iTRAQ reveals proteomic changes during intestine regeneration in the sea cucumber Apostichopus japonicus

Lina Sun1, Dongxue Xu2, Qinzeng Xu3, Jingchun Sun1, Lili Xing4, Libin Zhang1, Hongsheng Yang1
1Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
2Marine Science and Engineering College, Qingdao Agricultural University, Qingdao, China
3Key Laboratory of Marine Ecology and Environmental Science and Engineering, First Institute of Oceanography, State Oceanic Administration, Qingdao, China
4University of Chinese Academy of Sciences, Beijing, China

Tài liệu tham khảo

Burke, 1998, The apical lamina and its role in cell adhesion in sea urchin embryos, Cell Adhes. Commun., 5, 97, 10.3109/15419069809040284 Candelaria, 2006, Contribution of mesenterial muscle dedifferentiation to intestine regeneration in the sea cucumber Holothuria glaberrima, Cell Tissue Res., 325, 55, 10.1007/s00441-006-0170-z Candia-Carnevali, 2009, Regenerating echinoderms: a promise to understand stem cells potential, 165 Chin, 2000, Calmodulin: a prototypical calcium sensor, Trends Cell Biol., 10, 322, 10.1016/S0962-8924(00)01800-6 Crabb, 2004, Overview of the role of alcohol dehydrogenase and aldehyde dehydrogenase and their variants in the genesis of alcohol-related pathology, Proc. Nutr. Soc., 63, 49, 10.1079/PNS2003327 Dolmatov, 1992, Regeneration of the aquapharyngeal complex in the holothurian Eupentacta fraudatrix (Holothuroidea, Dendrochirota), Monogr. Dev. Biol., 23, 40 Dolmatov, 2009, Post-autotomy regeneration of respiratory trees in the holothurian Apostichopus japonicus (Holothuroidea, Aspidochirotida), Cell Tissue Res., 336, 41, 10.1007/s00441-009-0761-6 Du, 2012, Transcriptome sequencing and characterization for the sea cucumber Apostichopus japonicus (Selenka, 1867), PLoS One, 7, 10.1371/journal.pone.0033311 Franco, 2013, Understanding regeneration through proteomics, Proteomics, 13, 686, 10.1002/pmic.201200397 Gao, 2006, Casein kinase 2 is activated and essential for Wnt/β-catenin signaling, J. Biol. Chem., 281, 18394, 10.1074/jbc.M601112200 García-Arrarás, 2010, Echinoderms; potential model systems for studies on muscle regeneration, Curr. Pharm. Des., 16, 942, 10.2174/138161210790883426 García-Arrarás, 2001, Visceral regeneration in holothurians, Microsc. Res. Tech., 55, 438, 10.1002/jemt.1189 García-Arrarás, 1998, Cellular mechanisms of intestine regeneration in the sea cucumber, Holothuria glaberrima Selenka (Holothuroidea: Echinodermata), J. Exp. Zool., 281, 288, 10.1002/(SICI)1097-010X(19980701)281:4<288::AID-JEZ5>3.0.CO;2-K García-Arrarás, 2011, Cell dedifferentiation and epithelial to mesenchymal transitions during intestinal regeneration in H. glaberrima, BMC Dev. Biol., 11, 61, 10.1186/1471-213X-11-61 Gassner, 1997, Abnormal limb regeneration in the short-toes mutant of the axolotl, Ambystoma mexicanum: studies of age, level of amputation, and extracellular matrix, J. Exp. Zool., 279, 571, 10.1002/(SICI)1097-010X(19971215)279:6<571::AID-JEZ5>3.0.CO;2-K Govindan, 2015, Dynamic remodeling of the extra cellular matrix during zebrafish fin regeneration, Gene Expr. Patterns, 19, 21, 10.1016/j.gep.2015.06.001 Gracielle, 2016, Cryotherapy reduces inflammatory response without altering muscle regeneration process and extracellular matrix remodeling of rat muscle, Sci. Rep., 6, 18525, 10.1038/srep18525 Hensbergen, 2004, Furin is a chemokine-modifying enzyme in vitro and in vivo processing of Cxcl10 generates a C-terminally truncated chemokine retaining full activity, J. Biol. Chem., 279, 13402, 10.1074/jbc.M312814200 