RNA-Seq Transcriptome Analysis of Peripheral Blood From Cattle Infected With Mycobacterium bovis Across an Experimental Time Course
Bovine tuberculosis, caused by infection with members of the Mycobacterium tuberculosis complex, particularly Mycobacterium bovis , is a major endemic disease affecting cattle populations worldwide, despite the implementation of stringent surveillance and control programs in many countries. The deve...
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| Published in: | Frontiers in veterinary science Vol. 8; p. 662002 |
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| Main Authors: | , , , , , , , , , , , |
| Format: | Journal Article |
| Language: | English |
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| ISSN: | 2297-1769, 2297-1769 |
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| Abstract | Bovine tuberculosis, caused by infection with members of the
Mycobacterium tuberculosis
complex, particularly
Mycobacterium bovis
, is a major endemic disease affecting cattle populations worldwide, despite the implementation of stringent surveillance and control programs in many countries. The development of high-throughput functional genomics technologies, including RNA sequencing, has enabled detailed analysis of the host transcriptome to
M. bovis
infection, particularly at the macrophage and peripheral blood level. In the present study, we have analysed the transcriptome of bovine whole peripheral blood samples collected at −1 week pre-infection and +1, +2, +6, +10, and +12 weeks post-infection time points. Differentially expressed genes were catalogued and evaluated at each post-infection time point relative to the −1 week pre-infection time point and used for the identification of putative candidate host transcriptional biomarkers for
M. bovis
infection. Differentially expressed gene sets were also used for examination of cellular pathways associated with the host response to
M. bovis
infection, construction of
de novo
gene interaction networks enriched for host differentially expressed genes, and time-series analyses to identify functionally important groups of genes displaying similar patterns of expression across the infection time course. A notable outcome of these analyses was identification of a 19-gene transcriptional biosignature of infection consisting of genes increased in expression across the time course from +1 week to +12 weeks post-infection. |
|---|---|
| AbstractList | Bovine tuberculosis, caused by infection with members of the
Mycobacterium tuberculosis
complex, particularly
Mycobacterium bovis
, is a major endemic disease affecting cattle populations worldwide, despite the implementation of stringent surveillance and control programs in many countries. The development of high-throughput functional genomics technologies, including RNA sequencing, has enabled detailed analysis of the host transcriptome to
M. bovis
infection, particularly at the macrophage and peripheral blood level. In the present study, we have analysed the transcriptome of bovine whole peripheral blood samples collected at −1 week pre-infection and +1, +2, +6, +10, and +12 weeks post-infection time points. Differentially expressed genes were catalogued and evaluated at each post-infection time point relative to the −1 week pre-infection time point and used for the identification of putative candidate host transcriptional biomarkers for
M. bovis
infection. Differentially expressed gene sets were also used for examination of cellular pathways associated with the host response to
M. bovis
infection, construction of
de novo
gene interaction networks enriched for host differentially expressed genes, and time-series analyses to identify functionally important groups of genes displaying similar patterns of expression across the infection time course. A notable outcome of these analyses was identification of a 19-gene transcriptional biosignature of infection consisting of genes increased in expression across the time course from +1 week to +12 weeks post-infection. Bovine tuberculosis, caused by infection with members of the Mycobacterium tuberculosis complex, particularly Mycobacterium bovis, is a major endemic disease affecting cattle populations worldwide, despite the implementation of stringent surveillance and control programs in many countries. The development of high-throughput functional genomics technologies, including RNA sequencing, has enabled detailed analysis of the host transcriptome to M. bovis infection, particularly at the macrophage and peripheral blood level. In the present study, we have analysed the transcriptome of bovine whole