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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300025793 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0111376 | Gp0101363 | Ga0210065 |
| Sample Name | Wetland microbial communities from San Francisco Bay, California, USA, that impact long-term carbon sequestration - Muzzi_PWB_D1 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 181792879 |
| Sequencing Scaffolds | 28 |
| Novel Protein Genes | 28 |
| Associated Families | 26 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 7 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 4 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria | 1 |
| All Organisms → cellular organisms → Bacteria | 3 |
| Not Available | 7 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → unclassified Solirubrobacterales → Solirubrobacterales bacterium | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Chromobacteriaceae → Chitinilyticum → Chitinilyticum aquatile | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium | 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 → Aquatic → Marine → 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) | Unclassified |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Saline → Water (saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: San Francisco Bay, California | |||||||
| Coordinates | Lat. (o) | 37.926434 | Long. (o) | -122.509186 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001506 | Metagenome / Metatranscriptome | 681 | Y |
| F002483 | Metagenome / Metatranscriptome | 555 | Y |
| F008223 | Metagenome / Metatranscriptome | 337 | Y |
| F017764 | Metagenome / Metatranscriptome | 239 | Y |
| F018371 | Metagenome / Metatranscriptome | 235 | Y |
| F018541 | Metagenome / Metatranscriptome | 234 | Y |
| F021102 | Metagenome / Metatranscriptome | 220 | Y |
| F021303 | Metagenome / Metatranscriptome | 219 | Y |
| F024806 | Metagenome / Metatranscriptome | 204 | Y |
| F026568 | Metagenome / Metatranscriptome | 197 | Y |
| F029006 | Metagenome | 189 | Y |
| F029446 | Metagenome / Metatranscriptome | 188 | Y |
| F030933 | Metagenome / Metatranscriptome | 184 | Y |
| F035835 | Metagenome / Metatranscriptome | 171 | Y |
| F036294 | Metagenome / Metatranscriptome | 170 | Y |
| F045206 | Metagenome / Metatranscriptome | 153 | Y |
| F049002 | Metagenome / Metatranscriptome | 147 | Y |
| F051143 | Metagenome / Metatranscriptome | 144 | Y |
| F053306 | Metagenome / Metatranscriptome | 141 | Y |
| F063111 | Metagenome / Metatranscriptome | 130 | Y |
| F073180 | Metagenome / Metatranscriptome | 120 | Y |
| F074892 | Metagenome / Metatranscriptome | 119 | Y |
| F082775 | Metagenome / Metatranscriptome | 113 | Y |
| F087352 | Metagenome / Metatranscriptome | 110 | Y |
| F097365 | Metagenome / Metatranscriptome | 104 | Y |
| F105195 | Metagenome | 100 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0210065_1000002 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 145630 | Open in IMG/M |
| Ga0210065_1000131 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 21840 | Open in IMG/M |
| Ga0210065_1000435 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 11512 | Open in IMG/M |
| Ga0210065_1000828 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 7781 | Open in IMG/M |