Higuchi, 2009, Transient dynamic actin cytoskeletal change stimulates the osteoblastic differentiation, J. Bone Miner. Metab., 27, 158, 10.1007/s00774-009-0037-y Hoffman, 1988, Neurofilament and tubulin expression recapitulates the developmental program during axonal regeneration: induction of a specific beta-tubulin isotype, PNAS, 85, 4530, 10.1073/pnas.85.12.4530 Ikuta, 2000, Extracellular matrix tenascin-X in combination with vascular endothelial growth factor B enhances endothelial cell proliferation, Genes Cells, 5, 913, 10.1046/j.1365-2443.2000.00376.x Keshamouni, 2006, Differential protein expression profiling by iTRAQ-2DLC-MS/MS of lung cancer cells undergoing epithelial-mesenchymal transition reveals a migratory/invasive phenotype, J. Proteome Res., 5, 1143, 10.1021/pr050455t Koo, 2007, Bex1 knock out mice show altered skeletal muscle regeneration, Biochem. Biophys. Res. Commun., 363, 405, 10.1016/j.bbrc.2007.08.186 Liu, 2011, Zinc-finger protein 145, acting as an upstream regulator of SOX9, improves the differentiation potential of human mesenchymal stem cells for cartilage regeneration and repair, Arthritis Rheum., 63, 2711, 10.1002/art.30430 Macdonald, 2009, Wnt/β-catenin signaling: components, mechanisms, and diseases, Dev. Cell, 17, 9, 10.1016/j.devcel.2009.06.016 Mashanov, 2010, Visceral regeneration in a sea cucumber involves extensive expression of survivin and mortalin homologs in the mesothelium, BMC Dev. Biol., 10, 117, 10.1186/1471-213X-10-117 Mashanov, 2011, Expression of Wnt9, TCTP, and Bmp1/Tll in sea cucumber visceral regeneration, Gene Expr. Patterns, 12, 24, 10.1016/j.gep.2011.10.003 Mashanov, 2014, Transcriptomic changes during regeneration of the central nervous system in an echinoderm, BMC Genomics, 15, 357, 10.1186/1471-2164-15-357 Mashanov, 2015, Expression of pluripotency factors in echinoderm regeneration, Cell Tissue Res., 359, 521, 10.1007/s00441-014-2040-4 Mashanov, 2015, Myc regulates programmed cell death and radial glia dedifferentiation after neural injury in an echinoderm, BMC Dev. Biol., 15, 24, 10.1186/s12861-015-0071-z Mercer, 2013, A dynamic spatiotemporal extracellular matrix facilitates epicardial-mediated vertebrate heart regeneration, Dev. Biol., 382, 457, 10.1016/j.ydbio.2013.08.002 Meyers, 2012, β-catenin/Wnt signaling controls progenitor fate in the developing and regenerating zebrafish retina, Neural Dev., 7, 30, 10.1186/1749-8104-7-30 Miller, 1989, Rapid induction of the major embryonic alpha-tubulin mRNA, T alpha 1, during nerve regeneration in adult rats, J. Neurosci., 9, 1452, 10.1523/JNEUROSCI.09-04-01452.1989 Murray, 2004, Myogenesis during holothurian intestinal regeneration, Cell Tissue Res., 318, 515, 10.1007/s00441-004-0978-3 Nie, 2006, Study on the regeneration of sea cucumber, Mark. Sci., 78-82 Pablo, 2009, Gene expression profiling of intestinal regeneration in the sea cucumber, BMC Genomics, 10, 262, 10.1186/1471-2164-10-262 Petreaca, 2008, Cell–ECM interactions in repair and regeneration, 191 Pinol, 1988, Increased calmodulin synthesis in the pre-replicative phase of rat liver regeneration, FEBS Lett., 231, 445, 10.1016/0014-5793(88)80868-8 Poloz, 2012, Ca2+ signaling regulates ecmB expression, cell differentiation and slug regeneration in Dictyostelium, Differentiation, 84, 163, 10.1016/j.diff.2012.02.009 Quinones, 2002, Extracellular matrix remodeling and metalloproteinase involvement during intestine regeneration in the sea cucumber Holothuria glaberrima, Dev. Biol., 250, 181, 10.1006/dbio.2002.0778 Rao, 2009, Proteomic