shewanella algae by CRISPR/Cas9 genome editing.  United States.  https://doi.org/10.1016/j.jare.2019.01.011

Copy to clipboard


                    Wu, Zong-Yen, Huang, Yao-Ting, Chao, Wen-Cheng, Ho, Shu-Peng, Cheng, Jan-Fang, and Liu, Po-Yu. Thu .  
"Reversal of carbapenem-resistance in Shewanella algae by CRISPR/Cas9 genome editing".  United States.  https://doi.org/10.1016/j.jare.2019.01.011.  https://www.osti.gov/servlets/purl/1560601.

Copy to clipboard


                    
@article{osti_1560601,

  title        = {Reversal of carbapenem-resistance in Shewanella algae by CRISPR/Cas9 genome editing},

  author       = {Wu, Zong-Yen and Huang, Yao-Ting and Chao, Wen-Cheng and Ho, Shu-Peng and Cheng, Jan-Fang and Liu, Po-Yu},

  abstractNote = {Antibiotic resistance in pathogens is a growing threat to human health. Of particular concern is resistance to carbapenem, which is an antimicrobial agent listed as critically important by the World Health Organization. With the global spread of carbapenem-resistant organisms, there is an urgent need for new treatment options. Shewanella algae is an emerging pathogen found in marine environments throughout the world that has increasing resistance to carbapenem. The organism is also a possible antibiotic resistance reservoir in humans and in its natural habitat. The development of CRISPR/Cas9-based methods has enabled precise genetic manipulation. A number of attempts have been made to knock out resistance genes in various organisms. The study used a single plasmid containing CRISPR/Cas9 and recE/recT recombinase to reverse an antibiotic-resistant phenotype in S. algae and showed bla OXA-55-like gene is essential for the carbapenem resistance. This result demonstrates a potential validation strategy for functional genome annotation in S. algae.},

  doi          = {10.1016/j.jare.2019.01.011},

  journal      = {Journal of Advanced Research},

  number       = C,

  volume       = 18,

  place        = {United States},

  year         = {Thu Jan 31 00:00:00 EST 2019},

  month        = {Thu Jan 31 00:00:00 EST 2019}

}

Copy to clipboard

Journal Article:

Free Publicly Available Full Text

Accepted Manuscript (DOE)

Publisher's Version of Record

https://doi.org/10.1016/j.jare.2019.01.011

Other availability

Search WorldCat to find libraries that may hold this journal

Citation Metrics:

Cited by: 11 works

Citation information provided by
Web of Science

Figures / Tables:

Table 1: Sequencing statistic of VGH117 using three SMRT cells.

All figures and tables (12 total)

Save / Share:

Export Metadata

Save to My Library

Figures / Tables found in this record:

Figures/Tables have been extracted from DOE-funded journal article accepted manuscripts.

Similar Records in DOE PAGES and OSTI.GOV collections:

Dissemination of blaNDM-5 and mcr-8.1 in carbapenem-resistant Klebsiella pneumoniae and Klebsiella quasipneumoniae in an animal breeding area in Eastern China

Journal Article Yang, Chengxia ; Han, Jingyi ; Berglund, Björn ; ... - Frontiers in Microbiology

Animal farms have become one of the most important reservoirs of carbapenem-resistant Klebsiella spp. (CRK) owing to the wide usage of veterinary antibiotics. “One Health”-studies observing animals, the environment, and humans are necessary to understand the dissemination of CRK in animal breeding areas. Based on the concept of “One-Health,” 263 samples of animal feces, wastewater, well water, and human feces from 60 livestock and poultry farms in Shandong province, China were screened for CRK. Five carbapenem-resistant Klebsiella pneumoniae (CRKP) and three carbapenem-resistant Klebsiella quasipneumoniae (CRKQ) strains were isolated from animal feces, human feces, and well water. The eight strains weremore »« less
https://doi.org/10.3389/fmicb.2022.1030490
C6 Hydroxymethyl-Substituted Carbapenem MA-1-206 Inhibits the Major Acinetobacter baumannii Carbapenemase OXA-23 by Impeding Deacylation

