Characterisation of the Whole Blood mRNA Transcriptome in Holstein-Friesian and Jersey Calves in Response to Gradual Weaning
Weaning of dairy calves is an early life husbandry management practice which involves the changeover from a liquid to a solid feed based diet. The objectives of the study were to use RNA-seq technology to examine the effect of (i) breed and (ii) gradual weaning, on the whole blood mRNA transcriptome...
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| Veröffentlicht in: | PloS one 2016-08, Vol.11 (8), p.e0159707-e0159707 |
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| creator | Johnston, D Earley, B Cormican, P Kenny, D A McCabe, M S Kelly, A K McGee, M Waters, S M |
| description | Weaning of dairy calves is an early life husbandry management practice which involves the changeover from a liquid to a solid feed based diet. The objectives of the study were to use RNA-seq technology to examine the effect of (i) breed and (ii) gradual weaning, on the whole blood mRNA transcriptome of artificially reared Holstein-Friesian and Jersey calves. The calves were gradually weaned over 14 days (day (d) -13 to d 0) and mRNA transcription was examined one day before gradual weaning was initiated (d -14), one day after weaning (d 1), and 8 days after weaning (d 8). On d -14, 550 genes were differentially expressed between Holstein-Friesian and Jersey calves, while there were 490 differentially expressed genes (DEG) identified on d 1, and 411 DEG detected eight days after weaning (P < 0.05; FDR < 0.1). No genes were differentially expressed within breed, in response to gradual weaning (P > 0.05). The pathways, gene ontology terms, and biological functions consistently over-represented among the DEG between Holstein-Friesian and Jersey were associated with the immune response and immune cell signalling, specifically chemotaxis. Decreased transcription of several cytokines, chemokines, immunoglobulin-like genes, phagocytosis-promoting receptors and g-protein coupled receptors suggests decreased monocyte, natural killer cell, and T lymphocyte, chemotaxis and activation in Jersey compared to Holstein-Friesian calves. Knowledge of breed-specific immune responses could facilitate health management practices better tailored towards specific disease sensitivities of Holstein-Friesian and Jersey calves. Gradual weaning did not compromise the welfare of artificially-reared dairy calves, evidenced by the lack of alterations in the expression of any genes in response to gradual weaning. |
| doi_str_mv | 10.1371/journal.pone.0159707 |
| format | Article |
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The objectives of the study were to use RNA-seq technology to examine the effect of (i) breed and (ii) gradual weaning, on the whole blood mRNA transcriptome of artificially reared Holstein-Friesian and Jersey calves. The calves were gradually weaned over 14 days (day (d) -13 to d 0) and mRNA transcription was examined one day before gradual weaning was initiated (d -14), one day after weaning (d 1), and 8 days after weaning (d 8). On d -14, 550 genes were differentially expressed between Holstein-Friesian and Jersey calves, while there were 490 differentially expressed genes (DEG) identified on d 1, and 411 DEG detected eight days after weaning (P < 0.05; FDR < 0.1). No genes were differentially expressed within breed, in response to gradual weaning (P > 0.05). The pathways, gene ontology terms, and biological functions consistently over-represented among the DEG between Holstein-Friesian and Jersey were associated with the immune response and immune cell signalling, specifically chemotaxis. Decreased transcription of several cytokines, chemokines, immunoglobulin-like genes, phagocytosis-promoting receptors and g-protein coupled receptors suggests decreased monocyte, natural killer cell, and T lymphocyte, chemotaxis and activation in Jersey compared to Holstein-Friesian calves. Knowledge of breed-specific immune responses could facilitate health management practices better tailored towards specific disease sensitivities of Holstein-Friesian and Jersey calves. Gradual weaning did not compromise the welfare of artificially-reared dairy calves, evidenced by the lack of alterations in the expression of any genes in response to gradual weaning.