analysis of blastema formation in regenerating axolotl limbs, BMC Biol., 7, 83, 10.1186/1741-7007-7-83 Sajish, 2012, Trp-tRNA synthetase bridges DNA-PKcs to PARP-1 to link IFN-γ and p53 signaling, Nat. Chem. Biol., 8, 547, 10.1038/nchembio.937 Sanges, 2013, Wnt/β-catenin signaling triggers neuron reprogramming and regeneration in the mouse retina, Cell Rep., 4, 271, 10.1016/j.celrep.2013.06.015 Satoh, 2008, Neurotrophic regulation of epidermal dedifferentiation during wound healing and limb regeneration in the axolotl (Ambystoma mexicanum), Dev. Biol., 319, 321, 10.1016/j.ydbio.2008.04.030 Saxena, 2012, Proteomic analysis of zebrafish caudal fin regeneration, Mol. Cell. Proteomics, 11, 1, 10.1074/mcp.M111.014118 Seo, 2011, Effect of dietary inclusion of various plant ingredients as an alternative for Sargassum thunbergii on growth and body composition of juvenile sea cucumber Apostichopus japonicus, Aquac. Nutr., 17, 549, 10.1111/j.1365-2095.2010.00849.x Shukalyuk, 2001, Regeneration of the digestive tube in the holothurian Apostichopus japonicus after evisceration, Russ. J. Mar. Biol., 27, 168, 10.1023/A:1016717502616 Smith, 1971, Regeneration in the sea cucumber Leptosynapta. I. The process of regeneration, J. Exp. Zool., 177, 319, 10.1002/jez.1401770306 Song, 2016, Comprehensive and quantitative proteomic analysis of metamorphosis-related proteins in the veined Rapa whelk, Rapana venosa, Int. J. Mol. Sci., 17, 924, 10.3390/ijms17060924 Strand, 2016, Wnt/β-catenin signaling promotes regeneration after adult zebrafish spinal cord injury, Biochem. Biophys. Res. Commun., 477, 952, 10.1016/j.bbrc.2016.07.006 Sun, 2011, Large scale Gene expression profiling during intestine and body wall regeneration in the sea cucumber Apostichopus japonicus, Comp. Biochem. Physiol. D Genom. Proteom., 195 Sun, 2013, Understanding the regulation of estivation in a freshwater snail through iTRAQ-based comparative proteomics, J. Proteome Res., 12, 5271, 10.1021/pr400570a Sun, 2013, RNA-Seq reveals dynamic changes of gene expression in key stages of intestine regeneration in the sea cucumber Apostichopus japonicus, PLoS One, 8 Theil, 2003, Ferritin: at the crossroads of iron and oxygen metabolism, J. Nutr., 133, 1549, 10.1093/jn/133.5.1549S Van Berkel, 2006, Flavoprotein monooxygenases, a diverse class of oxidative biocatalysts, J. Biotechnol., 124, 670, 10.1016/j.jbiotec.2006.03.044 Wang, 2007, The morphological and histological observation of regeneration of alimentary tract in sea cucumber Apostichopus japonicus, J. Dalian Fish. Univ., 22, 340 Westermann, 2008, New perspective on the tissue kallikrein–kinin system in myocardial infarction: role of angiogenesis and cardiac regeneration, Int. Immunopharmacol., 8, 148, 10.1016/j.intimp.2007.07.022 Xu, 2016, Understanding the heat shock response in the sea cucumber Apostichopus japonicus, using iTRAQ-based proteomics, Int. J. Mol. Sci., 17, 150, 10.3390/ijms17020150 Yi, 1998, Arylsulfatase, betagalactosidase and lysozyme in gastric cancer cells and its relationship to invasion, World J. Gastroenterol., 4, 52, 10.3748/wjg.v4.i1.52 Yokoyama, 2011, Different requirement for Wnt/β-catenin signaling in limb regeneration of larval and adult xenopus, PLoS One, 6, 10.1371/journal.pone.0021721 Zhang, 2014, iTRAQ-based proteomics reveals novel members involved in pathogen challenge in sea cucumber Apostichopus japonicus, PLoS One, 9 Zieske, 2006, A perspective on the use of iTRAQ™ reagent technology for protein complex and profiling studies, J. Exp. Bot., 57, 1501, 10.1093/jxb/erj168