New Insights into the Lactic Acid Resistance Determinants of Listeria monocytogenes Based on Transposon Sequencing and Transcriptome Sequencing Analyses

Liu, Xiayu; Pang, Xinxin; Wu, Yansha; Xu, Liang; Chen, Qihe; Niu, Jianrui; Zhang, Xinglin

doi:10.1128/spectrum.02750-22

Cited by 3 publications

(2 citation statements)

References 41 publications

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“…RNA extraction and quantification were performed as described in previous studies. 53 Then, amplified and purified RNA-Seq libraries were sequenced on the NovaSeq 6000 platform (Illumina, San Diego, CA, USA), and 150-bp paired-end reads were generated. Differentially expressed gene (DEG) analysis and enrichment analysis (Gene Ontology [GO] analysis) were performed according to previous methods.…”

Section: Methodsmentioning

confidence: 99%

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The Fe-S cluster biosynthesis in Enterococcus faecium is essential for anaerobic growth and gastrointestinal colonization

Xu,

Wu,

Yang

et al. 2024

Gut Microbes

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Section: Methodsmentioning

confidence: 99%

“…Differentially expressed gene (DEG) analysis and enrichment analysis (Gene Ontology [GO] analysis) were performed according to previous methods. 53 …”

Section: Methodsmentioning

confidence: 99%

The Fe-S cluster biosynthesis in Enterococcus faecium is essential for anaerobic growth and gastrointestinal colonization

Xu,

Wu,

Yang

et al. 2024

Gut Microbes

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Methods for studying microbial acid stress responses: from molecules to populations

Atasoy,

Bartkova,

Çetecioğlu-Gürol

et al. 2024

FEMS Microbiology Reviews

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The study of how micro-organisms detect and respond to different stresses has a long history of producing fundamental biological insights while being simultaneously of significance in many applied microbiological fields including infection, food and drink manufacture, and industrial and environmental biotechnology. This is well illustrated by the large body of work on acid stress. Numerous different methods have been used to understand the impacts of low pH on growth and survival of micro-organisms, ranging from studies of single cells to large and heterogeneous populations, from the molecular or biophysical to the computational, and from well-understood model organisms to poorly defined and complex microbial consortia. Much is to be gained from an increased general awareness of these methods, and so the present review looks at examples of the different methods that have been used to study acid resistance, acid tolerance, and acid stress responses, and the insights they can lead to, as well as some of the problems involved in using them. We hope this will be of interest both within and well beyond the acid stress research community.

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Characterization of Mild Acid Stress Response in an Engineered Acid-Tolerant Escherichia coli Strain

Qin,

Guo,

et al. 2024

Microorganisms

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Engineering acid-tolerant microbial strains is a cost-effective approach to overcoming acid stress during industrial fermentation. We previously constructed an acid-tolerant strain (Escherichia coli SC3124) with enhanced growth robustness and productivity under mildly acidic conditions by fine-tuning the expression of synthetic acid-tolerance module genes consisting of a proton-consuming acid resistance system (gadE), a periplasmic chaperone (hdeB), and ROS scavengers (sodB, katE). However, the precise acid-tolerance mechanism of E. coli SC3124 remained unclear. In this study, the growth of E. coli SC3124 under mild acid stress (pH 6.0) was determined. The final OD600 of E. coli SC3124 at pH 6.0 was 131% and 124% of that of the parent E. coli MG1655 at pH 6.8 and pH 6.0, respectively. Transcriptome analysis revealed the significant upregulation of the genes involved in oxidative phosphorylation, the tricarboxylic acid (TCA) cycle, and lysine-dependent acid-resistance system in E. coli SC3124 at pH 6.0. Subsequently, a weighted gene coexpression network analysis was performed to systematically determine the metabolic perturbations of E. coli SC3124 with mild acid treatment, and we extracted the gene modules highly associated with different acid traits. The results showed two biologically significant coexpression modules, and 263 hub genes were identified. Specifically, the genes involved in ATP-binding cassette (ABC) transporters, oxidative phosphorylation, the TCA cycle, amino acid metabolism, and purine metabolism were highly positively associated with mild acid stress responses. We propose that the overexpression of synthetic acid-tolerance genes leads to metabolic changes that confer mild acid stress resistance in E. coli. Integrated omics platforms provide valuable information for understanding the regulatory mechanisms of mild acid tolerance in E. coli and highlight the important roles of oxidative phosphorylation and ABC transporters in mild acid stress regulation. These findings offer novel insights to better the design of acid-tolerant chasses to synthesize value-added chemicals in a green and sustainable manner.

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New Insights into the Lactic Acid Resistance Determinants of Listeria monocytogenes Based on Transposon Sequencing and Transcriptome Sequencing Analyses

Cited by 3 publications

References 41 publications

The Fe-S cluster biosynthesis in Enterococcus faecium is essential for anaerobic growth and gastrointestinal colonization

The Fe-S cluster biosynthesis in Enterococcus faecium is essential for anaerobic growth and gastrointestinal colonization

Methods for studying microbial acid stress responses: from molecules to populations

Characterization of Mild Acid Stress Response in an Engineered Acid-Tolerant Escherichia coli Strain

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