peripheral blood samples collected at −1 week pre-infection and +1, +2, +6, +10, and +12 weeks post-infection time points. Differentially expressed genes were catalogued and evaluated at each post-infection time point relative to the −1 week pre-infection time point and used for the identification of putative candidate host transcriptional biomarkers for M. bovis infection. Differentially expressed gene sets were also used for examination of cellular pathways associated with the host response to M. bovis infection, construction of de novo gene interaction networks enriched for host differentially expressed genes, and time-series analyses to identify functionally important groups of genes displaying similar patterns of expression across the infection time course. A notable outcome of these analyses was identification of a 19-gene transcriptional biosignature of infection consisting of genes increased in expression across the time course from +1 week to +12 weeks post-infection. Bovine tuberculosis, caused by infection with members of the Mycobacterium tuberculosis complex, particularly Mycobacterium bovis, is a major endemic disease affecting cattle populations worldwide, despite the implementation of stringent surveillance and control programs in many countries. The development of high-throughput functional genomics technologies, including RNA sequencing, has enabled detailed analysis of the host transcriptome to M. bovis infection, particularly at the macrophage and peripheral blood level. In the present study, we have analysed the transcriptome of bovine whole peripheral blood samples collected at -1 week pre-infection and +1, +2, +6, +10, and +12 weeks post-infection time points. Differentially expressed genes were catalogued and evaluated at each post-infection time point relative to the -1 week pre-infection time point and used for the identification of putative candidate host transcriptional biomarkers for M. bovis infection. Differentially expressed gene sets were also used for examination of cellular pathways associated with the host response to M. bovis infection, construction of de novo gene interaction networks enriched for host differentially expressed genes, and time-series analyses to identify functionally important groups of genes displaying similar patterns of expression across the infection time course. A notable outcome of these analyses was identification of a 19-gene transcriptional biosignature of infection consisting of genes increased in expression across the time course from +1 week to +12 weeks post-infection.Bovine tuberculosis, caused by infection with members of the Mycobacterium tuberculosis complex, particularly Mycobacterium bovis, is a major endemic disease affecting cattle populations worldwide, despite the implementation of stringent surveillance and control programs in many countries. The development of high-throughput functional genomics technologies, including RNA sequencing, has enabled detailed analysis of the host transcriptome to M. bovis infection, particularly at the macrophage and peripheral blood level. In the present study, we have analysed the transcriptome of bovine whole peripheral blood samples collected at -1 week pre-infection and +1, +2, +6, +10, and +12 weeks post-infection time points. Differentially expressed genes were catalogued and evaluated at each post-infection time point relative to the -1 week pre-infection time point and used for the identification of putative candidate host transcriptional biomarkers for M. bovis infection. Differentially expressed gene sets were also used for examination of cellular pathways associated with the host response to M. bovis infection, construction of de novo gene interaction networks enriched for host differentially expressed genes, and time-series analyses to identify functionally important groups of genes displaying similar patterns of expression across the infection time course. A notable outcome of these analyses was identification of a 19-gene transcriptional biosignature of infection consisting of genes increased in expression across the time course from +1 week to +12 weeks post-infection. |
| Author | McLoughlin, Kirsten E. MacHugh, David E. Vordermeier, H. Martin Villarreal-Ramos, Bernardo Correia, Carolina N. Whelan, Adam O. Gordon, Stephen V. Rue-Albrecht, Kevin Magee, David A. Browne, John A. Nalpas, Nicolas C. Gormley, Eamonn |
