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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 | 3300019861 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0129311 | Gp0220779 | Ga0206388 |
| Sample Name | Lab enriched sediment microbial communities from oil refinery in Oklahoma, USA - DGG1A 1 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | University of Toronto |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 256333046 |
| Sequencing Scaffolds | 34 |
| Novel Protein Genes | 36 |
| Associated Families | 28 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Archaea | 3 |
| Not Available | 9 |
| All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 1 |
| All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix | 3 |
| All Organisms → cellular organisms → Bacteria | 4 |
| All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → Methanothrix soehngenii | 3 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfatitalea → Desulfatitalea tepidiphila | 1 |
| All Organisms → cellular organisms → Archaea → Euryarchaeota | 1 |
| All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Smithella → unclassified Smithella → Smithella sp. F21 | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium | 1 |
| All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales | 1 |
| All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula | 1 |
| All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 → candidate division WOR-3 bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → Bryobacter → Bryobacter aggregatus | 1 |
| All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Metagenomes From Methanogenic Benzene-Degrading Culture |
| Type | Engineered |
| Taxonomy | Engineered → Lab Enrichment → Defined Media → Unclassified → Unclassified → Anaerobic Enrichment Culture → Metagenomes From Methanogenic Benzene-Degrading Culture |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | Unclassified |
| Earth Microbiome Project Ontology (EMPO) | na → na → na |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Oklahoma | |||||||
| Coordinates | Lat. (o) | 36.0 | Long. (o) | -97.0 | Alt. (m) | N/A | Depth (m) | N/A | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001564 | Metagenome / Metatranscriptome | 670 | Y |
| F006161 | Metagenome / Metatranscriptome | 380 | Y |
| F010068 | Metagenome / Metatranscriptome | 309 | Y |
| F012083 | Metagenome / Metatranscriptome | 284 | Y |
| F026449 | Metagenome / Metatranscriptome | 198 | Y |
| F040697 | Metagenome / Metatranscriptome | 161 | Y |
| F048134 | Metagenome / Metatranscriptome | 148 | Y |
| F048390 | Metagenome / Metatranscriptome | 148 | Y |
| F050777 | Metagenome / Metatranscriptome | 145 | N |
| F053838 | Metagenome / Metatranscriptome | 140 | Y |
| F054136 | Metagenome | 140 | Y |
| F059711 | Metagenome | 133 | Y |
| F064732 | Metagenome / Metatranscriptome | 128 | Y |
| F064746 | Metagenome / Metatranscriptome | 128 | N |
| F069913 | Metagenome / Metatranscriptome | 123 | Y |
| F073228 | Metagenome / Metatranscriptome | 120 | N |
| F074841 | Metagenome / Metatranscriptome | 119 | Y |
