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Identification of differentially expressed genes and pathways for intramuscular fat deposition in pectoralis major tissues of fast-and slow-growing chickens.

Cui HX, Liu RR, Zhao GP, Zheng MQ, Chen JL, Wen J - BMC Genomics (2012)

Bottom Line: The results of this study identified potential candidate genes associated with chicken IMF deposition and imply that IMF deposition in chicken breast muscle is regulated and mediated not only by genes and pathways related to lipid metabolism and muscle development, but also by others involved in cell junctions.These findings establish the groundwork and provide new clues for deciphering the molecular mechanisms underlying IMF deposition in poultry.Further studies at the translational and posttranslational level are now required to validate the genes and pathways identified here.

View Article: PubMed Central - HTML - PubMed

Affiliation: Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, People's Republic of China.

ABSTRACT

Background: Intramuscular fat (IMF) is one of the important factors influencing meat quality, however, for chickens, the molecular regulatory mechanisms underlying this trait have not yet been determined. In this study, a systematic identification of candidate genes and new pathways related to IMF deposition in chicken breast tissue has been made using gene expression profiles of two distinct breeds: Beijing-you (BJY), a slow-growing Chinese breed possessing high meat quality and Arbor Acres (AA), a commercial fast-growing broiler line.

Results: Agilent cDNA microarray analyses were conducted to determine gene expression profiles of breast muscle sampled at different developmental stages of BJY and AA chickens. Relative to d 1 when there is no detectable IMF, breast muscle at d 21, d 42, d 90 and d 120 (only for BJY) contained 1310 differentially expressed genes (DEGs) in BJY and 1080 DEGs in AA. Of these, 34-70 DEGs related to lipid metabolism or muscle development processes were examined further in each breed based on Gene Ontology (GO) analysis. The expression of several DEGs was correlated, positively or negatively, with the changing patterns of lipid content or breast weight across the ages sampled, indicating that those genes may play key roles in these developmental processes. In addition, based on KEGG pathway analysis of DEGs in both BJY and AA chickens, it was found that in addition to pathways affecting lipid metabolism (pathways for MAPK & PPAR signaling), cell junction-related pathways (tight junction, ECM-receptor interaction, focal adhesion, regulation of actin cytoskeleton), which play a prominent role in maintaining the integrity of tissues, could contribute to the IMF deposition.

Conclusion: The results of this study identified potential candidate genes associated with chicken IMF deposition and imply that IMF deposition in chicken breast muscle is regulated and mediated not only by genes and pathways related to lipid metabolism and muscle development, but also by others involved in cell junctions. These findings establish the groundwork and provide new clues for deciphering the molecular mechanisms underlying IMF deposition in poultry. Further studies at the translational and posttranslational level are now required to validate the genes and pathways identified here.

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Cluster analysis of all microarrays. Expression profiles of samples at different ages (1d, 21d, 42d, 90d and 120d marked) of the same breed (AA and BJY marked) were polymerized together; the expression profile of genes at d 1 differed more than those at other ages. BJY, Beijing-you; AA, Arbor Acres.
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Figure 2: Cluster analysis of all microarrays. Expression profiles of samples at different ages (1d, 21d, 42d, 90d and 120d marked) of the same breed (AA and BJY marked) were polymerized together; the expression profile of genes at d 1 differed more than those at other ages. BJY, Beijing-you; AA, Arbor Acres.

Mentions: To validate the microarrays, normal distribution analysis was performed with the results of the nine microarrays, and all of their coefficients were <0.5. Based on the 595 known genes that were shared as DEGs in both breeds, cluster analysis of all microarrays was performed (Figure 2) using the Cluster 3.0 software. The results demonstrated that expression profiles of samples at different ages of the same breed were polymerized together; the expression patterns of genes at d 1 differed more than those at other ages.


Identification of differentially expressed genes and pathways for intramuscular fat deposition in pectoralis major tissues of fast-and slow-growing chickens.

Cui HX, Liu RR, Zhao GP, Zheng MQ, Chen JL, Wen J - BMC Genomics (2012)

Cluster analysis of all microarrays. Expression profiles of samples at different ages (1d, 21d, 42d, 90d and 120d marked) of the same breed (AA and BJY marked) were polymerized together; the expression profile of genes at d 1 differed more than those at other ages. BJY, Beijing-you; AA, Arbor Acres.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3420248&req=5

Figure 2: Cluster analysis of all microarrays. Expression profiles of samples at different ages (1d, 21d, 42d, 90d and 120d marked) of the same breed (AA and BJY marked) were polymerized together; the expression profile of genes at d 1 differed more than those at other ages. BJY, Beijing-you; AA, Arbor Acres.
Mentions: To validate the microarrays, normal distribution analysis was performed with the results of the nine microarrays, and all of their coefficients were <0.5. Based on the 595 known genes that were shared as DEGs in both breeds, cluster analysis of all microarrays was performed (Figure 2) using the Cluster 3.0 software. The results demonstrated that expression profiles of samples at different ages of the same breed were polymerized together; the expression patterns of genes at d 1 differed more than those at other ages.

Bottom Line: The results of this study identified potential candidate genes associated with chicken IMF deposition and imply that IMF deposition in chicken breast muscle is regulated and mediated not only by genes and pathways related to lipid metabolism and muscle development, but also by others involved in cell junctions.These findings establish the groundwork and provide new clues for deciphering the molecular mechanisms underlying IMF deposition in poultry.Further studies at the translational and posttranslational level are now required to validate the genes and pathways identified here.

View Article: PubMed Central - HTML - PubMed

Affiliation: Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, People's Republic of China.

ABSTRACT

Background: Intramuscular fat (IMF) is one of the important factors influencing meat quality, however, for chickens, the molecular regulatory mechanisms underlying this trait have not yet been determined. In this study, a systematic identification of candidate genes and new pathways related to IMF deposition in chicken breast tissue has been made using gene expression profiles of two distinct breeds: Beijing-you (BJY), a slow-growing Chinese breed possessing high meat quality and Arbor Acres (AA), a commercial fast-growing broiler line.

Results: Agilent cDNA microarray analyses were conducted to determine gene expression profiles of breast muscle sampled at different developmental stages of BJY and AA chickens. Relative to d 1 when there is no detectable IMF, breast muscle at d 21, d 42, d 90 and d 120 (only for BJY) contained 1310 differentially expressed genes (DEGs) in BJY and 1080 DEGs in AA. Of these, 34-70 DEGs related to lipid metabolism or muscle development processes were examined further in each breed based on Gene Ontology (GO) analysis. The expression of several DEGs was correlated, positively or negatively, with the changing patterns of lipid content or breast weight across the ages sampled, indicating that those genes may play key roles in these developmental processes. In addition, based on KEGG pathway analysis of DEGs in both BJY and AA chickens, it was found that in addition to pathways affecting lipid metabolism (pathways for MAPK & PPAR signaling), cell junction-related pathways (tight junction, ECM-receptor interaction, focal adhesion, regulation of actin cytoskeleton), which play a prominent role in maintaining the integrity of tissues, could contribute to the IMF deposition.

Conclusion: The results of this study identified potential candidate genes associated with chicken IMF deposition and imply that IMF deposition in chicken breast muscle is regulated and mediated not only by genes and pathways related to lipid metabolism and muscle development, but also by others involved in cell junctions. These findings establish the groundwork and provide new clues for deciphering the molecular mechanisms underlying IMF deposition in poultry. Further studies at the translational and posttranslational level are now required to validate the genes and pathways identified here.

Show MeSH
Related in: MedlinePlus