Prediction and Verification of sRNA SdsR Target Genes in <i>Salmonella typhimurium</i>

ZHANG Jiali; LINGHU Yuanfeng; DUAN Shiyu; PAN Yong; YANG Qi

doi:10.19303/j.issn.1008-0384.2022.004.003

Volume 37 Issue 4

Apr. 2022

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Article Navigation > Fujian Journal of Agricultural Sciences > 2022 > 37(4): 439-444

ZHANG J L, LINGHU Y F, DUAN S Y, et al. Prediction and Verification of sRNA SdsR Target Genes in Salmonella typhimurium [J]. Fujian Journal of Agricultural Sciences，2022，37（4）：439−444 doi: 10.19303/j.issn.1008-0384.2022.004.003

Citation:

ZHANG J L, LINGHU Y F, DUAN S Y, et al. Prediction and Verification of sRNA SdsR Target Genes in Salmonella typhimurium [J]. Fujian Journal of Agricultural Sciences，2022，37（4）：439−444 doi: 10.19303/j.issn.1008-0384.2022.004.003

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Prediction and Verification of sRNA SdsR Target Genes in Salmonella typhimurium

doi: 10.19303/j.issn.1008-0384.2022.004.003

ZHANG Jiali^{1, 2
,},
LINGHU Yuanfeng^{1, 2},
DUAN Shiyu^{1, 2},
PAN Yong³,
YANG Qi^{1, 2, 4
,
,}

1.
College of Animal Science, Guizhou University, Guiyang, Guizhou　550025, China
2.
Institute of Animal Diseases, Guizhou University, Guiyang, Guizhou 550025, China
3.
Institute of Animal Husbandry and Veterinary Medicine, Guizhou Academy of Agricultural Science, Guiyang, Guizhou 550025, China
4.
Guizhou Animal Disease Laboratory， Guiyang, Guizhou　550025, China

Received Date: 2021-12-02
Rev Recd Date: 2022-03-09

Available Online: 2022-06-19

Publish Date: 2022-04-28

Abstract

Abstract

Objective Target genes of Salmonella Typhimurium sRNA SdsR were investigated to further understand the interactions between the sRNA and the target genes as well as the pathogenic mechanism of S. typhimurium. Method The TargetRNA2 software was used to predict the target of sRNA SdsR in the pathogen. According to the results obtained in a previous sRNA SdsR knock-out transcriptome sequencing study, the predicted genes were annotated into GO, KEGG, and eggNOG databases for analysis. Those with high hybridization energy were further verified by RT-qPCR. Result There were 29 targets predicted by TargetRNA2. Among them, hemA, STM0951, mreC, STM1252, and dcoC showed high hybridization energy with a possibility of having a continuous base to match the sRNA SdsR. They might be associated with the heme synthesis, redox process, oxaloacetate decarboxylase synthesis, and membrane components and cytoplasmic protein synthesis in S. typhimurium. The RT-qPCR showed, after sRNA SdsR knockout, hemA to be downregulated by 0.70 times and mreC 0.39 times, while STM0951, STM1252, and dcoC upregulated by 0.51, 0.35 and 1.86 times, respectively, over the wild strain 3409. Conclusion It appeared that the genes identified in this study, including hemA, STM0951, mreC, STM1252 and dcoC, could directly be regulated by the sRNA SdsR and might affect the expressions of some target genes.
- Salmonella Typhimurium,
- sRNA SdsR,
- TargetRNA2,
- target gene,
- transcriptome sequencing

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References(21)

References

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