Characterization of presence and activity of microRNAs in the rumen of cattle hints at possible host-microbiota cross-talk mechanism
Abstract MicroRNAs (miRNAs), as important post-transcriptional regulators, are ubiquitous in various tissues. The aim of this exploratory study was to determine the presence of miRNAs in rumen fluid, and to investigate the possibility of miRNA-mediated cross-talk within the ruminal ecosystem. Rumen...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2022-08-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-022-17445-z |
| _version_ | 1828150654144610304 |
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| author | Sara Ricci Renée M. Petri Cátia Pacífico Ezequias Castillo-Lopez Raul Rivera-Chacon Arife Sener-Aydemir Nicole Reisinger Qendrim Zebeli Susanne Kreuzer-Redmer |
| author_facet | Sara Ricci Renée M. Petri Cátia Pacífico Ezequias Castillo-Lopez Raul Rivera-Chacon Arife Sener-Aydemir Nicole Reisinger Qendrim Zebeli Susanne Kreuzer-Redmer |
| author_sort | Sara Ricci |
| collection | DOAJ |
| description | Abstract MicroRNAs (miRNAs), as important post-transcriptional regulators, are ubiquitous in various tissues. The aim of this exploratory study was to determine the presence of miRNAs in rumen fluid, and to investigate the possibility of miRNA-mediated cross-talk within the ruminal ecosystem. Rumen fluid samples from four cannulated Holstein cows were collected during two feeding regimes (forage and high-grain diet) and DNA and RNA were extracted for amplicon and small RNA sequencing. Epithelial biopsies were simultaneously collected to investigate the co-expression of miRNAs in papillae and rumen fluid. We identified 377 miRNAs in rumen fluid and 638 in rumen papillae, of which 373 were shared. Analysis of microbiota revealed 20 genera to be differentially abundant between the two feeding regimes, whereas no difference in miRNAs expression was detected. Correlations with at least one genus were found for 170 miRNAs, of which, 39 were highly significant (r > |0.7| and P < 0.01). Both hierarchical clustering of the correlation matrix and WGCNA analysis identified two main miRNA groups. Putative target and functional prediction analysis for the two groups revealed shared pathways with the predicted metabolic activities of the microbiota. Hence, our study supports the hypothesis of a cross-talk within the rumen at least partly mediated by miRNAs. |
| first_indexed | 2024-04-11T21:46:21Z |
| format | Article |
| id | doaj.art-f3d57ab0f4cb435b86c4853a1cba345c |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-04-11T21:46:21Z |
| publishDate | 2022-08-01 |
| publisher | Nature Portfolio |
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| series | Scientific Reports |
| spelling | doaj.art-f3d57ab0f4cb435b86c4853a1cba345c2022-12-22T04:01:24ZengNature PortfolioScientific Reports2045-23222022-08-0112111510.1038/s41598-022-17445-zCharacterization of presence and activity of microRNAs in the rumen of cattle hints at possible host-microbiota cross-talk mechanismSara Ricci0Renée M. Petri1Cátia Pacífico2Ezequias Castillo-Lopez3Raul Rivera-Chacon4Arife Sener-Aydemir5Nicole Reisinger6Qendrim Zebeli7Susanne Kreuzer-Redmer8Christian Doppler Laboratory for Innovative Gut Health Concepts of Livestock, Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary MedicineAgriculture and Agri-Food Canada, Sherbrooke Research and Development CentreChristian Doppler Laboratory for Innovative Gut Health Concepts of Livestock, Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary MedicineChristian Doppler Laboratory for Innovative Gut Health Concepts of Livestock, Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary MedicineChristian Doppler Laboratory for Innovative Gut Health Concepts of Livestock, Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary MedicineChristian Doppler Laboratory for Innovative Gut Health Concepts of Livestock, Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary MedicineDSM, BIOMIN Research CenterChristian Doppler Laboratory for Innovative Gut Health Concepts of Livestock, Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary MedicineChristian Doppler Laboratory for Innovative Gut Health Concepts of Livestock, Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary MedicineAbstract MicroRNAs (miRNAs), as important post-transcriptional regulators, are ubiquitous in various tissues. The aim of this exploratory study was to determine the presence of miRNAs in rumen fluid, and to investigate the possibility of miRNA-mediated cross-talk within the ruminal ecosystem. Rumen fluid samples from four cannulated Holstein cows were collected during two feeding regimes (forage and high-grain diet) and DNA and RNA were extracted for amplicon and small RNA sequencing. Epithelial biopsies were simultaneously collected to investigate the co-expression of miRNAs in papillae and rumen fluid. We identified 377 miRNAs in rumen fluid and 638 in rumen papillae, of which 373 were shared. Analysis of microbiota revealed 20 genera to be differentially abundant between the two feeding regimes, whereas no difference in miRNAs expression was detected. Correlations with at least one genus were found for 170 miRNAs, of which, 39 were highly significant (r > |0.7| and P < 0.01). Both hierarchical clustering of the correlation matrix and WGCNA analysis identified two main miRNA groups. Putative target and functional prediction analysis for the two groups revealed shared pathways with the predicted metabolic activities of the microbiota. Hence, our study supports the hypothesis of a cross-talk within the rumen at least partly mediated by miRNAs.https://doi.org/10.1038/s41598-022-17445-z |
| spellingShingle | Sara Ricci Renée M. Petri Cátia Pacífico Ezequias Castillo-Lopez Raul Rivera-Chacon Arife Sener-Aydemir Nicole Reisinger Qendrim Zebeli Susanne Kreuzer-Redmer Characterization of presence and activity of microRNAs in the rumen of cattle hints at possible host-microbiota cross-talk mechanism Scientific Reports |
| title | Characterization of presence and activity of microRNAs in the rumen of cattle hints at possible host-microbiota cross-talk mechanism |
| title_full | Characterization of presence and activity of microRNAs in the rumen of cattle hints at possible host-microbiota cross-talk mechanism |
| title_fullStr | Characterization of presence and activity of microRNAs in the rumen of cattle hints at possible host-microbiota cross-talk mechanism |
| title_full_unstemmed | Characterization of presence and activity of microRNAs in the rumen of cattle hints at possible host-microbiota cross-talk mechanism |
| title_short | Characterization of presence and activity of microRNAs in the rumen of cattle hints at possible host-microbiota cross-talk mechanism |
| title_sort | characterization of presence and activity of micrornas in the rumen of cattle hints at possible host microbiota cross talk mechanism |
| url | https://doi.org/10.1038/s41598-022-17445-z |
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