| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300002172 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0095509 | Gp0056885 | Ga0004715 |
| Sample Name | Bioremediated contaminated groundwater from EPA Superfund site, New Mexico - Sample SAE3-47 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | Y |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 244212906 |
| Sequencing Scaffolds | 13 |
| Novel Protein Genes | 14 |
| Associated Families | 8 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula | 1 |
| All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon | 5 |
| Not Available | 4 |
| All Organisms → cellular organisms → Bacteria → PVC group → Candidatus Omnitrophica → Candidatus Velamenicoccus → Candidatus Velamenicoccus archaeovorus | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia → Escherichia coli | 1 |
| All Organisms → cellular organisms → Bacteria | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Bioremediated Contaminated Groundwater Microbial Communities From North Railroad Avenue Plume (Nrap), New Mexico |
| Type | Engineered |
| Taxonomy | Engineered → Bioremediation → Tetrachloroethylene And Derivatives → Tetrachloroethylene → Unclassified → Bioremediated Contaminated Groundwater → Bioremediated Contaminated Groundwater Microbial Communities From North Railroad Avenue Plume (Nrap), New Mexico |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | Unclassified |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Subsurface (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Espanola, New Mexico, United States | |||||||
| Coordinates | Lat. (o) | 35.992 | Long. (o) | -106.0797 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000926 | Metagenome / Metatranscriptome | 832 | Y |
| F038519 | Metagenome | 165 | Y |
| F060548 | Metagenome | 132 | Y |
| F069433 | Metagenome / Metatranscriptome | 124 | N |
| F080820 | Metagenome / Metatranscriptome | 114 | Y |
| F089576 | Metagenome | 109 | Y |
| F094797 | Metagenome | 105 | N |
| F105254 | Metagenome / Metatranscriptome | 100 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| JGI24730J26740_1000077 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula | 92324 | Open in IMG/M |
| JGI24730J26740_1005921 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon | 3710 | Open in IMG/M |
| JGI24730J26740_1011480 | Not Available | 2204 | Open in IMG/M |
| JGI24730J26740_1017916 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon | 1573 | Open in IMG/M |
| JGI24730J26740_1036520 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon | 921 | Open in IMG/M |
| JGI24730J26740_1038248 | All Organisms → cellular organisms → Bacteria → PVC group → Candidatus Omnitrophica → Candidatus Velamenicoccus → Candidatus Velamenicoccus archaeovorus | 891 | Open in IMG/M |
| JGI24730J26740_1041455 | Not Available | 840 | Open in IMG/M |
| JGI24730J26740_1044124 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia → Escherichia coli | 804 | Open in IMG/M |
| JGI24730J26740_1053721 | Not Available | 703 | Open in IMG/M |
| JGI24730J26740_1061499 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon | 645 | Open in IMG/M |
