Transcriptome and quantitative proteome analysis reveals molecular processes associated with larval metamorphosis in the polychaete pseudopolydora vexillosa

Handle URI:
http://hdl.handle.net/10754/562673
Title:
Transcriptome and quantitative proteome analysis reveals molecular processes associated with larval metamorphosis in the polychaete pseudopolydora vexillosa
Authors:
Chandramouli, Kondethimmanahalli ( 0000-0002-0104-1993 ) ; Sun, Jin; Mok, FloraSy; Liu, Lingli; Qiu, Jianwen; Ravasi, Timothy ( 0000-0002-9950-465X ) ; Qian, Peiyuan
Abstract:
Larval growth of the polychaete worm Pseudopolydora vexillosa involves the formation of segment-specific structures. When larvae attain competency to settle, they discard swimming chaetae and secrete mucus. The larvae build tubes around themselves and metamorphose into benthic juveniles. Understanding the molecular processes, which regulate this complex and unique transition, remains a major challenge because of the limited molecular information available. To improve this situation, we conducted high-throughput RNA sequencing and quantitative proteome analysis of the larval stages of P. vexillosa. Based on gene ontology (GO) analysis, transcripts related to cellular and metabolic processes, binding, and catalytic activities were highly represented during larval-adult transition. Mitogen-activated protein kinase (MAPK), calcium-signaling, Wnt/β-catenin, and notch signaling metabolic pathways were enriched in transcriptome data. Quantitative proteomics identified 107 differentially expressed proteins in three distinct larval stages. Fourteen and 53 proteins exhibited specific differential expression during competency and metamorphosis, respectively. Dramatic up-regulation of proteins involved in signaling, metabolism, and cytoskeleton functions were found during the larval-juvenile transition. Several proteins involved in cell signaling, cytoskeleton and metabolism were up-regulated, whereas proteins related to transcription and oxidative phosphorylation were down-regulated during competency. The integration of high-throughput RNA sequencing and quantitative proteomics allowed a global scale analysis of larval transcripts/proteins associated molecular processes in the metamorphosis of polychaete worms. Further, transcriptomic and proteomic insights provide a new direction to understand the fundamental mechanisms that regulate larval metamorphosis in polychaetes. © 2013 American Chemical Society.
KAUST Department:
KAUST Global Collaborative Research Program; Biological and Environmental Sciences and Engineering (BESE) Division; Integrative Systems Biology Lab; Bioscience Program; Computational Bioscience Research Center (CBRC)
Publisher:
American Chemical Society
Journal:
Journal of Proteome Research
Issue Date:
Mar-2013
DOI:
10.1021/pr3010088
PubMed ID:
23294167
Type:
Article
ISSN:
15353893
Sponsors:
The authors thank Dr. Salim Bougouffa for technical help in MG-RAST data analysis, Dr. Taewoo Ryu for reviewing the transcriptome data, Ms. Cherry Kwan for proofreading the manuscript, and Dr. Wang Yong for figures preparation. This study was supported by a grant from China Ocean Mineral Resources Research and Development (DY125-15-T-02), a grant from Sanya Institute of Deep-Sea Science and Engineering (SIDSSE-201206), and award SA-C0040/UK-00016 from the King Abdullah University of Science and Technology to PY Qian.
Appears in Collections:
Articles; Bioscience Program; Computational Bioscience Research Center (CBRC); Biological and Environmental Sciences and Engineering (BESE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorChandramouli, Kondethimmanahallien
dc.contributor.authorSun, Jinen
dc.contributor.authorMok, FloraSyen
dc.contributor.authorLiu, Linglien
dc.contributor.authorQiu, Jianwenen
dc.contributor.authorRavasi, Timothyen
dc.contributor.authorQian, Peiyuanen
dc.date.accessioned2015-08-03T11:00:50Zen
dc.date.available2015-08-03T11:00:50Zen
dc.date.issued2013-03en
dc.identifier.issn15353893en
dc.identifier.pmid23294167en
dc.identifier.doi10.1021/pr3010088en
dc.identifier.urihttp://hdl.handle.net/10754/562673en
dc.description.abstractLarval growth of the polychaete worm Pseudopolydora vexillosa involves the formation of segment-specific structures. When larvae attain competency to settle, they discard swimming chaetae and secrete mucus. The larvae build tubes around themselves and metamorphose into benthic juveniles. Understanding the molecular processes, which regulate this complex and unique transition, remains a major challenge because of the limited molecular information available. To improve this situation, we conducted high-throughput RNA sequencing and quantitative proteome analysis of the larval stages of P. vexillosa. Based on gene ontology (GO) analysis, transcripts related to cellular and metabolic processes, binding, and catalytic activities were highly represented during larval-adult transition. Mitogen-activated protein kinase (MAPK), calcium-signaling, Wnt/β-catenin, and notch signaling metabolic pathways were enriched in transcriptome data. Quantitative proteomics identified 107 differentially expressed proteins in three distinct larval stages. Fourteen and 53 proteins exhibited specific differential expression during competency and metamorphosis, respectively. Dramatic up-regulation of proteins involved in signaling, metabolism, and cytoskeleton functions were found during the larval-juvenile transition. Several proteins involved in cell signaling, cytoskeleton and metabolism were up-regulated, whereas proteins related to transcription and oxidative phosphorylation were down-regulated during competency. The integration of high-throughput RNA sequencing and quantitative proteomics allowed a global scale analysis of larval transcripts/proteins associated molecular processes in the metamorphosis of polychaete worms. Further, transcriptomic and proteomic insights provide a new direction to understand the fundamental mechanisms that regulate larval metamorphosis in polychaetes. © 2013 American Chemical Society.en
dc.description.sponsorshipThe authors thank Dr. Salim Bougouffa for technical help in MG-RAST data analysis, Dr. Taewoo Ryu for reviewing the transcriptome data, Ms. Cherry Kwan for proofreading the manuscript, and Dr. Wang Yong for figures preparation. This study was supported by a grant from China Ocean Mineral Resources Research and Development (DY125-15-T-02), a grant from Sanya Institute of Deep-Sea Science and Engineering (SIDSSE-201206), and award SA-C0040/UK-00016 from the King Abdullah University of Science and Technology to PY Qian.en
dc.publisherAmerican Chemical Societyen
dc.subjectmetamorphosisen
dc.subjectpolychaetesen
dc.subjectproteomicsen
dc.subjectpseudopolydora vexillosaen
dc.subjecttranscriptomicsen
dc.titleTranscriptome and quantitative proteome analysis reveals molecular processes associated with larval metamorphosis in the polychaete pseudopolydora vexillosaen
dc.typeArticleen
dc.contributor.departmentKAUST Global Collaborative Research Programen
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.contributor.departmentIntegrative Systems Biology Laben
dc.contributor.departmentBioscience Programen
dc.contributor.departmentComputational Bioscience Research Center (CBRC)en
dc.identifier.journalJournal of Proteome Researchen
dc.contributor.institutionDepartment of Biology, Hong Kong Baptist University, Hong Kong, Hong Kongen
kaust.authorChandramouli, Kondethimmanahallien
kaust.authorRavasi, Timothyen
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