| F084900 | Metagenome / Metatranscriptome | 112 | Y |
| F088355 | Metagenome / Metatranscriptome | 109 | Y |
| F089118 | Metagenome / Metatranscriptome | 109 | Y |
| F090409 | Metagenome | 108 | Y |
| F092111 | Metagenome / Metatranscriptome | 107 | Y |
| F093176 | Metagenome / Metatranscriptome | 106 | Y |
| F098292 | Metagenome / Metatranscriptome | 104 | N |
| F098317 | Metagenome / Metatranscriptome | 104 | Y |
| F101218 | Metagenome / Metatranscriptome | 102 | Y |
| F101433 | Metagenome / Metatranscriptome | 102 | Y |
| F106197 | Metagenome / Metatranscriptome | 100 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0206388_1001379 | All Organisms → cellular organisms → Archaea | 1418 | Open in IMG/M |
| Ga0206388_1003078 | Not Available | 501 | Open in IMG/M |
| Ga0206388_1003360 | Not Available | 30844 | Open in IMG/M |
| Ga0206388_1015953 | All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides | 5743 | Open in IMG/M |
| Ga0206388_1026606 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria | 569 | Open in IMG/M |
| Ga0206388_1028130 | All Organisms → cellular organisms → Archaea | 2016 | Open in IMG/M |
| Ga0206388_1028972 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix | 15289 | Open in IMG/M |
| Ga0206388_1030070 | All Organisms → cellular organisms → Bacteria | 8262 | Open in IMG/M |
| Ga0206388_1040300 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → Methanothrix soehngenii | 14814 | Open in IMG/M |
| Ga0206388_1043121 | All Organisms → cellular organisms → Archaea | 23942 | Open in IMG/M |
| Ga0206388_1045566 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfatitalea → Desulfatitalea tepidiphila | 3140 | Open in IMG/M |
| Ga0206388_1048558 | All Organisms → cellular organisms → Archaea → Euryarchaeota | 12735 | Open in IMG/M |
| Ga0206388_1049783 | All Organisms → cellular organisms → Bacteria | 1874 | Open in IMG/M |
| Ga0206388_1063139 | Not Available | 2744 | Open in IMG/M |
| Ga0206388_1067825 | All Organisms → cellular organisms → Bacteria | 11699 | Open in IMG/M |
| Ga0206388_1072156 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia | 7198 | Open in IMG/M |
| Ga0206388_1080075 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Smithella → unclassified Smithella → Smithella sp. F21 | 11196 | Open in IMG/M |
| Ga0206388_1086542 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix | 1408 | Open in IMG/M |
| Ga0206388_1092195 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium | 639 | Open in IMG/M |
| Ga0206388_1096878 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales | 5903 | Open in IMG/M |
| Ga0206388_1104391 | Not Available | 803 | Open in IMG/M |
| Ga0206388_1109170 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix | 25649 | Open in IMG/M |
| Ga0206388_1116774 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → Methanothrix soehngenii | 3344 | Open in IMG/M |
| Ga0206388_1122009 | Not Available | 592 | Open in IMG/M |
| Ga0206388_1133433 | Not Available | 1667 | Open in IMG/M |
| Ga0206388_1150725 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula | 817 | Open in IMG/M |