| Ga0210065_1001112 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 6492 | Open in IMG/M |
| Ga0210065_1001603 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 5099 | Open in IMG/M |
| Ga0210065_1001834 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 4668 | Open in IMG/M |
| Ga0210065_1001840 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria | 4662 | Open in IMG/M |
| Ga0210065_1003723 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 3036 | Open in IMG/M |
| Ga0210065_1004463 | All Organisms → cellular organisms → Bacteria | 2756 | Open in IMG/M |
| Ga0210065_1006815 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria | 2180 | Open in IMG/M |
| Ga0210065_1007606 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 2059 | Open in IMG/M |
| Ga0210065_1008781 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 1910 | Open in IMG/M |
| Ga0210065_1011334 | Not Available | 1675 | Open in IMG/M |
| Ga0210065_1013058 | Not Available | 1553 | Open in IMG/M |
| Ga0210065_1013441 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → unclassified Solirubrobacterales → Solirubrobacterales bacterium | 1530 | Open in IMG/M |
| Ga0210065_1016423 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Chromobacteriaceae → Chitinilyticum → Chitinilyticum aquatile | 1381 | Open in IMG/M |
| Ga0210065_1018476 | All Organisms → cellular organisms → Bacteria | 1303 | Open in IMG/M |
| Ga0210065_1022470 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 1175 | Open in IMG/M |
| Ga0210065_1058162 | Not Available | 715 | Open in IMG/M |
| Ga0210065_1059598 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium | 706 | Open in IMG/M |
| Ga0210065_1065809 | Not Available | 670 | Open in IMG/M |
| Ga0210065_1066643 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → unclassified Solirubrobacterales → Solirubrobacterales bacterium | 666 | Open in IMG/M |
| Ga0210065_1075077 | All Organisms → cellular organisms → Bacteria | 625 | Open in IMG/M |
| Ga0210065_1075800 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium | 622 | Open in IMG/M |
| Ga0210065_1083311 | Not Available | 591 | Open in IMG/M |
| Ga0210065_1090822 | Not Available | 564 | Open in IMG/M |
| Ga0210065_1097516 | Not Available | 542 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0210065_1000002 | Ga0210065_100000255 | F051143 | MYKFAQEEGLERVATMTTLEAVAYANRLSNRLKRDDCTDEERTNALELLRQLTERVPFLKITLEQPSFCRIGSSYFDKPARSREWA |
| Ga0210065_1000131 | Ga0210065_10001312 | F008223 | MGFFNRLFGKTVRPPSPVEEVTRILERFATATSMGVDREDLARYPARQRQVMAFHFGAIEYLAREFQLDETQLLGVFVVFLDTYFIMPITETGSISERVQGFYDKPEERNYREAGADVCRRWHALNERRAPLQLGVMLQAS |
| Ga0210065_1000435 | Ga0210065_10004355 | F053306 | MKTKLLSTIASTLILSACGQPEPITYESLVWVNNYYVEHPVASLSATAGGWLFRGAREFGTEIRIGFLLPSPMNPDPAKRQAVLNTICPAKSETIWKALPEENKLVITVWTQDNKFKDSVTC |
| Ga0210065_1000828 | Ga0210065_10008284 | F018541 | MRSFWVDFPVSDEQYSKLDLRWRRRQNFYEIKNPPPPEIRIRSFCTFGGEDYRIISLEARGDIEAYHHALEIMHKWIVENLGEY |
| Ga0210065_1001112 | Ga0210065_10011124 | F097365 | MVTNSDWREMKRRAFDVFKYEGRMSVPDLEQIVNIGCADGDFDEYEKEVLINIISNLTRADMNDAMWLKIDELIHKFELHDDSEAFIEHLPEEYELPE |
| Ga0210065_1001603 | Ga0210065_10016035 | F018371 | MQEMEVHVNGPEGANRLFMHSGMADVEIRGGLPHPRWTLEVVCFEVGRTYDLSEESIIKINASAALAGGRMDGVASFAGWQIFGAAGELDNESRRVRMNIAAGARDTQAFLEQISFQVNILARVKE |
