• Login
    View Item 
    •   T-Stór
    • Other
    • Teagasc publications in Biomed Central
    • View Item
    •   T-Stór
    • Other
    • Teagasc publications in Biomed Central
    • View Item
    JavaScript is disabled for your browser. Some features of this site may not work without it.

    Browse

    All of T-StórCommunitiesPublication DateAuthorsTitlesSubjectsFunderThis CollectionPublication DateAuthorsTitlesSubjectsFunderProfilesView

    My Account

    LoginRegister

    Information

    Deposit AgreementLicense

    Statistics

    Most Popular ItemsStatistics by CountryMost Popular Authors

    RNA-seq analysis of differential gene expression in liver from lactating dairy cows divergent in negative energy balance

    • CSV
    • RefMan
    • EndNote
    • BibTex
    • RefWorks
    Thumbnail
    Name:
    1471-2164-13-193.pdf
    Size:
    1.710Mb
    Format:
    PDF
    Download
    Thumbnail
    Name:
    1471-2164-13-193-S1.DOC
    Size:
    70.5Kb
    Format:
    Microsoft Word
    Download
    Thumbnail
    Name:
    1471-2164-13-193-S2.XLS
    Size:
    133.5Kb
    Format:
    Microsoft Excel
    Download
    Thumbnail
    Name:
    1471-2164-13-193-S3.XLS
    Size:
    50Kb
    Format:
    Microsoft Excel
    Download
    Thumbnail
    Name:
    1471-2164-13-193-S4.PDF
    Size:
    334.2Kb
    Format:
    PDF
    Download
    Thumbnail
    Name:
    1471-2164-13-193-S5.PDF
    Size:
    307.9Kb
    Format:
    PDF
    Download
    Thumbnail
    Name:
    1471-2164-13-193-S6.DOC
    Size:
    70.5Kb
    Format:
    Microsoft Word
    Download
    View more filesView fewer files
    Author
    McCabe, Matthew
    Waters, Sinead M.
    Morris, Dermot G.
    Kenny, David J
    Lynn, David J
    Creevey, Christopher J.
    Keyword
    RNA-seq
    Negative energy balance
    Bovine
    Liver
    Date
    2012-05-20
    
    Metadata
    Show full item record
    Statistics
    Display Item Statistics
    URI
    http://hdl.handle.net/11019/243; http://dx.doi.org/10.1186/1471-2164-13-193
    Citation
    Matthew McCabe, Sin�ad Waters, Dermot Morris, David Kenny, David Lynn and Chris Creevey. RNA-seq analysis of differential gene expression in liver from lactating dairy cows divergent in negative energy balance. BMC Genomics 2012, 13:193. DOI:10.1186/1471-2164-13-193
    Abstract
    Background: The liver is central to most economically important metabolic processes in cattle. However, the changes in expression of genes that drive these processes remain incompletely characterised. RNA-seq is the new gold standard for whole transcriptome analysis but so far there are no reports of its application to analysis of differential gene expression in cattle liver. We used RNA-seq to study differences in expression profiles of hepatic genes and their associated pathways in individual cattle in either mild negative energy balance (MNEB) or severe negative energy balance (SNEB). NEB is an imbalance between energy intake and energy requirements for lactation and body maintenance. This aberrant metabolic state affects high-yielding dairy cows after calving and is of considerable economic importance because of its negative impact on fertility and health in dairy herds. Analysis of changes in hepatic gene expression in SNEB animals will increase our understanding of NEB and contribute to the development of strategies to circumvent it. Results: RNA-seq analysis was carried out on total RNA from liver from early post partum Holstein Friesian cows in MNEB (n = 5) and SNEB (n = 6). 12,833 genes were deemed to be expressed (>4 reads per gene per animal), 413 of which were shown to be statistically significantly differentially expressed (SDE) at a false discovery rate (FDR) of 0.1% and 200 of which were SDE (FDR of 0.1%) with a ≥2-fold change between MNEB and SNEB animals. GOseq/KEGG pathway analysis showed that SDE genes with ≥2- fold change were associated (P <0.05) with 9 KEGG pathways. Seven of these pathways were related to fatty acid metabolism and unexpectedly included ‘Steroid hormone biosynthesis’, a process which mainly occurs in the reproductive organs rather than the liver. Conclusions: RNA-seq analysis showed that the major changes at the level of transcription in the liver of SNEB cows were related to fat metabolism. 'Steroid hormone biosynthesis', a process that normally occurs in reproductive tissue, was significantly associated with changes in gene expression in the liver of SNEB cows. Changes in gene expression were found in this pathway that have not been previously been identified in SNEB cows.
    Collections
    Teagasc publications in Biomed Central
    Animal & Bioscience

    entitlement

     
    DSpace software copyright © 2002-2017  DuraSpace
    Quick Guide | Contact Us | Send Feedback
    Open Repository is a service operated by 
    Atmire NV
     

    Export search results

    The export option will allow you to export the current search results of the entered query to a file. Different formats are available for download. To export the items, click on the button corresponding with the preferred download format.

    By default, clicking on the export buttons will result in a download of the allowed maximum amount of items.

    To select a subset of the search results, click "Selective Export" button and make a selection of the items you want to export. The amount of items that can be exported at once is similarly restricted as the full export.

    After making a selection, click one of the export format buttons. The amount of items that will be exported is indicated in the bubble next to export format.