| Ga0206388_1152816 | Not Available | 15567 | Open in IMG/M |
| Ga0206388_1159920 | All Organisms → cellular organisms → Bacteria | 27880 | Open in IMG/M |
| Ga0206388_1166047 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → Methanothrix soehngenii | 8282 | Open in IMG/M |
| Ga0206388_1169358 | Not Available | 1635 | Open in IMG/M |
| Ga0206388_1175395 | Not Available | 623 | Open in IMG/M |
| Ga0206388_1181435 | All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 → candidate division WOR-3 bacterium | 583 | Open in IMG/M |
| Ga0206388_1184315 | All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → Bryobacter → Bryobacter aggregatus | 4888 | Open in IMG/M |
| Ga0206388_1185358 | All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → candidate division WOR-3 | 931 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0206388_1001379 | Ga0206388_10013793 | F101218 | MSKQGPKPDLPRVKEPPPLPSLDELIAESRALGWDDLADSMEKLRYLETPKGQEALERREKRLSRL |
| Ga0206388_1003078 | Ga0206388_10030781 | F098292 | MSDVTRRIERWQKKYSPERAKATLDQLLEGMQQRYEAATREMVAMELQVKEVLNQEGVHTTNYVPYLSYARQLWKLGRQQNISGESFAMASEVLLQKWAGRGQDPDVLAAIRTKVFNSPPPKP |
| Ga0206388_1003360 | Ga0206388_100336042 | F048390 | MVRFVRTLQHRITPQGRDFYALSIPPQVAEALELKDGGQVSICVNPVKKGKFEITLKPASSDNINP |
| Ga0206388_1015953 | Ga0206388_10159532 | F069913 | LAKRKIAMTLDEYSALEEEFHSSHTDIKSFLKKRGVSYTTYYYWKCKSRDLKEQSGGQFLPIDVQQGGFIKPARRSKNLKQPLITQGEIEIELRTPAGAEIRIRGYMDSIMVSTIIAVSGGRRNV |
| Ga0206388_1026606 | Ga0206388_10266062 | F026449 | ISRRQGGVDEAYYTYVEEVDDEANKDSALIQKSDT |
| Ga0206388_1028130 | Ga0206388_10281304 | F040697 | MQLIEKFLDEELVDDILKEAADGYGDLMAAALDHNVSVLSLQTRIVELRNLRATWIS |
| Ga0206388_1028972 | Ga0206388_102897212 | F054136 | MIENKAQLLADLAFVGSKVQIQTNAYLFAGAAFMWHGLKDATKDIDICCSYEEADRIVSALRMVGIMESVTGINDVHFLRIIFKSFSVQIFINEIWMGDEFPLLQAAHCDTLTFGGINFMIPDVKTLIMIRDRQIQALYREWKKLAGERCI |
| Ga0206388_1030070 | Ga0206388_10300707 | F001564 | LVHWALRRDELCDPGLCPDAPDGGQCDHCPLDRLDAAQSSETGLLIRRAIDLRVSLKLGVRIGLDEIRADEFLAMLVLEEERDRLDREQLNNRGRQ |
| Ga0206388_1040300 | Ga0206388_10403009 | F050777 | MEDDIICEKAVEILNPGRLYFALNAMRSSPVKISFDMGDLNLTSGPVSSLISIEGDLPEEVQGMQWLVPLEDLLILQDLIPPDTYYWENRALVLQWQCDLVVDSMIDEKSPLETLEQEEAYRDQLLISNREYRELQMALDDCNAHIPQVLFSIYPDRLNFAVNCSEHDEIVGTMIQLKNQKEAR |
| Ga0206388_1043121 | Ga0206388_104312118 | F090409 | VKKEFAGTLQTSFGMMGSVHFSLEMPGSLVGDANQFLEGARRKRVLVTVETQEVAD |
| Ga0206388_1045566 | Ga0206388_10455662 | F048134 | MESRNNVQINLSIPEQYRNLLRRMAAERVMSDPSQVVTGASIATELLLNALKEISREGVKRNE |
| Ga0206388_1048558 | Ga0206388_10485589 | F064732 | MPKVSELIWKDMEAATEAALEAAQERCTMPPALSAERHVKFPSSPMAPGRSTAAIATRSIGQPDHPEDTNYLMGINESGLIN |
| Ga0206388_1049783 | Ga0206388_10497832 | F012083 | MRLLGDPPPGIQASGSRSAARHDALDSRTVPGGKGSLRRDRQPRALASCAPFRRAMLRDGRLRREPDVKQFLRLAKDENQMRVDKTS |
| Ga0206388_1063139 | Ga0206388_10631391 | F092111 | SVIPEEESSDVREMVWEMSRTTNKILIIGIVLVLAILAALIYLGIITFS |
| Ga0206388_1067825 | Ga0206388_10678253 | F059711 | MRERIFHTSMNLLLDPDTYQRIKMIARLKKMPMSKFIREGINLRLAQYDKENNSITGGKDQERTDNQ |
| Ga0206388_1072156 | Ga0206388_10721567 | F073228 | MAITIGDIMEVENSKYGEFLYRIVMVFPHNLEVDKTELARLIKINNNTLTFERKNGEKFTLDERDIEHMDLFKSPNYRGGE |
