This project will rely on samples collected during the scientific expedition Tara-Oceans (2009-2012). By March 2012, the schooner Tara, equipped with innovative systems for sampling of 11 organismal size-ranges covering entire planktonic communities from viruses to animals, has collected standardized genetic (total DNA/RNA), morphological, and physico-chemical (contextual) samples from 153 sites across the world oceans, locations carefully selected with input from near-real-time remote sensing and in-situ hydrographic criteria. Overall, a total of ~50,000 biological samples and ~13,000 contextual measures from 3 depths will be analysed. The metagenomics component of the project consists of size fractionated plankton samples that are submitted to barcoding and shotgun sequencing, as well as isolated single-cell amplified protists and single-organisms isolated metazoans that are sequenced as reference genomes.
| Accession | PRJEB402 |
| Type | Umbrella project |
| Publications (total 3) Less... | - Guidi L et al., "Plankton networks driving carbon export in the oligotrophic ocean.", Nature, 2016 Apr 28;532(7600):465-470
More...- Guidi L et al., "Plankton networks driving carbon export in the oligotrophic ocean.", Nature, 2016 Apr 28;532(7600):465-470
- Sunagawa S et al., "Ocean plankton. Structure and function of the global ocean microbiome.", Science, 2015 May 22;348(6237):1261359
- de Vargas C et al., "Ocean plankton. Eukaryotic plankton diversity in the sunlit ocean.", Science, 2015 May 22;348(6237):1261605
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| Submission | Registration date: 23-Aug-2012
Genoscope CEA |
Project Data:
| Resource Name | Number
of Links |
|---|
| Sequence data |
| Nucleotide (total) | 57246 |
| WGS master | 249 |
| Genomic DNA | 23388 |
| SRA Experiments | 5249 |
| Protein Sequences | 22857 |
| Publications |
| PubMed | 4 |
| PMC | 1 |
| Other datasets |
| BioSample | 1900 |
| Assembly | 636 |
This project encompasses the following 29 sub-projects:
| Project Type | Number of Projects |
Genome sequencingHighest level of assembly : Scaffolds Contigs Total |
1
2
3
|
BioProject
accession | Assembly
level | Name | Title |
|---|
| PRJEB6603 | Scaffolds | BCB | Shotgun Sequencing of Single Cell Whole Genome Amplification from Tara Oceans samples corresponding to size fractions for protist (Genoscope) | | PRJEB7988 | Contigs | Ocean Microbiome | Tara Oceans Ocean Microbiome project (EMBL HEIDELBERG) | | PRJNA326480 | Contigs | marine metagenome | Metagenomic co-assemblies from marine systems (University of Chicago) |
|
| Other | 22 |
BioProject
accession | Name | Title |
|---|
| PRJEB4352 | AHX | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for protist (Genoscope) | | PRJEB4422 | ALP | Shotgun Sequencing of Single Cell Whole Genome Amplification from Tara Oceans samples corresponding to size fractions for protist (Genoscope) | | PRJEB1788 | ANB | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for large DNA viruses (Genoscope) | | PRJEB6604 | APE | Whole genome Sequencing from protist culture. (Genoscope) | | PRJEB4419 | APX | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for small DNA viruses. (Genoscope) |
List all 22 'Other' projects...BioProject
accession | Name | Title |
|---|
| PRJEB4352 | AHX | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for protist (Genoscope) | | PRJEB4422 | ALP | Shotgun Sequencing of Single Cell Whole Genome Amplification from Tara Oceans samples corresponding to size fractions for protist (Genoscope) | | PRJEB1788 | ANB | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for large DNA viruses (Genoscope) | | PRJEB6604 | APE | Whole genome Sequencing from protist culture. (Genoscope) | | PRJEB4419 | APX | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for small DNA viruses. (Genoscope) | | PRJEB1787 | APY | Shotgun Sequencing of Tara Oceans DNA samples corresponding to size fractions for prokaryotes. (Genoscope) | | PRJEB6605 | ARC | Metatranscriptome sequencing from samples corresponding to size fractions for protists. (Genoscope) | | PRJEB6609 | ARD_2 | Metatranscriptome sequencing from samples corresponding to size fractions for protists. (Genoscope) | | PRJEB6610 | ARG | Amplicon sequencing of Tara Oceans DNA samples corresponding to size fractions for protists. (Genoscope) | | PRJEB7315 | ARH | Amplicon sequencing of Tara Oceans RNA samples corresponding to size fractions for protists. (Genoscope) | | PRJEB4357 | ARI | Amplicon sequencing of Tara Oceans DNA samples corresponding to size fractions for prokaryotes or protists. (Genoscope) | | PRJEB6606 | AUZ | Amplicon sequencing of Tara Oceans DNA samples corresponding to size fractions for large DNA viruses. (Genoscope) | | PRJEB6607 | AZA | Metatranscriptome sequencing of Tara Oceans DNA samples corresponding to size fractions for prokaryotes. (Genoscope) | | PRJEB6608 | BEZ | Metatranscriptome sequencing of Tara Oceans DNA samples corresponding to size fractions for prokaryotes. (Genoscope) | | PRJEB9691 | BHN - Shotgun Sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for protists. | Shotgun Sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for protists. (Genoscope) | | PRJEB9737 | BHQ. Amplicon sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for protists. | Amplicon sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for protists. (Genoscope) | | PRJEB9740 | BMI. Shotgun Sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for prokaryotes. | Shotgun Sequencing of Tara Oceans Polar Cicle DNA samples corresponding to size fractions for prokaryotes. (Genoscope) | | PRJEB9742 | BNA. Shotgun Sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for small DNA viruses. | Shotgun Sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for small DNA viruses. (Genoscope) | | PRJEB36284 | BTP | Amplicon sequencing of Tara Oceans DNA samples corresponding to size fractions for protists. (Genoscope) | | PRJEB36285 | BTQ | Amplicon sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for protists. (Genoscope) | | PRJEB36282 | BTR_BTS | Amplicon sequencing of Tara Oceans DNA samples corresponding to size fractions for prokaryotes. (Genoscope) | | PRJEB36283 | BTT | Amplicon sequencing of Tara Oceans Polar Circle DNA samples corresponding to size fractions for prokaryotes. (Genoscope) |
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| Transcriptome or Gene expression | 3 |
BioProject
accession | Name | Title |
|---|
| PRJEB9738 | BII. Metatranscriptome sequencing from Tara Oceans Polar Circle samples corresponding to size fractions for protists. | Metatranscriptome sequencing from Tara Oceans Polar Circle samples corresponding to size fractions for protists. (Genoscope) | | PRJEB9739 | BIK. Metatranscriptome sequencing from Tara Oceans Polar Circle samples corresponding to size fractions for protists. | Metatranscriptome sequencing from Tara Oceans Polar Circle samples corresponding to size fractions for protists. (Genoscope) | | PRJEB9741 | BMR. Metatranscriptome sequencing from Tara Oceans Polar Circle RNA samples corresponding to size fractions for prokaryotes. | Metatranscriptome sequencing from Tara Oceans Polar Circle RNA samples corresponding to size fractions for prokaryotes. (Genoscope) |
|
| metagenomic assembly | 1 |
|