Identification of novel markers expressed during fin regeneration by microarray analysis in medaka fish

Nishidate, Masanobu; Nakatani, Yuki; Kudo, Akira

doi:10.1002/dvdy.21274

Cited by 24 publications

(20 citation statements)

References 54 publications

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“…Annexin 1 has been postulated to reduce inflammation in regenerating fish [76,77] appendages and in stage 53 regeneration-competent Xenopus laevis limb buds [75]. However, annexin 1 was upregulated only at 7 dpa in our samples.…”

Section: Discussionmentioning

confidence: 66%

Proteomic analysis of blastema formation in regenerating axolotl limbs

et al. 2009

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BackgroundFollowing amputation, urodele salamander limbs reprogram somatic cells to form a blastema that self-organizes into the missing limb parts to restore the structure and function of the limb. To help understand the molecular basis of blastema formation, we used quantitative label-free liquid chromatography-mass spectrometry/mass spectrometry (LC-MS/MS)-based methods to analyze changes in the proteome that occurred 1, 4 and 7 days post amputation (dpa) through the mid-tibia/fibula of axolotl hind limbs.ResultsWe identified 309 unique proteins with significant fold change relative to controls (0 dpa), representing 10 biological process categories: (1) signaling, (2) Ca2+ binding and translocation, (3) transcription, (4) translation, (5) cytoskeleton, (6) extracellular matrix (ECM), (7) metabolism, (8) cell protection, (9) degradation, and (10) cell cycle. In all, 43 proteins exhibited exceptionally high fold changes. Of these, the ecotropic viral integrative factor 5 (EVI5), a cell cycle-related oncoprotein that prevents cells from entering the mitotic phase of the cell cycle prematurely, was of special interest because its fold change was exceptionally high throughout blastema formation.ConclusionOur data were consistent with previous studies indicating the importance of inositol triphosphate and Ca2+ signaling in initiating the ECM and cytoskeletal remodeling characteristic of histolysis and cell dedifferentiation. In addition, the data suggested that blastema formation requires several mechanisms to avoid apoptosis, including reduced metabolism, differential regulation of proapoptotic and antiapoptotic proteins, and initiation of an unfolded protein response (UPR). Since there is virtually no mitosis during blastema formation, we propose that high levels of EVI5 function to arrest dedifferentiated cells somewhere in the G1/S/G2 phases of the cell cycle until they have accumulated under the wound epidermis and enter mitosis in response to neural and epidermal factors. Our findings indicate the general value of quantitative proteomic analysis in understanding the regeneration of complex structures.

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Section: Discussionmentioning

confidence: 66%

Proteomic analysis of blastema formation in regenerating axolotl limbs

et al. 2009

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“…However, in this case contamination by circulating mononuclear cells can also not not be excluded. There have also been transcriptomic profiling studies using models of tissue regeneration such as regeneration of Xenopus laevis hindlimbs[66]or fin regeneration in the medaka fish [67]. These studies are different from ours because myofibroblast invasion does not occur in these models.…”

Section: Resultsmentioning

confidence: 89%

Gene signatures in wound tissue as evidenced by molecular profiling in the chick embryo model

et al. 2010

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BackgroundModern functional genomic approaches may help to better understand the molecular events involved in tissue morphogenesis and to identify molecular signatures and pathways. We have recently applied transcriptomic profiling to evidence molecular signatures in the development of the normal chicken chorioallantoic membrane (CAM) and in tumor engrafted on the CAM. We have now extended our studies by performing a transcriptome analysis in the "wound model" of the chicken CAM, which is another relevant model of tissue morphogenesis.ResultsTo induce granulation tissue (GT) formation, we performed wounding of the chicken CAM and compared gene expression to normal CAM at the same stage of development. Matched control samples from the same individual were used. We observed a total of 282 genes up-regulated and 44 genes down-regulated assuming a false-discovery rate at 5% and a fold change > 2. Furthermore, bioinformatics analysis lead to the identification of several categories that are associated to organismal injury, tissue morphology, cellular movement, inflammatory disease, development and immune system. Endothelial cell data filtering leads to the identification of several new genes with an endothelial cell signature.ConclusionsThe chick chorioallantoic wound model allows the identification of gene signatures and pathways involved in GT formation and neoangiogenesis. This may constitute a fertile ground for further studies.

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“…However, parallel analysis of gene expression during different phases of regenerative events in spinal cord using high-density dedicated zebrafish arrays has not been attempted. In Medaka, another teleost fish, a small scale cDNA microarray screen during fin regeneration was reported using 2,900 expressed sequence tags (ESTs), which shared no homology to known genes [13]. Attempts have been made to employ Affymetrix arrays containing 14,900 transcripts representing 10,000 genes to study regeneration of fin, heart and retina in zebrafish [5], [14], [15].…”

Section: Introductionmentioning

confidence: 99%

Genome Wide Expression Profiling during Spinal Cord Regeneration Identifies Comprehensive Cellular Responses in Zebrafish

et al. 2014

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BackgroundAmong the vertebrates, teleost and urodele amphibians are capable of regenerating their central nervous system. We have used zebrafish as a model to study spinal cord injury and regeneration. Relatively little is known about the molecular mechanisms underlying spinal cord regeneration and information based on high density oligonucleotide microarray was not available. We have used a high density microarray to profile the temporal transcriptome dynamics during the entire phenomenon.ResultsA total of 3842 genes expressed differentially with significant fold changes during spinal cord regeneration. Cluster analysis revealed event specific dynamic expression of genes related to inflammation, cell death, cell migration, cell proliferation, neurogenesis, neural patterning and axonal regrowth. Spatio-temporal analysis of stat3 expression suggested its possible function in controlling inflammation and cell proliferation. Genes involved in neurogenesis and their dorso-ventral patterning (sox2 and dbx2) are differentially expressed. Injury induced cell proliferation is controlled by many cell cycle regulators and some are commonly expressed in regenerating fin, heart and retina. Expression pattern of certain pathway genes are identified for the first time during regeneration of spinal cord. Several genes involved in PNS regeneration in mammals like stat3, socs3, atf3, mmp9 and sox11 are upregulated in zebrafish SCI thus creating PNS like environment after injury.ConclusionOur study provides a comprehensive genetic blue print of diverse cellular response(s) during regeneration of zebrafish spinal cord. The data highlights the importance of different event specific gene expression that could be better understood and manipulated further to induce successful regeneration in mammals.

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Identification of novel markers expressed during fin regeneration by microarray analysis in medaka fish

Cited by 24 publications

References 54 publications

Proteomic analysis of blastema formation in regenerating axolotl limbs

Proteomic analysis of blastema formation in regenerating axolotl limbs

Gene signatures in wound tissue as evidenced by molecular profiling in the chick embryo model

Genome Wide Expression Profiling during Spinal Cord Regeneration Identifies Comprehensive Cellular Responses in Zebrafish

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