| Ga0206388_1080075 | Ga0206388_10800752 | F010068 | MGIRRRFCMNIKGTYYVLTKSAMTTAFGEERWKSFMTKLAEKDKYFKNMIMSVTLSPVEKLIIFFDEMCAEFFNNDRMSYLMFGKIGAKYALTSEGPYKAFMLTKDIKQFVEVYMPKLWTAFFDGGTVITKLENNTVHLKVTGINIKNLYFEQLVLGYNQQALKVYGKKSVVKKVRSIASGDADIYFRFELMEA |
| Ga0206388_1086542 | Ga0206388_10865421 | F064746 | MLKTYLVGLVVLYAVMACGCLGTAQFKKSVTIDGHTFTAVLDDSWTNTSGEVATYVPTNLENQYAIPTGAYDWTGFEDYDAFSYRSGEPSGSVTKYGWAHIFVLKPKKDLAGSSSTDILKHAAYLTINPRNHRNAVLGDDLTENEIEYNSKEAYLVEVEGELITPANGDDFINDNSYGAIAFFLDDDTVALIDVETTNNFGMSAKDVIDSITVT |
| Ga0206388_1092195 | Ga0206388_10921952 | F084900 | MRKSIVARKINDDVRASLAFIEALSRTADMVFSREEIAISEKMKIGDTVICIIDAQKRNGDSSHAKGQAYIYSDLVIICVESVSKKLMEPIYPHQYEYLSY |
| Ga0206388_1096878 | Ga0206388_10968783 | F092111 | MPGGESVIPEEESSDVREMVWEMSRMTNRILIFGIILIFAILAALIYLGILSLTI |
| Ga0206388_1104391 | Ga0206388_11043912 | F090409 | LAKGRSKGGDRVKKEFAGTLQASFGMMGSVHLNLELSGSVIGDTNQFLDGARGKRVLVTVETQELEP |
| Ga0206388_1109170 | Ga0206388_11091706 | F054136 | MIENKAQLLADLAFVGSKVQIQTNAYLFAGAAFMWHGLKDATKDIDICCSYEEADRIVSALRMVGNMESVTGINDVHFLRIIFKSFSVQIFINEIWMGDEFQLLQAAHCDTLTFGGINFMIPDVKTLIMIRDRQIQALYREWKKLAGERCI |
| Ga0206388_1116774 | Ga0206388_11167744 | F106197 | MKKVLVCIILLSLWICVDCVSADTISAQIDSFDFPSGDWYRGSNQGGANVWIKNTGDVGHLFWVSYEVMDRRGQWQRAPPVPVYAEPGESTYFVNPVWHIPDDAELGSYQADFYLYSYYDSNTGEFSEQLDQVDQAGAFSVVG |
| Ga0206388_1122009 | Ga0206388_11220091 | F074841 | KPPYESEHIRHHLTSGLFEQQSLMKYGLTPIELMKEFQAIKLSAKAKREALKDLKMYFGEPPVPIKVIGNRLSSGLLEMQILAKYLMTVSELIKITGFEVSD |
| Ga0206388_1133433 | Ga0206388_11334334 | F073228 | MAIITIGDIMDVNNSKYGEFLYKIVMVYPHNLEVDKTELARLIKINNNTLTFERKNGEKFTIDERDIEHMDLFRSPNYRGGE |
| Ga0206388_1150725 | Ga0206388_11507252 | F053838 | MCWDLWSFGIPFIADEFRAPAKPAGRADFLLGVIRDAPTAPAGDMGLLVSLSH |
| Ga0206388_1152816 | Ga0206388_115281621 | F073228 | MAITIGDIMDVNNSKYGEFLYKIVMVYPHNMEVDKTELARLIKINNNTLTFERKTGEKFTLDERDIEHIDLFRSPYYKGGI |
| Ga0206388_1159920 | Ga0206388_115992020 | F088355 | MKNLTNKLSVFAGQKGQLILAILTIALFVLAAGAPNATLGIGR |
| Ga0206388_1159920 | Ga0206388_115992021 | F088355 | MKNITTKLSVFAGQKGQLVLAILAIALFVLAAGAPNATLGIGR |
| Ga0206388_1159920 | Ga0206388_115992023 | F088355 | MKNLTNKLSVFAGQKGQFILTILTIALFVLAAGAPNATLGIGR |
| Ga0206388_1166047 | Ga0206388_11660478 | F050777 | MEDDIIYEKAVEILNPGRLYFALKAMHSSPVKISFDMGDLNLTSGPVSSLISIEGDLPEEVQDMQWLVSLEDLLILQDLIPPDTYYWENRALVLEWQCDLVVDSMIDEKSPVETLEQEEAYRDQLLISNREYRELQMALDDCNAHIPQVLFSIYPDRLNFAVNCSEHDEIVGTMIQLKNL |
| Ga0206388_1169358 | Ga0206388_11693583 | F098317 | MARALRLGLTLSEEDAKVFWQSEEAYAVTPQQKLQLKEAQRIYQSHPIKF |
| Ga0206388_1175395 | Ga0206388_11753951 | F093176 | ERGRGGAESPGSISPAPGRGGDFVTTVKRILLVFVICALAVAYLYQHSYSVRLTRTLARLETQRQLLAEQLEGVDAEIVRLSTFARMESLWDAQGRPAAPREQMVMPDGQMVAMTKHPGADAAAH |
| Ga0206388_1181435 | Ga0206388_11814352 | F101433 | MRRKVSFIILAAIGVAAVVLGIRAGDPETIHRFAAQI |
| Ga0206388_1184315 | Ga0206388_11843153 | F006161 | MALDARFVAAVLEGIEGTLDEVIGRVESAELRTSLDVLQSRVTALRVSIEPPALAPDGGEEPELAAAGQAA |
| Ga0206388_1185358 | Ga0206388_11853582 | F089118 | VTRLIWVIIFAVLVGALVLITLKSLPGTRVSSQLAEAQQAHDILSRRFPDSRFRIQFSAPDSSVRNLVVTIQPGRTDSASIAAQLDSAESVARRTVDLSRYDSLVGAGFDRVYRVVPVR |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |