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Dynamic gene expression in fish muscle during recovery growth induced by a fasting-refeeding schedule.

Rescan PY, Montfort J, Rallière C, Le Cam A, Esquerré D, Hugot K - BMC Genomics (2007)

Bottom Line: Finally, a fourth cluster of 200 genes overexpressed only in 36-day refed trout muscle contained genes with function in carbohydrate metabolism and lipid biosynthesis.Our study is the first demonstration of a coordinated expression of functionally related genes during muscle recovery growth.Furthermore, the generation of a useful database of novel genes associated with muscle recovery growth will allow further investigations on particular genes, pathways or cellular process involved in muscle growth and regeneration.

View Article: PubMed Central - HTML - PubMed

Affiliation: National Institute for Agricultural Research, Joint Research Unit for Fish Physiology, Biodiversity and the Environment, INRA Scribe, IFR140, Campus de Beaulieu, 35042 Rennes, France. pierre-yves.rescan@rennes.inra.fr

ABSTRACT

Background: Recovery growth is a phase of rapid growth that is triggered by adequate refeeding of animals following a period of weight loss caused by starvation. In this study, to obtain more information on the system-wide integration of recovery growth in muscle, we undertook a time-course analysis of transcript expression in trout subjected to a food deprivation-refeeding sequence. For this purpose complex targets produced from muscle of trout fasted for one month and from muscle of trout fasted for one month and then refed for 4, 7, 11 and 36 days were hybridized to cDNA microarrays containing 9023 clones.

Results: Significance analysis of microarrays (SAM) and temporal expression profiling led to the segregation of differentially expressed genes into four major clusters. One cluster comprising 1020 genes with high expression in muscle from fasted animals included a large set of genes involved in protein catabolism. A second cluster that included approximately 550 genes with transient induction 4 to 11 days post-refeeding was dominated by genes involved in transcription, ribosomal biogenesis, translation, chaperone activity, mitochondrial production of ATP and cell division. A third cluster that contained 480 genes that were up-regulated 7 to 36 days post-refeeding was enriched with genes involved in reticulum and Golgi dynamics and with genes indicative of myofiber and muscle remodelling such as genes encoding sarcomeric proteins and matrix compounds. Finally, a fourth cluster of 200 genes overexpressed only in 36-day refed trout muscle contained genes with function in carbohydrate metabolism and lipid biosynthesis. Remarkably, among the genes induced were several transcriptional regulators which might be important for the gene-specific transcriptional adaptations that underlie muscle recovery.

Conclusion: Our study is the first demonstration of a coordinated expression of functionally related genes during muscle recovery growth. Furthermore, the generation of a useful database of novel genes associated with muscle recovery growth will allow further investigations on particular genes, pathways or cellular process involved in muscle growth and regeneration.

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Supervised clustering of SAM selected genes induced during muscle recovery growth and involved in transcriptional regulation. Columns as in figure 2.
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Figure 13: Supervised clustering of SAM selected genes induced during muscle recovery growth and involved in transcriptional regulation. Columns as in figure 2.

Mentions: Some of the genes induced during muscle recovery growth were themselves regulators of transcription (Fig. 13). Among those present in cluster II, were two cyclic AMP-dependent transcription factors closely related to CREB3 and to ATF4 respectively, MEF2a, SF-1/fushitarazu homolog 1 related protein, cell growth regulating nucleolar protein LYAR, apoptosis-antagonizing transcription factor AATF and an unidentified zinc finger protein encoding gene. Cluster III included MTF1, the LIM/homeobox protein Lhx8, the homeobox proteins Hox-C9 and Hox-B1, the LIM domain containing transcription factor LMO4, the Homeodomain only protein Hop, a CREB1 related protein, sox11 as well as four unidentified zinc finger protein encoding genes. In addition to transcriptional regulators that trigger gene-specific expression by binding to sequence of promoters, we found other genes overexpressed during muscle recovery growth which potentially control gene expression by inducing histone modifications (SmyD1) or DNA modification (DNMT1 and DNMT2).


