| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300026056 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0111376 | Gp0116126 | Ga0208782 |
| Sample Name | Natural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - WestPond_TuleC_D1 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 40161979 |
| Sequencing Scaffolds | 7 |
| Novel Protein Genes | 7 |
| Associated Families | 7 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 3 |
| All Organisms → cellular organisms → Bacteria → FCB group | 2 |
| All Organisms → cellular organisms → Archaea | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium PtaB.Bin038 | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Wetlands → Unclassified → Natural And Restored Wetlands → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | terrestrial biome → wetland area → soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Saline → Water (saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Twitchell Island, San Francisco Bay, California | |||||||
| Coordinates | Lat. (o) | 38.107521 | Long. (o) | -121.649681 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F018557 | Metagenome / Metatranscriptome | 234 | Y |
| F034114 | Metagenome / Metatranscriptome | 175 | Y |
| F052017 | Metagenome / Metatranscriptome | 143 | N |
| F052687 | Metagenome | 142 | Y |
| F064862 | Metagenome / Metatranscriptome | 128 | Y |
| F074658 | Metagenome / Metatranscriptome | 119 | Y |
| F076224 | Metagenome | 118 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0208782_1000088 | Not Available | 3256 | Open in IMG/M |
| Ga0208782_1000104 | Not Available | 3043 | Open in IMG/M |
| Ga0208782_1001439 | All Organisms → cellular organisms → Bacteria → FCB group | 1094 | Open in IMG/M |
| Ga0208782_1004098 | Not Available | 774 | Open in IMG/M |
| Ga0208782_1004248 | All Organisms → cellular organisms → Archaea | 764 | Open in IMG/M |
| Ga0208782_1009955 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium PtaB.Bin038 | 573 | Open in IMG/M |
| Ga0208782_1012631 | All Organisms → cellular organisms → Bacteria → FCB group | 528 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0208782_1000088 | Ga0208782_10000886 | F064862 | GSAFEYARGRQALSCGVVAAATGSFFTLQAGADIIVEESAPMVLTTMPIVPDHMYYNDIMEPFDRLRLSVRNPTAGAIIHRAIALLTPV |
| Ga0208782_1000104 | Ga0208782_10001045 | F034114 | MPMIMVETSVAAGASNPNLYTGSAFEFARARGVVSIGVAQSATGGFCTLQAGADIIAEEFSLPILTRFPIIPDEMYFTDVVEQGDRLVARVRNPTGGALTFRSVVQMSAGG |
| Ga0208782_1001439 | Ga0208782_10014392 | F052687 | MIRFLTIIIILTALGGGIYYLLSMETVEDVKVTGKLQISQQFGSYVMASQKDDAPYYAVVEGKIKNNLGKPIKNVFIKYMIAGQETSATVFDLAPGQEINFNTSGVATSASNPEYDFVGLYYD |
| Ga0208782_1004098 | Ga0208782_10040981 | F074658 | LLQPGLFYLRIQKSMREEFNLLIKSCATRTVPAAKTKSIGLQADARVVMVFASPLRQFYRDMTNPAHLSGPRHLDNFIVTNKSCPLTGTMQKRMPTLTLTATH |
| Ga0208782_1004248 | Ga0208782_10042482 | F018557 | MTELKNGRPIFFPENLVLFGNLALFLWIVLDSVAFMLYNFTTGIVFFILTLILIYGVLHLLGCLRPCYNCIKCTHGMGRLAALYFGRRIFKDYKYNYKLPTAIFFTLYIGGFPAAFALYSTIVDFSAIKAAVFVALLVFTTYGALTWRPRKPKN |
| Ga0208782_1009955 | Ga0208782_10099551 | F052017 | KDDVERFEGELGKLMVMKKALELALINPAIKDGQKQSYSQALLQCERTLREFRGALIAMRVGLARWAAKERIGQAA |
| Ga0208782_1012631 | Ga0208782_10126311 | F076224 | KLAEKELKWAEREIRKNEEKIREYTINFKFDSTFINYAGTGSKHSFKVMVDSNICRVDIPDFKLPDQEIPEIAAINPLIEQATNNIHFYAYKIPKIEKSKSEIKIEYYNDDSVYSYVVNYNQLNIDSLVQANSGTDLYNLEKFKPLKPSDDTMLIKYQFNKDYYNRYYSDDEFKQQ |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |