Revealing Causes for False-Positive and False-Negative Calling of Gene Essentiality in Escherichia coli Using Transposon Insertion Sequencing-Reference-Cited by-同舟云学术

Revealing Causes for False-Positive and False-Negative Calling of Gene Essentiality in Escherichia coli Using Transposon Insertion Sequencing

Published:2023-02-23 Issue:1 Volume:8 Page:
ISSN:2379-5077
Container-title:mSystems
language:en
Short-container-title:mSystems

Author:

Choe Donghui¹,Kim Uigi²,Hwang Soonkyu²,Seo Sang Woo³,Kim Donghyuk⁴,Cho Suhyung²,Palsson Bernhard¹⁵^ORCID,Cho Byung-Kwan²^ORCID

Affiliation:

1. Department of Bioengineering, University of California San Diego, La Jolla, California, USA

2. Department of Biological Sciences and KI for the BioCentury, Korea Advanced Institute of Science and Technology, Daejeon, Republic of Korea

3. School of Chemical and Biological Engineering, Seoul National University, Seoul, Republic of Korea

4. School of Energy and Chemical Engineering, Ulsan National Institute of Science and Technology, Ulsan, Republic of Korea

5. Department of Pediatrics, University of California San Diego, La Jolla, California, USA

Abstract

Transposon mutagenesis is an efficient way to explore gene essentiality of a bacterial genome. However, there was a discrepancy between the essential gene set determined by transposon mutagenesis and that determined using single-gene knockout strains.

Funder

Novo Nordisk Foundation Center for Biosustainability

National Research Foundation of Korea

Publisher

American Society for Microbiology

Subject

Computer Science Applications,Genetics,Molecular Biology,Modeling and Simulation,Ecology, Evolution, Behavior and Systematics,Biochemistry,Physiology,Microbiology

Link

https://journals.asm.org/doi/pdf/10.1128/msystems.00896-22

Reference24 articles.

1. Probing the basis for genotype-phenotype relationships

2. Design and synthesis of a minimal bacterial genome

3. Global Transposon Mutagenesis and a Minimal Mycoplasma Genome

4. Construction of Escherichia coli K‐12 in‐frame, single‐gene knockout mutants: the Keio collection

5. Experimental and Computational Assessment of Conditionally Essential Genes in Escherichia coli

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