Dynamic gene expression in fish muscle during recovery growth induced by a fasting-refeeding schedule.

Rescan PY, Montfort J, Rallière C, Le Cam A, Esquerré D, Hugot K - BMC Genomics (2007)

Supervised clustering of SAM selected genes induced during muscle recovery growth and involved in transcriptional regulation. Columns as in figure 2.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC2238769&req=5

Figure 13: Supervised clustering of SAM selected genes induced during muscle recovery growth and involved in transcriptional regulation. Columns as in figure 2.
Mentions: Some of the genes induced during muscle recovery growth were themselves regulators of transcription (Fig. 13). Among those present in cluster II, were two cyclic AMP-dependent transcription factors closely related to CREB3 and to ATF4 respectively, MEF2a, SF-1/fushitarazu homolog 1 related protein, cell growth regulating nucleolar protein LYAR, apoptosis-antagonizing transcription factor AATF and an unidentified zinc finger protein encoding gene. Cluster III included MTF1, the LIM/homeobox protein Lhx8, the homeobox proteins Hox-C9 and Hox-B1, the LIM domain containing transcription factor LMO4, the Homeodomain only protein Hop, a CREB1 related protein, sox11 as well as four unidentified zinc finger protein encoding genes. In addition to transcriptional regulators that trigger gene-specific expression by binding to sequence of promoters, we found other genes overexpressed during muscle recovery growth which potentially control gene expression by inducing histone modifications (SmyD1) or DNA modification (DNMT1 and DNMT2).

Bottom Line: Finally, a fourth cluster of 200 genes overexpressed only in 36-day refed trout muscle contained genes with function in carbohydrate metabolism and lipid biosynthesis.Our study is the first demonstration of a coordinated expression of functionally related genes during muscle recovery growth.Furthermore, the generation of a useful database of novel genes associated with muscle recovery growth will allow further investigations on particular genes, pathways or cellular process involved in muscle growth and regeneration.

View Article: PubMed Central - HTML - PubMed

Affiliation: National Institute for Agricultural Research, Joint Research Unit for Fish Physiology, Biodiversity and the Environment, INRA Scribe, IFR140, Campus de Beaulieu, 35042 Rennes, France. pierre-yves.rescan@rennes.inra.fr

ABSTRACT

Background: Recovery growth is a phase of rapid growth that is triggered by adequate refeeding of animals following a period of weight loss caused by starvation. In this study, to obtain more information on the system-wide integration of recovery growth in muscle, we undertook a time-course analysis of transcript expression in trout subjected to a food deprivation-refeeding sequence. For this purpose complex targets produced from muscle of trout fasted for one month and from muscle of trout fasted for one month and then refed for 4, 7, 11 and 36 days were hybridized to cDNA microarrays containing 9023 clones.

Results: Significance analysis of microarrays (SAM) and temporal expression profiling led to the segregation of differentially expressed genes into four major clusters. One cluster comprising 1020 genes with high expression in muscle from fasted animals included a large set of genes involved in protein catabolism. A second cluster that included approximately 550 genes with transient induction 4 to 11 days post-refeeding was dominated by genes involved in transcription, ribosomal biogenesis, translation, chaperone activity, mitochondrial production of ATP and cell division. A third cluster that contained 480 genes that were up-regulated 7 to 36 days post-refeeding was enriched with genes involved in reticulum and Golgi dynamics and with genes indicative of myofiber and muscle remodelling such as genes encoding sarcomeric proteins and matrix compounds. Finally, a fourth cluster of 200 genes overexpressed only in 36-day refed trout muscle contained genes with function in carbohydrate metabolism and lipid biosynthesis. Remarkably, among the genes induced were several transcriptional regulators which might be important for the gene-specific transcriptional adaptations that underlie muscle recovery.

Conclusion: Our study is the first demonstration of a coordinated expression of functionally related genes during muscle recovery growth. Furthermore, the generation of a useful database of novel genes associated with muscle recovery growth will allow further investigations on particular genes, pathways or cellular process involved in muscle growth and regeneration.

Show MeSH
Related in: MedlinePlus