| AuthorAffiliation | 1 Animal Genomics Laboratory, UCD School of Agriculture and Food Science, UCD College of Health and Agricultural Sciences, University College Dublin , Dublin , Ireland 3 UCD School of Veterinary Medicine, UCD College of Health and Agricultural Sciences, University College Dublin , Dublin , Ireland 2 TB Immunology and Vaccinology Team, Department of Bacteriology, Animal and Plant Health Agency , Weybridge , United Kingdom 4 UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin , Dublin , Ireland |
| AuthorAffiliation_xml | – name: 4 UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin , Dublin , Ireland – name: 3 UCD School of Veterinary Medicine, UCD College of Health and Agricultural Sciences, University College Dublin , Dublin , Ireland – name: 2 TB Immunology and Vaccinology Team, Department of Bacteriology, Animal and Plant Health Agency , Weybridge , United Kingdom – name: 1 Animal Genomics Laboratory, UCD School of Agriculture and Food Science, UCD College of Health and Agricultural Sciences, University College Dublin , Dublin , Ireland |
| Author_xml | – sequence: 1 givenname: Kirsten E. surname: McLoughlin fullname: McLoughlin, Kirsten E. – sequence: 2 givenname: Carolina N. surname: Correia fullname: Correia, Carolina N. – sequence: 3 givenname: John A. surname: Browne fullname: Browne, John A. – sequence: 4 givenname: David A. surname: Magee fullname: Magee, David A. – sequence: 5 givenname: Nicolas C. surname: Nalpas fullname: Nalpas, Nicolas C. – sequence: 6 givenname: Kevin surname: Rue-Albrecht fullname: Rue-Albrecht, Kevin – sequence: 7 givenname: Adam O. surname: Whelan fullname: Whelan, Adam O. – sequence: 8 givenname: Bernardo surname: Villarreal-Ramos fullname: Villarreal-Ramos, Bernardo – sequence: 9 givenname: H. Martin surname: Vordermeier fullname: Vordermeier, H. Martin – sequence: 10 givenname: Eamonn surname: Gormley fullname: Gormley, Eamonn – sequence: 11 givenname: Stephen V. surname: Gordon fullname: Gordon, Stephen V. – sequence: 12 givenname: David E. surname: MacHugh fullname: MacHugh, David E. |
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| CitedBy_id | crossref_primary_10_3389_fmicb_2022_1041314 crossref_primary_10_33188_vetheder_1449573 crossref_primary_10_1016_j_anscip_2025_04_152 crossref_primary_10_1128_iai_00313_21 crossref_primary_10_3389_fvets_2025_1558799 crossref_primary_10_1186_s12864_024_10574_x crossref_primary_10_1007_s13721_025_00558_6 crossref_primary_10_1038_s42003_025_07846_x crossref_primary_10_1016_j_tube_2022_102235 crossref_primary_10_1038_s41598_024_67001_0 crossref_primary_10_1038_s42003_025_07883_6 crossref_primary_10_1016_j_micres_2021_126853 crossref_primary_10_1016_j_anscip_2025_04_203 |
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| ContentType | Journal Article |
| Copyright | Copyright © 2021 McLoughlin, Correia, Browne, Magee, Nalpas, Rue-Albrecht, Whelan, Villarreal-Ramos, Vordermeier, Gormley, Gordon and MacHugh. Copyright © 2021 McLoughlin, Correia, Browne, Magee, Nalpas, Rue-Albrecht, Whelan, Villarreal-Ramos, Vordermeier, Gormley, Gordon and MacHugh. 2021 McLoughlin, Correia, Browne, Magee, Nalpas, Rue-Albrecht, Whelan, Villarreal-Ramos, Vordermeier, Gormley, Gordon and MacHugh |
| Copyright_xml | – notice: Copyright © 2021 McLoughlin, Correia, Browne, Magee, Nalpas, Rue-Albrecht, Whelan, Villarreal-Ramos, Vordermeier, Gormley, Gordon and MacHugh. – notice: Copyright © 2021 McLoughlin, Correia, Browne, Magee, Nalpas, Rue-Albrecht, Whelan, Villarreal-Ramos, Vordermeier, Gormley, Gordon and MacHugh. 2021 McLoughlin, Correia, Browne, Magee, Nalpas, Rue-Albrecht, Whelan, Villarreal-Ramos, Vordermeier, Gormley, Gordon and MacHugh |
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| Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 Adam O. Whelan, Biomedical Sciences, Defence Science and Technology Laboratory, Salisbury, United Kingdom Kevin Rue-Albrecht, MRC WIMM Centre for Computational Biology, University of Oxford, Oxford, United Kingdom This article was submitted to Veterinary Infectious Diseases, a section of the journal Frontiers in Veterinary Science Bernardo Villarreal-Ramos and H. Martin Vordermeier have positions as Ser Cymru II Professors of Immunology at the Institute of Biological, Environmental & Rural Sciences, Aberystwyth University, Aberystwyth, United Kingdom Edited by: Federico Blanco, Institute of Biotechnology, National Institute of Agricultural Technology (INTA), Argentina Reviewed by: Marta Alonso-Hearn, Animalien Osasuna, NEIKER-Instituto Vasco de Investigación y Desarrollo Agrario, Spain; Paola M. Boggiatto, National Animal Disease Center (USDA ARS), United States Present address: Nicolas C. Nalpas, Quantitative Proteomics and Proteome Centre Tübingen, Interfaculty Institute for Cell Biology, University of Tübingen, Tübingen, Germany |
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