Shell DNA
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB20113 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR1894870.fastq.gz | Fastqsanger.gz | |||
| ERR1894880.fastq.gz | Fastqsanger.gz | |||
| ERR1894890.fastq.gz | Fastqsanger.gz | |||
| ERR1894900.fastq.gz | Fastqsanger.gz | |||
| ERR1894910.fastq.gz | Fastqsanger.gz |
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Project description:Advancing responsible genomic Analyses of ancient mollusc shells
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Project description:In this project we have applied palaeoproteomics to study archaeological shell beads dating back to the beginning of the 7th mill. cal BCE and recovered from a prehistoric site in Jordan (Ba'ja). These beads were made of mollusc shells and were of unknown origin, but suspected to be made of larger bivalves such as Tridacna or Spondylus sp. The aim of the study was to analyse ancient proteins extracted from these beads in order to infer their biological origin. Tiny amounts of ancient samples were used and the extracted proteins were analysed by high resolution liquid chromatography coupled with tandem mass spectrometry (HPLC-MS/MS). In order to identify obtained peptides, we have created an ‘in-house’ molluscan protein database, by gathering molluscan sequences (proteins and transcriptomes), which were downloaded from publicly available databases in NCBI. Searching against this comprehensive database, we were able to identify a number of shell proteins from Tridacna sp., the giant clam shells. Our study reports the oldest molluscan protein sequences ever recovered that come from a very warm environment.
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Project description:Unveiling the Ecological Applications of Ancient DNA from Mollusk Shells
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Project description: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), 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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Project description:Palaeoproteomics analysis of mollusc shells (Modiolus modiolus, Ostrea edulis, Unio pictorum, Margaritifera margaritifera, Unio crassus, Pseudunio auricularius) and shell ornaments (double-buttons) from Neolithic European sites (Havnø, Hornstaad-Hörnle IA, Peştera Ungurească).
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Project description:Shell matrix proteins (SMPs) were extracted from A. amphitrite shells，and further redissolved in 8 M urea. A timsTOF Pro mass spectrometer (Bruker) was coupled to nanoElute (Bruker Daltonics) to perform LC-MS/MS analysis.
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