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PLoS One
2014 Jan 01;96:e100492. doi: 10.1371/journal.pone.0100492.
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iTRAQ-based proteomics reveals novel members involved in pathogen challenge in sea cucumber Apostichopus japonicus.
Zhang P
,
Li C
,
Zhang P
,
Jin C
,
Pan D
,
Bao Y
.
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Skin ulceration syndrome (SUS) is considered to be a major constraint for the stable development of Apostichopus japonicus culture industries. In this study, we investigated protein changes in the coelomocytes of A. japonicus challenged by Vibrio splendidus using isobaric tags for relative and absolute quantification (iTRAQ) over a 96 h time course. Consequently, 228 differentially expressed proteins were identified in two iTRAQs. A comparison of the protein expression profiles among different time points detected 125 proteins primarily involved in response to endogenous stimuli at 24 h. At 48 h, the number of differentially expressed proteins decreased to 67, with their primary function being oxidation reduction. At the end of pathogen infection, proteins responsive to amino acid stimuli and some metabolic processes were classified as the predominant group. Fifteen proteins were differentially expressed at all time points, among which eight proteins related to pathologies in higher animals were shown to be down-regulated after V. splendidus infection: paxillin, fascin-2, aggrecan, ololfactomedin-1, nesprin-3, a disintegrin-like and metallopeptidase with thrombospondin type 1 motif (Adamts7), C-type lectin domain family 4 (Clec4g) and n-myc downstream regulated gene 1 (Ndrg1). To gain more insight into two SUS-related miRNA (miR-31 and miR-2008) targets at the protein level, all 129 down-regulated proteins were further analyzed in combination with RNA-seq. Twelve and eight proteins were identified as putative targets for miR-31 and miR-2008, respectively, in which six proteins (5 for miR-31 and 1 for miR-2008) displayed higher possibilities to be regulated at the level of translation. Overall, the present work enhances our understanding of the process of V. splendidus-challenged sea cucumber and provides a new method for screening miRNAs targets at the translation level.
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24949634
???displayArticle.pmcLink???PMC4065040 ???displayArticle.link???PLoS One
Figure 1. Changed proteome distribution between different time points, Venn diagram showing unique and shared proteins between time points.
Figure 2. Protein-protein interactions were obtained by the string database.Interaction maps were created by cytoscape. The snapshot shows direct interactions found in these differentially expressed proteins from each time point.
Figure 3. GO enrichment analysis of differentially expressed proteins at each time point.A: 24 h; B: 48 h; C: 96 h.
Figure 4. KEGG pathway enrichment analysis of differentially expressed proteins at each time point.A: 24 h; B: 48 h; C: 96 h.
Figure 5. Time-course expression patterns of miRNAs and its putative targets of A. japonicus upon V. splendidus treatment.Hnrnpa1: Heterogeneous nuclear ribonucleoprotein L; Yes1: Yamaguchi sarcoma viral oncogene homolog 1; Cndp2: CNDP dipeptidase 2;Coro6: Coronin 6; Hspa8: Heat shock 70 kDa protein 8; Plekhd1: PH domain-containing family D member 1; Slc25a5: solute carrier family 25.
Bae,
Vitronectin inhibits neutrophil apoptosis through activation of integrin-associated signaling pathways.
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Bae,
Vitronectin inhibits neutrophil apoptosis through activation of integrin-associated signaling pathways.
2012,
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Bartel,
MicroRNAs: genomics, biogenesis, mechanism, and function.
2004,
Pubmed
Bradford,
A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding.
1976,
Pubmed
Chen,
Regulation of immune responses and tolerance: the microRNA perspective.
2013,
Pubmed
Chen,
High-throughput sequencing reveals differential expression of miRNAs in intestine from sea cucumber during aestivation.
2013,
Pubmed
,
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Di Pietro,
Glutathione S-transferases: an overview in cancer research.
2010,
Pubmed
Evans,
An insight into iTRAQ: where do we stand now?
2012,
Pubmed
Haasnoot,
RNAi and cellular miRNAs in infections by mammalian viruses.
2011,
Pubmed
He,
MicroRNAs: small RNAs with a big role in gene regulation.
2004,
Pubmed
Herbrich,
Statistical inference from multiple iTRAQ experiments without using common reference standards.
2013,
Pubmed
Li,
Quantitative proteomic strategies for the identification of microRNA targets.
2012,
Pubmed
Li,
Shotgun identification of the structural proteome of shrimp white spot syndrome virus and iTRAQ differentiation of envelope and nucleocapsid subproteomes.
2007,
Pubmed
Li,
Characterization of skin ulceration syndrome associated microRNAs in sea cucumber Apostichopus japonicus by deep sequencing.
2012,
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,
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Lietzén,
Quantitative subcellular proteome and secretome profiling of influenza A virus-infected human primary macrophages.
2011,
Pubmed
Lopez,
Src tyrosine kinase inhibits apoptosis through the Erk1/2- dependent degradation of the death accelerator Bik.
2012,
Pubmed
Lü,
iTRAQ analysis of gill proteins from the zebrafish (Danio rerio) infected with Aeromonas hydrophila.
2014,
Pubmed
Magro,
Down-regulation of vinculin upon MK886-induced apoptosis in LN18 glioblastoma cells.
2007,
Pubmed
Morita,
MiR-184 regulates insulin secretion through repression of Slc25a22.
2013,
Pubmed
Olsen,
The lin-4 regulatory RNA controls developmental timing in Caenorhabditis elegans by blocking LIN-14 protein synthesis after the initiation of translation.
1999,
Pubmed
Ou,
Identification of potential microRNA-target pairs associated with osteopetrosis by deep sequencing, iTRAQ proteomics and bioinformatics.
2014,
Pubmed
Peng,
New insights into vinculin function and regulation.
2011,
Pubmed
Rabilloud,
Two-dimensional gel electrophoresis in proteomics: Past, present and future.
2010,
Pubmed
Ren,
Ficolins and infectious diseases.
2014,
Pubmed
Saranya Revathy,
First molluscan theta-class Glutathione S-Transferase: identification, cloning, characterization and transcriptional analysis post immune challenges.
2012,
Pubmed
Seggerson,
Two genetic circuits repress the Caenorhabditis elegans heterochronic gene lin-28 after translation initiation.
2002,
Pubmed
Shao,
Divergent metabolic responses of Apostichopus japonicus suffered from skin ulceration syndrome and pathogen challenge.
2013,
Pubmed
,
Echinobase
Shilov,
The Paragon Algorithm, a next generation search engine that uses sequence temperature values and feature probabilities to identify peptides from tandem mass spectra.
2007,
Pubmed
Subauste,
Vinculin modulation of paxillin-FAK interactions regulates ERK to control survival and motility.
2004,
Pubmed
Thakur,
Deep and highly sensitive proteome coverage by LC-MS/MS without prefractionation.
2011,
Pubmed
Tsuruta,
Involvement of vitronectin in lipopolysaccaride-induced acute lung injury.
2007,
Pubmed
Uhlmann,
Global microRNA level regulation of EGFR-driven cell-cycle protein network in breast cancer.
2012,
Pubmed
Zhang,
De novo assembly of the sea cucumber Apostichopus japonicus hemocytes transcriptome to identify miRNA targets associated with skin ulceration syndrome.
2013,
Pubmed
,
Echinobase
Zhou,
Transcriptome sequencing of sea cucumber (Apostichopus japonicus) and the identification of gene-associated markers.
2014,
Pubmed
,
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Zhu,
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2013,
Pubmed
,
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