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Data released on July 11, 2017

Supporting data for “The pearl oyster Pinctada fucata martensii genome and multi-omic analyses provide insights into biomineralization”

Bian, C; Deng, Y; Du, X; Fan, G; Guo, X; Hao, R; Huang, R; Jiao, Y; Liang, H; Liang, X; Shi, C; Sun, F; Wang, Q; Wang, Z; Zhang, H; Zhao, X; Zheng, Z; Bai, J; Liu, J; Chen, W; Liang, J; Liu, W; Xu, Z; Shi, Q; Xu, X; Zhang, G; Liu, X (2017): Supporting data for “The pearl oyster Pinctada fucata martensii genome and multi-omic analyses provide insights into biomineralization” GigaScience. http://dx.doi.org/10.5524/100240 RIS BibTeX Text

Nacre, the iridescent material found in pearls and shells of molluscs, is formed through an extraordinary process of matrix-assisted biomineralization. Despite recent advances, many parts of the biomineralization process and its evolutionary origin remain a mystery. The pearl oyster Pinctada fucata martensii is a well-known master of biomineralization, but the molecular mechanisms underlie its production of remarkable shells and pearls is not fully understood. We sequenced the highly polymorphic genome of the pearl oyster and conducted multi-omic and biochemical studies to probe nacre formation. We identified a large set of novel proteins participating in matrix-framework formation, many in expanded families, including components similar to that found in vertebrate bones such as collagen-related VWA-containing proteins (VWAP), fibronectin, chondroitin sulfotransferases and regulatory elements. Considering that there are only collagen-based matrices in vertebrate bones and chitin-based matrices in most invertebrate skeletons, the presence of both chitin and elements of collagen-based matrices in nacre matrices suggests that elements of chitin- and collagen-based matrices are deeply rooted and might be part of an ancient biomineralizing matrix. Our results expand the current shell matrix-framework model and provide new insights into the evolution of diverse biomineralization systems.

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Related manuscripts:

doi:10.1093/gigascience/gix059

JBrowse:

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Accessions (data included in GigaDB):

BioProject: PRJNA283019
PRIDE: PXD006786

Genomic, Transcriptomic, Imaging

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Funding:

  • Funding body - National Natural Science Foundation of China
  • Award ID - 31272635
  • Awardee - X Du
  • Funding body - National Natural Science Foundation of China
  • Award ID - 31372526
  • Awardee - Y Deng
  • Funding body - National Natural Science Foundation of China
  • Award ID - 31672626
  • Awardee - Y Jiao
  • Funding body - Modern Agro-industry Technology Research System
  • Award ID - CARS-48
  • Awardee - X Du

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
EU206411  Pinctada fucata martensii Description:RNA extracted from fertilised eggs, at...
Analyte type:RNA
Alternative accession-SRA_sample:SAMN07276832
...
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F206411  Pinctada fucata martensii Description:RNA extracted from adult foot tissue
Analyte type:RNA
Alternative accession-SRA_sample:SAMN07276843
...
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Fe206411  Pinctada fucata martensii Description:RNA extracted from fertilised eggs, 30...
Analyte type:RNA
Alternative accession-SRA_sample:SAMN07276825
...
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G206411  Pinctada fucata martensii Description:RNA extracted from fertilised eggs, at...
Analyte type:RNA
Alternative accession-SRA_sample:SAMN07276827
...
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GENOMIC DNA sample206411  Pinctada fucata martensii Description:DNA extracted from adult adductor mus...
Analyte type:DNA
Alternative accession-SRA_sample:SAMN03603317
...
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Gi206411  Pinctada fucata martensii Description:RNA extracted from adult gill tissue
Analyte type:RNA
Alternative accession-SRA_sample:SAMN07276842
...
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Go206411  Pinctada fucata martensii Description:RNA extracted from adult gonad tissu...
Analyte type:RNA
Alternative accession-SRA_sample:SAMN07276841
...
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He206411  Pinctada fucata martensii Description:RNA extracted from adult hepatopancre...
Analyte type:RNA
Alternative accession-SRA_sample:SAMN07276839
...
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J206411  Pinctada fucata martensii Description:RNA extracted from fertilised eggs, at...
Analyte type:RNA
Alternative accession-SRA_sample:SAMN07276835
...
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ME206411  Pinctada fucata martensii Description:RNA extracted from adult mantle edge ...
Analyte type:RNA
Alternative accession-SRA_sample:SAMN07276838
...
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Displaying 11-20 of 24 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
OtherRAW872.03 MB2017-07-11
OtherRAW632.64 MB2017-07-11
OtherRAW648.96 MB2017-07-11
OtherRAW587.3 MB2017-07-11
OtherRAW664.34 MB2017-07-11
OtherRAW650.75 MB2017-07-11
OtherRAW620.14 MB2017-07-11
OtherRAW606.68 MB2017-07-11
OtherRAW621.49 MB2017-07-11
OtherRAW545.18 MB2017-07-11
Displaying 1-10 of 123 File(s).

History:

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