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Host transcriptome and microbiome interactions in Holstein cattle under heat stress condition

Climate change affects animal physiology. In particular, rising ambient temperatures reduce animal vitality due to heat stress and this can be observed at various levels which included genome, transcriptome, and microbiome. In a previous study, microbiota highly associated with changes in cattle phy...

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Autores principales: Czech, Bartosz, Wang, Yachun, Wang, Kai, Luo, Hanpeng, Hu, Lirong, Szyda, Joanna
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9726897/
https://www.ncbi.nlm.nih.gov/pubmed/36504790
http://dx.doi.org/10.3389/fmicb.2022.998093
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author Czech, Bartosz
Wang, Yachun
Wang, Kai
Luo, Hanpeng
Hu, Lirong
Szyda, Joanna
author_facet Czech, Bartosz
Wang, Yachun
Wang, Kai
Luo, Hanpeng
Hu, Lirong
Szyda, Joanna
author_sort Czech, Bartosz
collection PubMed
description Climate change affects animal physiology. In particular, rising ambient temperatures reduce animal vitality due to heat stress and this can be observed at various levels which included genome, transcriptome, and microbiome. In a previous study, microbiota highly associated with changes in cattle physiology, which included rectal temperature, drooling score and respiratory score, were identified under heat stress conditions. In the present study, genes differentially expressed between individuals were selected representing different additive genetic effects toward the heat stress response in cattle in their production condition. Moreover, a correlation network analysis was performed to identify interactions between the transcriptome and microbiome for 71 Chinese Holstein cows sequenced for mRNA from blood samples and for 16S rRNA genes from fecal samples. Bioinformatics analysis was performed comprising: i) clustering and classification of 16S rRNA sequence reads, ii) mapping cows' transcripts to the reference genome and their expression quantification, and iii) statistical analysis of both data types—including differential gene expression analysis and gene set enrichment analysis. A weighted co-expression network analysis was carried out to assess changes in the association between gene expression and microbiota abundance as well as to find hub genes/microbiota responsible for the regulation of gene expression under heat stress. Results showed 1,851 differentially expressed genes were found that were shared by three heat stress phenotypes. These genes were predominantly associated with the cytokine-cytokine receptor interaction pathway. The interaction analysis revealed three modules of genes and microbiota associated with rectal temperature with which two hubs of those modules were bacterial species, demonstrating the importance of the microbiome in the regulation of gene expression during heat stress. Genes and microbiota from the significant modules can be used as biomarkers of heat stress in cattle.
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spelling pubmed-97268972022-12-08 Host transcriptome and microbiome interactions in Holstein cattle under heat stress condition Czech, Bartosz Wang, Yachun Wang, Kai Luo, Hanpeng Hu, Lirong Szyda, Joanna Front Microbiol Microbiology Climate change affects animal physiology. In particular, rising ambient temperatures reduce animal vitality due to heat stress and this can be observed at various levels which included genome, transcriptome, and microbiome. In a previous study, microbiota highly associated with changes in cattle physiology, which included rectal temperature, drooling score and respiratory score, were identified under heat stress conditions. In the present study, genes differentially expressed between individuals were selected representing different additive genetic effects toward the heat stress response in cattle in their production condition. Moreover, a correlation network analysis was performed to identify interactions between the transcriptome and microbiome for 71 Chinese Holstein cows sequenced for mRNA from blood samples and for 16S rRNA genes from fecal samples. Bioinformatics analysis was performed comprising: i) clustering and classification of 16S rRNA sequence reads, ii) mapping cows' transcripts to the reference genome and their expression quantification, and iii) statistical analysis of both data types—including differential gene expression analysis and gene set enrichment analysis. A weighted co-expression network analysis was carried out to assess changes in the association between gene expression and microbiota abundance as well as to find hub genes/microbiota responsible for the regulation of gene expression under heat stress. Results showed 1,851 differentially expressed genes were found that were shared by three heat stress phenotypes. These genes were predominantly associated with the cytokine-cytokine receptor interaction pathway. The interaction analysis revealed three modules of genes and microbiota associated with rectal temperature with which two hubs of those modules were bacterial species, demonstrating the importance of the microbiome in the regulation of gene expression during heat stress. Genes and microbiota from the significant modules can be used as biomarkers of heat stress in cattle. Frontiers Media S.A. 2022-11-23 /pmc/articles/PMC9726897/ /pubmed/36504790 http://dx.doi.org/10.3389/fmicb.2022.998093 Text en Copyright © 2022 Czech, Wang, Wang, Luo, Hu and Szyda. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Czech, Bartosz
Wang, Yachun
Wang, Kai
Luo, Hanpeng
Hu, Lirong
Szyda, Joanna
Host transcriptome and microbiome interactions in Holstein cattle under heat stress condition
title Host transcriptome and microbiome interactions in Holstein cattle under heat stress condition
title_full Host transcriptome and microbiome interactions in Holstein cattle under heat stress condition
title_fullStr Host transcriptome and microbiome interactions in Holstein cattle under heat stress condition
title_full_unstemmed Host transcriptome and microbiome interactions in Holstein cattle under heat stress condition
title_short Host transcriptome and microbiome interactions in Holstein cattle under heat stress condition
title_sort host transcriptome and microbiome interactions in holstein cattle under heat stress condition
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9726897/
https://www.ncbi.nlm.nih.gov/pubmed/36504790
http://dx.doi.org/10.3389/fmicb.2022.998093
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