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Research article
Nicholas James Hudson
University of Queensland
Corresponding Author
ORCiD: https://orcid.org/0000-0002-3549-9396
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background
This study used a genome-wide screen of gene expression to better understand the metabolic and functional differences between commercially valuable intramuscular fat (IMF) and commercially wasteful subcutaneous (SC) fat depots in Bos taurus beef cattle.
Results
We confirmed many findings previously made at the biochemical level and made new discoveries. The fundamental lipogenic machinery, such as ACACA and FASN encoding the rate limiting Acetyl CoA carboxylase and Fatty Acid synthase were expressed at 1.6-1.8 fold lower levels in IMF, consistent with previous findings. The FA elongation pathway including the rate limiting ELOVL6 was also coordinately downregulated in IMF compared to SC as expected. A 2-fold lower expression in IMF of ACSS2 encoding Acetyl Coenzyme A synthetase is consistent with utilisation of less acetate for lipogenesis in IMF compared to SC as previously determined using radioisotope incorporation. Reduced saturation of fat in the SC depot is reflected by 2.4 fold higher expression of the SCD gene encoding the Δ9 desaturase enzyme. Surprisingly, CH25H encoding the cholesterol 25 hydroxylase enzyme was ~36 fold upregulated in IMF compared to SC. Moreover, its expression in whole muscle tissue appears representative of the proportional representation of bovine marbling adipocytes. This suite of observations prompted quantification of a set of oxysterols (oxidised forms of cholesterol) in the plasma of 8 cattle exhibiting varying IMF. Using LC-MS we found the levels of several oxysterols were significantly associated with multiple marbling measurements across the musculature, but (with just one exception) no other carcass phenotypes.
Conclusions
These data build on our molecular understanding of ruminant fat depot biology and suggest oxysterols represent a promising circulating biomarker for cattle marbling.
Keywords
bovine fat depots, kidney, omental, intermuscular
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This is a list of supplementary files associated with this preprint. Click to download.
- AdditionalFile5LDIMFSCrumpNMEPvalues.xlsx
- AdditionalFile2NMEdatamatrix.csv
- AdditionalFile6PIFIMFSCPvalues.xlsx
- AdditionalFile8cattlephenotypes.xlsx
- AdditionalFile9oxysterolmetabolitequantitation.xlsx
- AdditionalFile7MAIMFSConeprobe14476.xlsx
- AdditionalFile4PhenoMetabolitescorrelations.htm
- AdditionalFile3SupplementaryPathwayTables.docx
- AdditionalFile1refinedgeneliststhresholds.xlsx
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CURRENT STATUS: Published
View the published article at BMC Genomics.
Version 2
Posted 16 Dec, 2019
No community comments so far
Review #1 received
Received 31 Dec, 2019
Reviewer #1 agreed
On 13 Dec, 2019
Reviewers invited
Invitations sent on 12 Dec, 2019
Editor assigned
On 11 Dec, 2019
Submission checks complete
On 10 Dec, 2019
Editor invited
On 10 Dec, 2019
No comments provided
Editorial decision: Major revision
On 14 Nov, 2019
Review #2 received
Received 11 Nov, 2019
Review #1 received
Received 11 Nov, 2019
Reviewer #2 agreed
On 21 Oct, 2019
Reviewer #1 agreed
On 15 Oct, 2019
Reviewers invited
Invitations sent on 08 Oct, 2019
Editor assigned
On 20 Aug, 2019
Submission checks complete
On 19 Aug, 2019
Editor invited
On 19 Aug, 2019
Metrics
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PDF Downloads: ...
HTML Views: ...
Subject Areas
Epigenetics & Genomics
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A new preprint design is coming!
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See the published version of this preprint at BMC Genomics.
This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Learn more about In Review
Research article
Nicholas James Hudson
University of Queensland
Corresponding Author
ORCiD: https://orcid.org/0000-0002-3549-9396
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
Peer Review Timeline
CURRENT STATUS: Published
View the published article at BMC Genomics.
Version 2
Posted 16 Dec, 2019
No community comments so far
Review #1 received
Received 31 Dec, 2019
Reviewer #1 agreed
On 13 Dec, 2019
Reviewers invited
Invitations sent on 12 Dec, 2019
Editor assigned
On 11 Dec, 2019
Submission checks complete
On 10 Dec, 2019
Editor invited
On 10 Dec, 2019
No comments provided
Editorial decision: Major revision
On 14 Nov, 2019
Review #2 received
Received 11 Nov, 2019
Review #1 received
Received 11 Nov, 2019
Reviewer #2 agreed
On 21 Oct, 2019
Reviewer #1 agreed
On 15 Oct, 2019
Reviewers invited
Invitations sent on 08 Oct, 2019
Editor assigned
On 20 Aug, 2019
Submission checks complete
On 19 Aug, 2019
Editor invited
On 19 Aug, 2019
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Epigenetics & Genomics
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published article at BMC Genomics.
Background
This study used a genome-wide screen of gene expression to better understand the metabolic and functional differences between commercially valuable intramuscular fat (IMF) and commercially wasteful subcutaneous (SC) fat depots in Bos taurus beef cattle.
Results
We confirmed many findings previously made at the biochemical level and made new discoveries. The fundamental lipogenic machinery, such as ACACA and FASN encoding the rate limiting Acetyl CoA carboxylase and Fatty Acid synthase were expressed at 1.6-1.8 fold lower levels in IMF, consistent with previous findings. The FA elongation pathway including the rate limiting ELOVL6 was also coordinately downregulated in IMF compared to SC as expected. A 2-fold lower expression in IMF of ACSS2 encoding Acetyl Coenzyme A synthetase is consistent with utilisation of less acetate for lipogenesis in IMF compared to SC as previously determined using radioisotope incorporation. Reduced saturation of fat in the SC depot is reflected by 2.4 fold higher expression of the SCD gene encoding the Δ9 desaturase enzyme. Surprisingly, CH25H encoding the cholesterol 25 hydroxylase enzyme was ~36 fold upregulated in IMF compared to SC. Moreover, its expression in whole muscle tissue appears representative of the proportional representation of bovine marbling adipocytes. This suite of observations prompted quantification of a set of oxysterols (oxidised forms of cholesterol) in the plasma of 8 cattle exhibiting varying IMF. Using LC-MS we found the levels of several oxysterols were significantly associated with multiple marbling measurements across the musculature, but (with just one exception) no other carcass phenotypes.
Conclusions
These data build on our molecular understanding of ruminant fat depot biology and suggest oxysterols represent a promising circulating biomarker for cattle marbling.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
Figure 8
This is a list of supplementary files associated with this preprint. Click to download.
- AdditionalFile5LDIMFSCrumpNMEPvalues.xlsx
- AdditionalFile2NMEdatamatrix.csv
- AdditionalFile6PIFIMFSCPvalues.xlsx
- AdditionalFile8cattlephenotypes.xlsx
- AdditionalFile9oxysterolmetabolitequantitation.xlsx
- AdditionalFile7MAIMFSConeprobe14476.xlsx
- AdditionalFile4PhenoMetabolitescorrelations.htm
- AdditionalFile3SupplementaryPathwayTables.docx
- AdditionalFile1refinedgeneliststhresholds.xlsx
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