Transcriptional Profiling of the Probiotic Escherichia coli Nissle 1917 Strain under Simulated Microgravity
Abstract
:1. Introduction
2. Results and Discussion
2.1. Growth and Transcriptomic Profiling of EcN under Simulated MG and NG
2.2. Effect of MG on EcN Biofilm Formation
2.3. Effect of MG on EcN Stress Responses
2.4. Effect of MG on EcN Metal Ion Transport/Utilization
2.5. Effect of MG on EcN Carbon Metabolism
3. Conclusions
4. Materials and Methods
4.1. Overall Work Flow of This Study
4.2. Bacterial Strain and Growth Conditions
4.3. Growth of EcN in a Clinostat
4.4. RNA Extraction, cDNA Synthesis, and Sequencing
4.5. Read Processing, Alignment, and Quantification
4.6. Differential Expression and Functional Analyses
Supplementary Materials
Author Contributions
Funding
Conflicts of Interest
References
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Locus Tag | Fold Change (Exp) | Fold Change (Sta) | Gene Function | Gene | Function Category |
---|---|---|---|---|---|
ECOLIN_01835 | −3.51 | −2.48 | hypothetical protein | ecpC | Biofilm formation |
ECOLIN_01840 | −3.57 | −4.46 | hypothetical protein | ecpB | Biofilm formation |
ECOLIN_01845 | −3.56 | −7.36 | fimbrial protein | ecpA | Biofilm formation |
ECOLIN_01850 | −2.76 | −3.78 | LuxR family transcriptional regulator | ecpR | Biofilm formation |
ECOLIN_19660 | 2.38 | −2.24 | cold-shock protein | cspA | Stress resistance |
ECOLIN_19450 | −2.36 | −2.27 | glutamate decarboxylase | gadA | Stress resistance |
ECOLIN_09330 | 2.27 | −2.30 | L-cystine transporter tcyP | tcyP | Metal ion utilization |
ECOLIN_09975 | −2.82 | −5.68 | zinc ABC transporter substrate-binding protein | znuA | Metal ion utilization |
ECOLIN_10835 | −2.43 | −15.62 | zinc/cadmium-binding protein | zinT | Metal ion utilization |
ECOLIN_02515 | 2.50 | −2.17 | cytochrome o ubiquinol oxidase subunit II | cyoA | Uncategorized |
ECOLIN_01860 | −3.45 | −11.11 | 50 S ribosomal protein L31 type B | - | Uncategorized |
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Yim, J.; Cho, S.W.; Kim, B.; Park, S.; Han, Y.H.; Seo, S.W. Transcriptional Profiling of the Probiotic Escherichia coli Nissle 1917 Strain under Simulated Microgravity. Int. J. Mol. Sci. 2020, 21, 2666. https://doi.org/10.3390/ijms21082666
Yim J, Cho SW, Kim B, Park S, Han YH, Seo SW. Transcriptional Profiling of the Probiotic Escherichia coli Nissle 1917 Strain under Simulated Microgravity. International Journal of Molecular Sciences. 2020; 21(8):2666. https://doi.org/10.3390/ijms21082666
Chicago/Turabian StyleYim, Jaewoo, Sung Won Cho, Beomhee Kim, Sungwoo Park, Yong Hee Han, and Sang Woo Seo. 2020. "Transcriptional Profiling of the Probiotic Escherichia coli Nissle 1917 Strain under Simulated Microgravity" International Journal of Molecular Sciences 21, no. 8: 2666. https://doi.org/10.3390/ijms21082666