| JGI24730J26740_1063318 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon | 633 | Open in IMG/M |
| JGI24730J26740_1072678 | All Organisms → cellular organisms → Bacteria | 582 | Open in IMG/M |
| JGI24730J26740_1075723 | Not Available | 568 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| JGI24730J26740_1000077 | JGI24730J26740_100007734 | F089576 | MFGLPDITILVFGGVTVVAIVALLYWGLTFKGHD* |
| JGI24730J26740_1005921 | JGI24730J26740_10059216 | F038519 | MKMYGISTDLGDDWAGPYVDQELLQKTFAIIQKVDPNAEIVSKETDPFSEQILAGLQPFRIHVDLVDGMPQLPAEVSITWPPGEMEGIQVGNLEYREYFVWAESEKAALRKLATLNKAVQSYSPKAAVAEEL* |
| JGI24730J26740_1011480 | JGI24730J26740_10114803 | F094797 | VSDSEAIEDLADPIDSDPETYLATPSEAKALSRDRGFETIWKGGILKGCHLVLKLQVSFNAKGRLLYNGRTYNRDSWTWRPPKFIRQQGREAKEEPNSRNNHPEIYLTTLNGQELKLDACPCGGELVKDRCECLYCRDCGMVYSHF* |
| JGI24730J26740_1017916 | JGI24730J26740_10179163 | F094797 | VSGSEDLEDIMDPGGLPDPETFFPTPSEARALSKDKGFXTIWKGGILTGCHLVLKLQISFNAKGRLLYNGKPYSRGIWGWRPPKFIRLQGREAKEEPNSRNSHPEIYLTTLNGEELKLDACPCGGELVKDSCECLYCRDCGEVYSHY* |
| JGI24730J26740_1036520 | JGI24730J26740_10365201 | F038519 | TDEELLKKTLAIISQIEPNAEIIGQECNPFSKQILAELLPFRIHVDLVDGMPQLPADVTLTWPPSETEGIQFGNLECREYFVWAESEKAALRKLATLNRAAPNYNPKAAAMCEE* |
| JGI24730J26740_1038248 | JGI24730J26740_10382481 | F069433 | SSNTPAWTDPVLTDLSSKVRKVHIDELRSFLNTEFARRGLTQASFTDPTITALVTEIRKVHVDQLRTELAACKSGRGESGYCPQDSSGCMDFTDPTITALSTEVRGIHFRQMMQKVQALMTGCICETEQCQYCADCGYHYTTCSHAGVACDDHKYSECHHSINHYWICASINLPSVTEHPYKSASGNPLSTVAWDGYVPWDWCVYTPPGSNWGTCEYSGGHNHSAWNCKCNPYSW* |
| JGI24730J26740_1041083 | JGI24730J26740_10410832 | F105254 | LYGPAGTKHSLAGIVGRFCTQDGIPGLNNPCKVPPTGIYHSFWVTDCLGITGDFQQVRDIYIHGDEGFAEDWGLDSANGGGLFVGKRDTGDNGLPIDVTLHGSNQYAQAGGSVGTDGFAIDNVVNGHPYYRSQSTKKINFDTCTADAPLLIDSGPYTDDFYSKAWCLQLWTVPTSAYGPKSPKAVIVTYNIF* |
| JGI24730J26740_1041455 | JGI24730J26740_10414553 | F060548 | MSTVTNRPRQRKVTDFVDMQVFTLIKHHASEELCIDDFVAAAIKEMPGFEWKDDKIRHSVNRLEKRGRLASKYVVRS |
| JGI24730J26740_1044124 | JGI24730J26740_10441241 | F080820 | MDGKQKDARCERWLTRAAAAYERMFGGRSEEELVTLTEREDMAVCLGKELAAFLLEEHVAADAAKAPVEASLACCPKCGQPGKPAPQKAGKRGVNLAERKVRTRAGEIDIRRERWKCARCRVXFFSARRSPEVGHGGV* |
| JGI24730J26740_1053721 | JGI24730J26740_10537211 | F038519 | ESLKENSASNPGPRSPIKMYGIATDQGDDWAGPYVDLELLKKTLAIIQKVDPNAEIVSKETDPFSEQVLAGLQPFRIHVDLVDGMPQLPADVQITWPPGEMEGIRVGNLEYREYFVWAESEKAALRKLATLNKAVQSYSPKAAAAEEL* |
| JGI24730J26740_1061499 | JGI24730J26740_10614991 | F038519 | MKMSAIDYAAGEDAAGPYTDEVLLQKTLEIIRQIDPNAEIISRECNPFSEQILAGLLPYRIHVDLVDGMPQLPADVQITWPPGEMEGIQVGNLEFREYFVWAESEKAALRKLATLNKVVQ |
| JGI24730J26740_1063318 | JGI24730J26740_10633182 | F094797 | VSDSEALEDLVDPIDSDPETYFATPSEAKALSRDRGFETIWKGGILKECHLVLKLQVSFNAKGRLLYNGKTYNRDSWTWXPPKFIRLQGREAKEEHNSRNNHPEIYLTTLNGEELKLDACPCGGELVKDRCECLYCKDCGMVYNHHQ* |
| JGI24730J26740_1072678 | JGI24730J26740_10726781 | F000926 | MGWFQAQVPDGFTVQQLEGLVRTAVFKSANAIVGFLLQAAADRIDAAYQPKPGEVRKGRVSIKVQCIFGTFTMQRDYYYHPGKKCGYYPADAGLGLENGFTPALNKLVCLEGADEICYQKAEAHLQETAGIT |
| JGI24730J26740_1075723 | JGI24730J26740_10757231 | F060548 | HREVAGEGMKPNPGIFIANRPRRNSATDFVDMQVSTLISDHASKKPCIEDLVQIAKKEMPNFDWTNDKIRHAVERLEKRGRLASKYAIRGKRLCRVPYPI* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |