Transcriptome and proteome analysis of Pinctada margaritifera calcifying mantle and shell: focus on biomineralization

Autor: David Piquemal, Caroline Joubert, Laurent Manchon, Benjamin Marie, Fabien Pierrat, Yannick Gueguen, Isabelle Zanella-Cléon, Caroline Montagnani, Nathalie Cochennec-Laureau
Přispěvatelé: Laboratoire de Biotechnologie et de Qualité de la Perle (LBQP), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Skuldtech. Cap Delta - ZAC Euromedecine II. 1682, rue de la Valsière, Molécules de Communication et Adaptation des Micro-Organismes (MCAM), Muséum national d'Histoire naturelle (MNHN)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Institut de Génétique Moléculaire de Montpellier (IGMM), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Skuld-Tech, biotechnology company (Skuld-Tech), Skuld-Tech, Institut de biologie et chimie des protéines [Lyon] (IBCP), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS), Ecosystèmes Insulaires Océaniens (UMR 241) (EIO), Université de la Polynésie Française (UPF)-Institut Louis Malardé [Papeete] (ILM), Institut de Recherche pour le Développement (IRD)-Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Centre Océanologique du Pacifique (COP), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS), Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de la Polynésie Française (UPF)-Institut Louis Malardé [Papeete] (ILM), Institut de Recherche pour le Développement (IRD), Skuldtech, Biogéosciences [UMR 6282] [Dijon] (BGS), Centre National de la Recherche Scientifique (CNRS)-Université de Bourgogne (UB)-AgroSup Dijon - Institut National Supérieur des Sciences Agronomiques, de l'Alimentation et de l'Environnement, Institut Français de Recherche pour l'Exploitation de la Mer - Atlantique (IFREMER Atlantique), Study supported by the 'Service de la perliculture' of French Polynesia, Ifremer, Skuldtech and University of French Polynesia., Laboratoire de Biotechnologie et de Qualité de la Perle ( LBQP ), Institut Français de Recherche pour l'Exploitation de la Mer ( IFREMER ), Biogéosciences [Dijon] ( BGS ), AgroSup Dijon - Institut National Supérieur des Sciences Agronomiques, de l'Alimentation et de l'Environnement-Université de Bourgogne ( UB ) -Centre National de la Recherche Scientifique ( CNRS ), Institut de biologie et chimie des protéines [Lyon] ( IBCP ), Université Claude Bernard Lyon 1 ( UCBL ), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique ( CNRS ), Institut Français de Recherche pour l'Exploitation de la Mer - Nantes ( IFREMER Nantes ), Université de Nantes ( UN )
Jazyk: angličtina
Rok vydání: 2010
Předmět:
0106 biological sciences
Models
Molecular
Proteomics
Proteome
[SDV]Life Sciences [q-bio]
01 natural sciences
Contig Mapping
Mantle (mollusc)
Margaritifera
In Situ Hybridization
Genetics
Expressed Sequence Tags
0303 health sciences
Minerals
biology
Pinctada margaritifera
[ SDV.BBM.GTP ] Life Sciences [q-bio]/Biochemistry
Molecular Biology/Genomics [q-bio.GN]
Biotechnology
Research Article
lcsh:QH426-470
Sequence analysis
lcsh:Biotechnology
Molecular Sequence Data
010603 evolutionary biology
03 medical and health sciences
Calcification
Physiologic
lcsh:TP248.13-248.65
[SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry
Molecular Biology/Genomics [q-bio.GN]
Animals
[SDV.BBM]Life Sciences [q-bio]/Biochemistry
Molecular Biology
Amino Acid Sequence
Pinctada
RNA
Messenger
[SDV.IB.BIO]Life Sciences [q-bio]/Bioengineering/Biomaterials
030304 developmental biology
Base Sequence
Sequence Homology
Amino Acid
Gene Expression Profiling
Animal Structures
Molecular Sequence Annotation
Sequence Analysis
DNA
biology.organism_classification
[ SDV.IB.BIO ] Life Sciences [q-bio]/Bioengineering/Biomaterials
lcsh:Genetics
Gene Expression Regulation
Evolutionary biology
Biomineralization
Zdroj: Bmc Genomics (1471-2164) (Biomed Central Ltd), 2010-11, Vol. 11, P. 1-13
BMC Genomics
BMC Genomics, BioMed Central, 2010, 11 (1), ⟨10.1186/1471-2164-11-613⟩
BMC Genomics, 2010, 11 (1), ⟨10.1186/1471-2164-11-613⟩
BMC Genomics, BioMed Central, 2010, 11, pp.613. ⟨10.1186/1471-2164-11-613⟩
BMC Genomics, BioMed Central, 2010, 11, pp.613. 〈10.1186/1471-2164-11-613〉
BMC Genomics, Vol 11, Iss 1, p 613 (2010)
ISSN: 1471-2164
Popis: Background The shell of the pearl-producing bivalve Pinctada margaritifera is composed of an organic cell-free matrix that plays a key role in the dynamic process of biologically-controlled biomineralization. In order to increase genomic resources and identify shell matrix proteins implicated in biomineralization in P. margaritifera, high-throughput Expressed Sequence Tag (EST) pyrosequencing was undertaken on the calcifying mantle, combined with a proteomic analysis of the shell. Results We report the functional analysis of 276 738 sequences, leading to the constitution of an unprecedented catalog of 82 P. margaritifera biomineralization-related mantle protein sequences. Components of the current "chitin-silk fibroin gel-acidic macromolecule" model of biomineralization processes were found, in particular a homolog of a biomineralization protein (Pif-177) recently discovered in P. fucata. Among these sequences, we could show the localization of two other biomineralization protein transcripts, pmarg-aspein and pmarg-pearlin, in two distinct areas of the outer mantle epithelium, suggesting their implication in calcite and aragonite formation. Finally, by combining the EST approach with a proteomic mass spectrometry analysis of proteins isolated from the P. margaritifera shell organic matrix, we demonstrated the presence of 30 sequences containing almost all of the shell proteins that have been previously described from shell matrix protein analyses of the Pinctada genus. The integration of these two methods allowed the global composition of biomineralizing tissue and calcified structures to be examined in tandem for the first time. Conclusions This EST study made on the calcifying tissue of P. margaritifera is the first description of pyrosequencing on a pearl-producing bivalve species. Our results provide direct evidence that our EST data set covers most of the diversity of the matrix protein of P. margaritifera shell, but also that the mantle transcripts encode proteins present in P. margaritifera shell, hence demonstrating their implication in shell formation. Combining transcriptomic and proteomic approaches is therefore a powerful way to identify proteins involved in biomineralization. Data generated in this study supply the most comprehensive list of biomineralization-related sequences presently available among protostomian species, and represent a major breakthrough in the field of molluskan biomineralization.
Databáze: OpenAIRE
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