Journal Article Stewart, Nichole K. ; Toth, Marta ; Alqurafi, Maha A. ; ... - mBio (Online)

Acinetobacter baumannii has become a major nosocomial pathogen, as it is often multidrug-resistant, which results in infections characterized by high mortality rates. The bacterium achieves high levels of resistance to β-lactam antibiotics by producing β-lactamases, enzymes which destroy these valuable agents. Historically, the carbapenem family of b-lactam antibiotics have been the drugs of choice for treating A. baumannii infections. However, their effectiveness has been significantly diminished due to the pathogen’s production of carbapenem-hydrolyzing class D β-lactamases (CHDLs); thus, new antibiotics and inhibitors of these enzymes are urgently needed. Here, we describe a new carbapenem antibiotic, MA-1-206, in which the canonicalmore »« less
https://doi.org/10.1128/mbio.00367-22

Full Text Available
Antibody-Mediated Killing of Carbapenem-Resistant ST258 Klebsiella pneumoniae by Human Neutrophils

Journal Article Kobayashi, Scott D. ; Porter, Adeline R. ; Freedman, Brett ; ... - mBio (Online)

ABSTRACT Carbapenem-resistant Klebsiella pneumoniae is a problem worldwide. A carbapenem-resistant K. pneumoniae lineage classified as multilocus sequence type 258 (ST258) is prominent in the health care setting in many regions of the world, including the United States. ST258 strains can be resistant to virtually all clinically useful antibiotics; treatment of infections caused by these organisms is difficult, and mortality is high. As a step toward promoting development of new therapeutics for ST258 infections, we tested the ability of rabbit antibodies specific for ST258 capsule polysaccharide to enhance human serum bactericidal activity and promote phagocytosis and killing of these bacteria bymore »« less
Cited by 36
https://doi.org/10.1128/mbio.00297-18

Full Text Available
Multiplexed CRISPR-Cas9-Based Genome Editing of Rhodosporidium toruloides

Journal Article Otoupal, Peter B. ; Ito, Masakazu ; Arkin, Adam P. ; ... - mSphere

Microbial production of biofuels and bioproducts offers a sustainable and economic alternative to petroleum-based fuels and chemicals. The basidiomycete yeast Rhodosporidium toruloides is a promising platform organism for generating bioproducts due to its ability to consume a broad spectrum of carbon sources (including those derived from lignocellulosic biomass) and to naturally accumulate high levels of lipids and carotenoids, two biosynthetic pathways that can be leveraged to produce a wide range of bioproducts. While R. toruloides has great potential, it has a more limited set of tools for genetic engineering relative to more advanced yeast platform organisms such as Yarrowia lipolyticamore »« less
Cited by 29
https://doi.org/10.1128/mSphere.00099-19

Full Text Available
Bacterial genome editing by coupling Cre-lox and CRISPR-Cas9 systems

Journal Article Liu, Hualan ; Robinson, David S. ; Wu, Zong-Yen ; ... - PLoS ONE

The past decade has been a golden age for microbiology, marked by the discovery of an unprecedented increase in the number of novel bacterial species. Yet gaining biological knowledge of those organisms has not kept pace with sequencing efforts. To unlock this genetic potential there is an urgent need for generic (i.e. non-species specific) genetic toolboxes. Recently, we developed a method, termed chassis-independent recombinase-assisted genome engineering (CRAGE), enabling the integration and expression of large complex gene clusters directly into the chromosomes of diverse bacteria. Here we expand upon this technology by incorporating CRISPR-Cas9 allowing precise genome editing across multiple bacterialmore »« less
https://doi.org/10.1371/journal.pone.0241867

Full Text Available

Similar Records