| Ga0210065_1001834 | Ga0210065_10018345 | F049002 | MAKADYDKAQTELINAIEKDAPCTFDNPIPVLVTLDNGVKYEGLAYEVQAKSDNFPDGLVMVRSGSTDIGVPVSYIRGK |
| Ga0210065_1001840 | Ga0210065_10018405 | F001506 | MNRILYESRCRCNEEFLITKKRSSSNRSEGKPLQYPKPSEITSKTFQIKYEKELSSIAKFVLNSFQNKYIYYAIDDILYLLKSNPIERDHLLAIIYSPVLSLQNNFSINFFDIWINEIYINEVPKVNKFITNDFQNFEQFSYITIKLLYKTRVPIKKQDSLW |
| Ga0210065_1003723 | Ga0210065_10037236 | F029006 | LGDPDLQYLAWLGDLKLYIVAAAIALVSMPWIAEQLDG |
| Ga0210065_1004463 | Ga0210065_10044633 | F029446 | MLILLIVATGIVVGMLPGLLKLDNLFSVTNMVVGSVGAFIGAFLGFGNAPLFLKYPLLNEVTLMVGISFLFVLVKVLLTRN |
| Ga0210065_1006815 | Ga0210065_10068152 | F021303 | VLDHSSEFVELVYRDAPAEYRRLMALERFRLELARQSRFNHGKLYAYAEFVVFRREFRERFPDASPAACINAFSSLLLKNDISVTNLVEFVEGPDHRGQRLLNEPPASGGKGNLTS |
| Ga0210065_1007606 | Ga0210065_10076063 | F030933 | MINDHQTDELRHKRAQAVKTAWILGIIALAIFATFIGSAIIGR |
| Ga0210065_1008781 | Ga0210065_10087811 | F018541 | VSTGWKNMYSPKMRSFWVDFPLTDEQYSKLDLRWRRRLNFYEVKNEPPSGIRLRSFCTFGGEDYKILSLEARGDIDAYNDTIKIMDKWINETLGEY |
| Ga0210065_1011334 | Ga0210065_10113343 | F029006 | ERIMNKVIIALMAIYFIGDPGLQYLAWLGELKVYIVAAAIALVSMPWIASQLDG |
| Ga0210065_1013058 | Ga0210065_10130583 | F024806 | MTTNSNFNFINNTTVTLELPFSEHIEELRQRIFLLFWIILLLTCVAFIEVK |
| Ga0210065_1013441 | Ga0210065_10134412 | F002483 | MLNTLPMPIGFLRRRSKKRPQRAAAPWPSSPLPPRRPPSYYLVAGVALDRELERLRALPVFAAGPLAARRPQLKVRRASKRPNKLGFAVPDEFRLQVTAYPGIGSGDILETLLHELTHLHVGRAAEAHAWHGRTFKAALAQAMREAYGVAIPPPSHTRHGIYAAAIDATASAAQSGDEG |
| Ga0210065_1016423 | Ga0210065_10164233 | F036294 | VTVMGRGSSEEAIVGVKPIANEDAATYPRVKLSESDKEVGAEGRNM |
| Ga0210065_1018476 | Ga0210065_10184761 | F063111 | MLTTSVAVVRKMLDAVAGSAPSFWSVIGTSTPVIPLATHAPVI |
| Ga0210065_1022470 | Ga0210065_10224701 | F105195 | MTVLLVWSLMDLQSPRIITPDKYVIDLLETDPTIWVNHISEENKQRVVAEVLRWETAVGAGADATEAYGYAVGGIGVDFQTWLIKENDSCSS |
| Ga0210065_1058162 | Ga0210065_10581622 | F073180 | MKKEFTQLQLTRLVYGETTKAESDMLLELAATVPQIANTLETLKMGKETLGKDRFTPSDKVINFLLGYSASSAPVSAS |
| Ga0210065_1059598 | Ga0210065_10595982 | F026568 | MHKPTPYKEICDPFFHYTRGVLYFDEECFRFTAYRVPYMELDSKTWETEQAFTADYRRM |
| Ga0210065_1065809 | Ga0210065_10658091 | F074892 | IMTAMTSKYVSIVLLGLLLSSCAERGENVYKSWVGPDRPNMAIVTLRLGDDVRDITVRERVLPRSEYGTLLLVPGQYTLYEDDGASIGITIRPVLMNTEKARASGELILGHTYTLRAGKSKDGGERALWIEDARSGEVFIDTR |
| Ga0210065_1066643 | Ga0210065_10666431 | F021102 | VRREAPIRRRNPSGEMVWLARYTGRDGKRRVAKPSWNRGKGTFRRKGEAQRAIDEAYGLSDSPDTLGDYFATWTERHPRSERTNATNEHRISRATEVEIEGIALKDWPMRELRRRHALAVVDHLLRVQSRATTGVVGILRSLSAMAEDAISDEVCDLNPFKGMRIRANDPRAKKKPRPIRVFSFEQ |
| Ga0210065_1075077 | Ga0210065_10750772 | F017764 | VSVTLTVNLDADILQSAEQEARARHTTLPELVSQQLRLMARNWQDSNAGKTPVTDALRGAVELPVDFNERDALTAELENRHGVRE |
| Ga0210065_1075800 | Ga0210065_10758001 | F045206 | QLDERRIVEAIVRGPGLSKSGRSAFGAAMPTAASLEEPS |
| Ga0210065_1083311 | Ga0210065_10833112 | F082775 | MSEPDILYPAIFVFSMLLTGLLLTMWEFSRLQKRQQQKTDRDEPVSDPGFRASRGNVRKVSNF |
| Ga0210065_1090822 | Ga0210065_10908222 | F087352 | MYHPNEVIEDIRERLDRMVLDFKALLEENKQLETENKSLAHSLEEALNKQEILSKRLDTISQETLRDTKGITHWKTETRKEIRSIMKEVEKCIPQAESLLEK |
| Ga0210065_1097516 | Ga0210065_10975162 | F035835 | PIWRRTSRKKFIESVRRRDTNPKTGRAWFVVDCVDCGRVMGIGEKERRPLAKGGMSKKARSVFEIDHVEGITPLTDIKETLGQHFYELLYGRQEVVCYACHKHRTAKQVAERKENKSK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |