Hippocampus-specific regulation of long non-coding RNA and mRNA expression in germ-free mice
Abstract
Gut microbiota can affect multiple brain functions and cause behavioral alterations through the microbiota-gut-brain axis. In our previous study, we found that the absence of gut microbiota can influence the expression of microRNAs and mRNAs in the hippocampal region of the germ-free (GF) mice. Long non-coding RNAs (lncRNAs) are increasingly being recognized as an important functional transcriptional regulator in the brain. In the present study, we aim to identify possible biological pathways and functional networks for lncRNA-associated transcript of the gut microbiota in relation to the brain function. The profiles of lncRNA and mRNA from specific pathogen-free (SPF), colonized GF (CGF), and GF mice were generated using the Agilent Mouse LncRNA Array v2.0. Differentially expressed (DE) lncRNAs and mRNAs were identified, and lncRNA target genes were also predicted. Ingenuity pathway analysis (IPA) was performed to analyze related signaling pathways and biological functions associated with these dysregulated mRNAs and target genes. Validation with quantitative real-time PCR was performed on several key genes. Compared with SPF mice a total of 2230 DE lncRNAs were found in GF mice. Among these, 1355 were upregulated and 875 were downregulated. After comparing the target genes of DE lncRNAs with mRNA datasets, 669 overlapping genes were identified. IPA core analyses revealed that most of these genes were highly associated with cardiac hypertrophy, nuclear factors of activated T…
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Several studies have established an association between the gut microbiome, the metabolites of the gut flora and epigenetics, revealing the impact of the gut microbiota on ncRNA production.
“In addition, several studies have established an association between the gut microbiome, the metabolites of the gut flora and epigenetics, revealing the impact of the gut microbiota on ncRNA production.421,422”
From Epigenetic regulation in major depression and other stress-related disorders: molecular mechanisms, clinical relevance and therapeutic potential (2023) · cites this paper as [421]
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Yuan, M., Yang, B., Rothschild, G., Mann, J. J., Sanford, L. D., Tang, X., Huang, C., Wang, C., & Zhang, W. (2023) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-023-01519-z · Cited by 246 · see citing works
- Authors
- Zhou, C., Rao, X., Wang, H., Zeng, B., Yu, Y., Chen, J., Zhong, J., Qi, X., Zeng, L., Zheng, P., Hong, W., & Xie, P.
- Affiliations
- The Affiliated Yongchuan Hospital of Chongqing Medical University (CN)
- Chongqing Medical University (CN)
- Army Medical University (CN)
- Mayo Clinic (US)
- Corresponding author
- Xie, Peng
- ORCID
- Venue
- Functional & Integrative Genomics
- Published
- 2019-11-01
- Volume
- 20
- Issue
- 3
- Pages
- 355-365
- ISSN
- 1438-793X (ISSN-L)
- 1438-7948
- OpenAlex
- W2985740428
- Cited by
- 25
- References
- 5
- Citations by year
- 2025: 4 · 2024: 6 · 2023: 5 · 2022: 3 · 2021: 6 · 2020: 1
- FWCI
- 0.83
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Functional & Integrative Genomics (publishedVersion)
- PubMed (publishedVersion)
- Funders
- Natural Science Foundation Project of China (81701361)
- China Postdoctoral Science Foundation funded project (2018T110950, 2017M612924)
- National Key Research and Development Program of China (2017YFA0505700)
- Chongqing Post-doctoral Science Foundation Project (Xm2017026)
- Science and Technology Commission of Yongchuan (Ycstc, 2016nc5015)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer-related molecular mechanisms research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › MicroRNA in disease regulation
- Keywords
- long non-coding RNA, hippocampus, germ-free mice, gut microbiota, microbiota-gut-brain axis, mRNA expression, lncRNA target genes, NFAT signaling, GnRH signaling, CREB signaling, APP, caspase-9, IGFBP-2, prostaglandin D synthase, TGFBR2, gene expression profiling
- MeSH terms
- Gastrointestinal Microbiome, Animals, Hippocampus, Male, Mice, Inbred BALB C, RNA, Messenger, Specific Pathogen-Free Organisms, Mice, Gene Regulatory Networks, Transcriptome, RNA, Long Noncoding
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