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0159707</identifier><identifier>PMID: 27479136</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Analysis ; Animal husbandry ; Animals ; Beef ; Biology and Life Sciences ; Blood ; Calves ; Calves (Cattle) ; Cattle ; Cell activation ; Chemokines ; Chemokines - genetics ; Chemokines - metabolism ; Chemotaxis ; Cluster Analysis ; Cytokines ; Cytokines - genetics ; Cytokines - metabolism ; Disease control ; Down-Regulation ; E coli ; Eimeria ; Escherichia coli ; Female ; Food science ; Gene expression ; Genes ; Genomics ; Grasslands ; Health aspects ; Hematology ; Hermosilla ; Immune response ; Immune system ; Infections ; Knowledge representation ; Lymphatic system ; Lymphocytes T ; Medicine and Health Sciences ; Messenger RNA ; Monocytes ; Natural killer cells ; Nephelometry and Turbidimetry ; Neutrophils ; Parasitology ; Phagocytosis ; Receptors ; Receptors, G-Protein-Coupled - genetics ; Receptors, G-Protein-Coupled - metabolism ; Ribonucleic acid ; RNA ; RNA - chemistry ; RNA - metabolism ; RNA, Messenger - chemistry ; RNA, Messenger - metabolism ; Sequence Analysis, RNA ; Signal transduction ; Signaling ; Staphylococcus aureus ; Stress response ; T-Lymphocytes - immunology ; T-Lymphocytes - metabolism ; Time Factors ; Transcription ; Transcription (Genetics) ; Transcriptome ; Tuberculosis ; Up-Regulation ; Veterinary medicine ; Weaning</subject><ispartof>PloS one, 2016-08, Vol.11 (8), p.e0159707-e0159707</ispartof><rights>COPYRIGHT 2016 Public Library of Science</rights><rights>2016 Johnston et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2016 Johnston et al 2016 Johnston et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c725t-b7c9fb48feab63bae6a85d97492909f6c149defd3df7e5d219eb8c18a6ee246b3</citedby><cites>FETCH-LOGICAL-c725t-b7c9fb48feab63bae6a85d97492909f6c149defd3df7e5d219eb8c18a6ee246b3</cites><orcidid>0000-0002-4784-8354</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4968839/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4968839/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79342,79343</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/27479136$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Johnston, D</creatorcontrib><creatorcontrib>Earley, B</creatorcontrib><creatorcontrib>Cormican, P</creatorcontrib><creatorcontrib>Kenny, D A</creatorcontrib><creatorcontrib>McCabe, M S</creatorcontrib><creatorcontrib>Kelly, A K</creatorcontrib><creatorcontrib>McGee, M</creatorcontrib><creatorcontrib>Waters, S M</creatorcontrib><title>Characterisation of the Whole Blood mRNA Transcriptome in Holstein-Friesian and Jersey Calves in Response to Gradual Weaning</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Weaning of dairy calves is an early life husbandry management practice which involves the changeover from a liquid to a solid feed based diet. The objectives of the study were to use RNA-seq technology to examine the effect of (i) breed and (ii) gradual weaning, on the whole blood mRNA transcriptome of artificially reared Holstein-Friesian and Jersey calves. The calves were gradually weaned over 14 days (day (d) -13 to d 0) and mRNA transcription was examined one day before gradual weaning was initiated (d -14), one day after weaning (d 1), and 8 days after weaning (d 8). On d -14, 550 genes were differentially expressed between Holstein-Friesian and Jersey calves, while there were 490 differentially expressed genes (DEG) identified on d 1, and 411 DEG detected eight days after weaning (P < 0.05; FDR < 0.1). No genes were differentially expressed within breed, in response to gradual weaning (P > 0.05). The pathways, gene ontology terms, and biological functions consistently over-represented among the DEG between Holstein-Friesian and Jersey were associated with the immune response and immune cell signalling, specifically chemotaxis. Decreased transcription of several cytokines, chemokines, immunoglobulin-like genes, phagocytosis-promoting receptors and g-protein coupled receptors suggests decreased monocyte, natural killer cell, and T lymphocyte, chemotaxis and activation in Jersey compared to Holstein-Friesian calves. Knowledge of breed-specific immune responses could facilitate health management practices better tailored towards specific disease sensitivities of Holstein-Friesian and Jersey calves. Gradual weaning did not compromise the welfare of artificially-reared dairy calves, evidenced by the lack of alterations in the expression of any genes in response to gradual weaning.</description><subject>Analysis</subject><subject>Animal husbandry</subject><subject>Animals</subject><subject>Beef</subject><subject>Biology and Life Sciences</subject><subject>Blood</subject><subject>Calves</subject><subject>Calves (Cattle)</subject><subject>Cattle</subject><subject>Cell activation</subject><subject>Chemokines</subject><subject>Chemokines - genetics</subject><subject>Chemokines - metabolism</subject><subject>Chemotaxis</subject><subject>Cluster Analysis</subject><subject>Cytokines</subject><subject>Cytokines - genetics</subject><subject>Cytokines - metabolism</subject><subject>Disease control</subject><subject>Down-Regulation</subject><subject>E coli</subject><subject>Eimeria</subject><subject>Escherichia coli</subject><subject>Female</subject><subject>Food science</subject><subject>Gene expression</subject><subject>Genes</subject><subject>Genomics</subject><subject>Grasslands</subject><subject>Health aspects</subject><subject>Hematology</subject><subject>Hermosilla</subject><subject>Immune response</subject><subject>Immune system</subject><subject>Infections</subject><subject>Knowledge representation</subject><subject>Lymphatic system</subject><subject>Lymphocytes T</subject><subject>Medicine and Health Sciences</subject><subject>Messenger RNA</subject><subject>Monocytes</subject><subject>Natural killer cells</subject><subject>Nephelometry and Turbidimetry</subject><subject>Neutrophils</subject><subject>Parasitology</subject><subject>Phagocytosis</subject><subject>Receptors</subject><subject>Receptors, G-Protein-Coupled - genetics</subject><subject>Receptors, G-Protein-Coupled - metabolism</subject><subject>Ribonucleic acid</subject><subject>RNA</subject><subject>RNA - chemistry</subject><subject>RNA - metabolism</subject><subject>RNA, Messenger - chemistry</subject><subject>RNA, Messenger - metabolism</subject><subject>Sequence Analysis, RNA</subject><subject>Signal transduction</subject><subject>Signaling</subject><subject>Staphylococcus aureus</subject><subject>Stress response</subject><subject>T-Lymphocytes - immunology</subject><subject>T-Lymphocytes - metabolism</subject><subject>Time Factors</subject><subject>Transcription</subject><subject>Transcription (Genetics)</subject><subject>Transcriptome</subject><subject>Tuberculosis</subject><subject>Up-Regulation</subject><subject>Veterinary medicine</subject><subject>Weaning</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2016</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNqNk21rFDEQxxdRbK1-A9GAIPrizmQfssmbwnnYBykWarUvQzaZvUvJJWeSLRb88GbttfSkL0ogCZPf_DOZzBTFa4KnpGrJp0s_BCftdO0dTDFpeIvbJ8Uu4VU5oSWunt7b7xQvYrzEuKkYpc-LnbKtW04qulv8mS9lkCpBMFEm4x3yPUpLQBdLbwF9tt5rtDr7NkPnQbqoglknvwJkHDryNiYwbnIQDEQjHZJOo68QIlyjubRXEEfsDGIOMQJKHh0GqQdp0QVIZ9ziZfGslzbCq826V_w4-HI-P5qcnB4ez2cnE9WWTZp0reJ9V7MeZEerTgKVrNG8rXnJMe-pIjXX0OtK9y00uiQcOqYIkxSgrGlX7RVvb3TX1kexSVwUhGGG63HOxPENob28FOtgVjJcCy-N-GfwYSFkSEZZECWhjdZ1x7u2rDFrcgC97jlmDJhqJM1a-5vbhm4FWoFLQdot0e0TZ5Zi4a9EzSljFc8CHzYCwf8aICaxMlGBtdKBH8a4CWGccv4YFDOKm5yojL77D304ERtqIfNbjet9DlGNomJW5xqrMedlpqYPUHloWBmVC7I32b7l8HHLITMJfqeFHGIUx9_PHs-e_txm399jlyBtWkZvh7GS4zZY34Aq-BgD9Hf_QbAY--k2G2LsJ7Hpp-z25v5f3jndNlD1F_4nG8k</recordid><startdate>20160801</startdate><enddate>20160801</enddate><creator>Johnston, D</creator><creator>Earley, B</creator><creator>Cormican, P</creator><creator>Kenny, D A</creator><creator>McCabe, M S</creator><creator>Kelly, A K</creator><creator>McGee, M</creator><creator>Waters, S M</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope><orcidid>https://orcid.org/0000-0002-4784-8354</orcidid></search><sort><creationdate>20160801</creationdate><title>Characterisation of the Whole Blood mRNA Transcriptome in Holstein-Friesian and Jersey Calves in Response to Gradual Weaning</title><author>Johnston, D ; Earley, B ; Cormican, P ; Kenny, D A ; McCabe, M S ; Kelly, A K ; McGee, M ; Waters, S M</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c725t-b7c9fb48feab63bae6a85d97492909f6c149defd3df7e5d219eb8c18a6ee246b3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2016</creationdate><topic>Analysis</topic><topic>Animal husbandry</topic><topic>Animals</topic><topic>Beef</topic><topic>Biology and Life Sciences</topic><topic>Blood</topic><topic>Calves</topic><topic>Calves (Cattle)</topic><topic>Cattle</topic><topic>Cell