Use of a bovine genome array to identify new biological pathways for beef marbling in Hanwoo (<it>Korean Cattle</it>)
<p>Abstract</p> <p>Background</p> <p>Marbling (intramuscular fat) is a valuable trait that impacts on meat quality and an important factor determining price of beef in the Korean beef market. Animals that are destined for this high marbling market are fed a high concent...
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| Format: | Article |
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BMC
2010-11-01
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| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/11/623 |
| _version_ | 1818039002766245888 |
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| author | Lim Da-jeong Kim Nam-Kuk van der Werf Julius Gondro Cedric Lee Seung-Hwan Park Eung-Woo Oh Sung-Jong Gibson John P Thompson John M |
| author_facet | Lim Da-jeong Kim Nam-Kuk van der Werf Julius Gondro Cedric Lee Seung-Hwan Park Eung-Woo Oh Sung-Jong Gibson John P Thompson John M |
| author_sort | Lim Da-jeong |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Marbling (intramuscular fat) is a valuable trait that impacts on meat quality and an important factor determining price of beef in the Korean beef market. Animals that are destined for this high marbling market are fed a high concentrate ration for approximately 30 months in the Korean finishing farms. However, this feeding strategy leads to inefficiencies and excessive fat production. This study aimed to identify candidate genes and pathways associated with intramuscular fat deposition on highly divergent marbling phenotypes in adult Hanwoo cattle.</p> <p>Results</p> <p>Bovine genome array analysis was conducted to detect differentially expressed genes (DEGs) in <it>m. longissimus </it>with divergent marbling phenotype (marbling score 2 to 7). Three data-processing methods (MAS5.0, GCRMA and RMA) were used to test for differential expression (DE). Statistical analysis identified 21 significant transcripts from at least two data-processing methods <it>(P < 0.01)</it>. All 21 differentially expressed genes were validated by real-time PCR. Results showed a high concordance in the gene expression fold change between the microarrays and the real time PCR data. Gene Ontology (GO) and pathway analysis demonstrated that some genes (<it>ADAMTS4, CYP51A </it>and <it>SQLE</it>) over expressed in high marbled animals are involved in a protein catabolic process and a cholesterol biosynthesis process. In addition, pathway analysis also revealed that <it>ADAMTS4 </it>is activated by three regulators (<it>IL-17A</it>, <it>TNFα </it>and <it>TGFβ1</it>). QRT-PCR was used to investigate gene expression of these regulators in muscle with divergent intramuscular fat contents. The results demonstrate that <it>ADAMTS4 </it>and <it>TGFβ1 </it>are associated with increasing marbling fat. An <it>ADAMTS4/TGFβ1 </it>pathway seems to be associated with the phenotypic differences between high and low marbled groups.</p> <p>Conclusions</p> <p>Marbling differences are possibly a function of complex signaling pathway interactions between muscle and fat. These results suggest that <it>ADAMTS4</it>, which is involved in connective tissue degradation, could play a role in an important biological pathway for building up marbling in cattle. Moreover, <it>ADAMTS4 and TGFβ</it>1could potentially be used as an early biological marker for marbling fat content in the early stages of growth.</p> |
| first_indexed | 2024-12-10T07:51:43Z |
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| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-10T07:51:43Z |
| publishDate | 2010-11-01 |
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| spelling | doaj.art-364572afcef64ec0b59a922421e877a12022-12-22T01:57:01ZengBMCBMC Genomics1471-21642010-11-0111162310.1186/1471-2164-11-623Use of a bovine genome array to identify new biological pathways for beef marbling in Hanwoo (<it>Korean Cattle</it>)Lim Da-jeongKim Nam-Kukvan der Werf JuliusGondro CedricLee Seung-HwanPark Eung-WooOh Sung-JongGibson John PThompson John M<p>Abstract</p> <p>Background</p> <p>Marbling (intramuscular fat) is a valuable trait that impacts on meat quality and an important factor determining price of beef in the Korean beef market. Animals that are destined for this high marbling market are fed a high concentrate ration for approximately 30 months in the Korean finishing farms. However, this feeding strategy leads to inefficiencies and excessive fat production. This study aimed to identify candidate genes and pathways associated with intramuscular fat deposition on highly divergent marbling phenotypes in adult Hanwoo cattle.</p> <p>Results</p> <p>Bovine genome array analysis was conducted to detect differentially expressed genes (DEGs) in <it>m. longissimus </it>with divergent marbling phenotype (marbling score 2 to 7). Three data-processing methods (MAS5.0, GCRMA and RMA) were used to test for differential expression (DE). Statistical analysis identified 21 significant transcripts from at least two data-processing methods <it>(P < 0.01)</it>. All 21 differentially expressed genes were validated by real-time PCR. Results showed a high concordance in the gene expression fold change between the microarrays and the real time PCR data. Gene Ontology (GO) and pathway analysis demonstrated that some genes (<it>ADAMTS4, CYP51A </it>and <it>SQLE</it>) over expressed in high marbled animals are involved in a protein catabolic process and a cholesterol biosynthesis process. In addition, pathway analysis also revealed that <it>ADAMTS4 </it>is activated by three regulators (<it>IL-17A</it>, <it>TNFα </it>and <it>TGFβ1</it>). QRT-PCR was used to investigate gene expression of these regulators in muscle with divergent intramuscular fat contents. The results demonstrate that <it>ADAMTS4 </it>and <it>TGFβ1 </it>are associated with increasing marbling fat. An <it>ADAMTS4/TGFβ1 </it>pathway seems to be associated with the phenotypic differences between high and low marbled groups.</p> <p>Conclusions</p> <p>Marbling differences are possibly a function of complex signaling pathway interactions between muscle and fat. These results suggest that <it>ADAMTS4</it>, which is involved in connective tissue degradation, could play a role in an important biological pathway for building up marbling in cattle. Moreover, <it>ADAMTS4 and TGFβ</it>1could potentially be used as an early biological marker for marbling fat content in the early stages of growth.</p>http://www.biomedcentral.com/1471-2164/11/623 |
| spellingShingle | Lim Da-jeong Kim Nam-Kuk van der Werf Julius Gondro Cedric Lee Seung-Hwan Park Eung-Woo Oh Sung-Jong Gibson John P Thompson John M Use of a bovine genome array to identify new biological pathways for beef marbling in Hanwoo (<it>Korean Cattle</it>) BMC Genomics |
| title | Use of a bovine genome array to identify new biological pathways for beef marbling in Hanwoo (<it>Korean Cattle</it>) |
| title_full | Use of a bovine genome array to identify new biological pathways for beef marbling in Hanwoo (<it>Korean Cattle</it>) |
| title_fullStr | Use of a bovine genome array to identify new biological pathways for beef marbling in Hanwoo (<it>Korean Cattle</it>) |
| title_full_unstemmed | Use of a bovine genome array to identify new biological pathways for beef marbling in Hanwoo (<it>Korean Cattle</it>) |
| title_short | Use of a bovine genome array to identify new biological pathways for beef marbling in Hanwoo (<it>Korean Cattle</it>) |
| title_sort | use of a bovine genome array to identify new biological pathways for beef marbling in hanwoo it korean cattle it |
| url | http://www.biomedcentral.com/1471-2164/11/623 |
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