activation</topic><topic>Chemokines</topic><topic>Chemokines - 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Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Johnston, D</au><au>Earley, B</au><au>Cormican, P</au><au>Kenny, D A</au><au>McCabe, M S</au><au>Kelly, A K</au><au>McGee, M</au><au>Waters, S M</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Characterisation of the Whole Blood mRNA Transcriptome in Holstein-Friesian and Jersey Calves in Response to Gradual Weaning</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2016-08-01</date><risdate>2016</risdate><volume>11</volume><issue>8</issue><spage>e0159707</spage><epage>e0159707</epage><pages>e0159707-e0159707</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Weaning of dairy calves is an early life husbandry management practice which involves the changeover from a liquid to a solid feed based diet. The objectives of the study were to use RNA-seq technology to examine the effect of (i) breed and (ii) gradual weaning, on the whole blood mRNA transcriptome of artificially reared Holstein-Friesian and Jersey calves. The calves were gradually weaned over 14 days (day (d) -13 to d 0) and mRNA transcription was examined one day before gradual weaning was initiated (d -14), one day after weaning (d 1), and 8 days after weaning (d 8). On d -14, 550 genes were differentially expressed between Holstein-Friesian and Jersey calves, while there were 490 differentially expressed genes (DEG) identified on d 1, and 411 DEG detected eight days after weaning (P < 0.05; FDR < 0.1). No genes were differentially expressed within breed, in response to gradual weaning (P > 0.05). The pathways, gene ontology terms, and biological functions consistently over-represented among the DEG between Holstein-Friesian and Jersey were associated with the immune response and immune cell signalling, specifically chemotaxis. Decreased transcription of several cytokines, chemokines, immunoglobulin-like genes, phagocytosis-promoting receptors and g-protein coupled receptors suggests decreased monocyte, natural killer cell, and T lymphocyte, chemotaxis and activation in Jersey compared to Holstein-Friesian calves. Knowledge of breed-specific immune responses could facilitate health management practices better tailored towards specific disease sensitivities of Holstein-Friesian and Jersey calves. Gradual weaning did not compromise the welfare of artificially-reared dairy calves, evidenced by the lack of alterations in the expression of any genes in response to gradual weaning.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>27479136</pmid><doi>10.1371/journal.pone.0159707</doi><tpages>e0159707</tpages><orcidid>https://orcid.org/0000-0002-4784-8354</orcidid><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2016-08, Vol.11 (8), p.e0159707-e0159707 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_1808041808 |
| source | MEDLINE; DOAJ Directory of Open Access Journals; EZB-FREE-00999 freely available EZB journals; PubMed Central; Free Full-Text Journals in Chemistry; Public Library of Science (PLoS) |
| subjects | Analysis Animal husbandry Animals Beef Biology and Life Sciences Blood Calves Calves (Cattle) Cattle Cell activation Chemokines Chemokines - genetics Chemokines - metabolism Chemotaxis Cluster Analysis Cytokines Cytokines - genetics Cytokines - metabolism Disease control Down-Regulation E coli Eimeria Escherichia coli Female Food science Gene expression Genes Genomics Grasslands Health aspects Hematology Hermosilla Immune response Immune system Infections Knowledge representation Lymphatic system Lymphocytes T Medicine and Health Sciences Messenger RNA Monocytes Natural killer cells Nephelometry and Turbidimetry Neutrophils Parasitology Phagocytosis Receptors Receptors, G-Protein-Coupled - genetics Receptors, G-Protein-Coupled - metabolism Ribonucleic acid RNA RNA - chemistry RNA - metabolism RNA, Messenger - chemistry RNA, Messenger - metabolism Sequence Analysis, RNA Signal transduction Signaling Staphylococcus aureus Stress response T-Lymphocytes - immunology T-Lymphocytes - metabolism Time Factors Transcription Transcription (Genetics) Transcriptome Tuberculosis Up-Regulation Veterinary medicine Weaning |
| title | Characterisation of the Whole Blood mRNA Transcriptome in Holstein-Friesian and Jersey Calves in Response to Gradual Weaning |
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