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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 | 3300019705 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0129088 | Gp0217647 | Ga0193981 |
| Sample Name | Sediment microbial communities from the Broadkill River, Lewes, Delaware, United States ? BLT_2-3_MG |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 102222029 |
| Sequencing Scaffolds | 36 |
| Novel Protein Genes | 40 |
| Associated Families | 35 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → Geobacter | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales | 1 |
| Not Available | 19 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Oceanospirillales | 1 |
| All Organisms → cellular organisms → Bacteria | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → Sedimenticola → Sedimenticola thiotaurini | 1 |
| All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → unclassified Halobacteria → Halobacteria archaeon | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Thiotrichales → unclassified Thiotrichales → Thiotrichales bacterium SG8_50 | 1 |
| All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp. | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → unclassified Anaerolineae → Anaerolineae bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Halieaceae → Pseudohalioglobus → Pseudohalioglobus sediminis | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Olavius algarvensis Delta 1 endosymbiont | 1 |
| All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → unclassified Phycisphaerae → Phycisphaerae bacterium | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Microbial Communities From Sediments And Microbial Mats In Various Locations |
| Type | Environmental |
| Taxonomy | Environmental → Aquatic → Freshwater → Sediment → Unclassified → Sediment → Microbial Communities From Sediments And Microbial Mats In Various Locations |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | freshwater river biome → river → sediment |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Water (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | USA: Delaware | |||||||
| Coordinates | Lat. (o) | 38.7906 | Long. (o) | -75.1638 | Alt. (m) | N/A | Depth (m) | 0 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F001139 | Metagenome / Metatranscriptome | 767 | Y |
| F001488 | Metagenome / Metatranscriptome | 686 | Y |
| F003225 | Metagenome / Metatranscriptome | 499 | Y |
| F003471 | Metagenome / Metatranscriptome | 485 | Y |
| F004928 | Metagenome / Metatranscriptome | 418 | Y |
| F005815 | Metagenome / Metatranscriptome | 389 | Y |
| F006971 | Metagenome / Metatranscriptome | 361 | Y |
| F010065 | Metagenome | 309 | Y |
| F012457 | Metagenome | 280 | Y |
| F022317 | Metagenome / Metatranscriptome | 215 | Y |
| F026008 | Metagenome / Metatranscriptome | 199 | N |
| F029124 | Metagenome / Metatranscriptome | 189 | N |
| F035554 | Metagenome / Metatranscriptome | 172 | N |
| F044506 | Metagenome / Metatranscriptome | 154 | Y |
| F047064 | Metagenome / Metatranscriptome | 150 | Y |
| F053659 | Metagenome / Metatranscriptome | 141 | Y |
| F058158 | Metagenome / Metatranscriptome | 135 | Y |
| F062772 | Metagenome | 130 | Y |
| F063710 | Metagenome | 129 | Y |
| F072252 | Metagenome | 121 | Y |
| F073262 | Metagenome | 120 | Y |
| F074892 | Metagenome / Metatranscriptome | 119 | Y |
| F074893 | Metagenome / Metatranscriptome | 119 | Y |
| F076890 | Metagenome / Metatranscriptome | 117 | N |
| F082775 | Metagenome / Metatranscriptome | 113 | Y |
| F085722 | Metagenome | 111 | Y |
| F088283 | Metagenome / Metatranscriptome | 109 | Y |
| F089490 | Metagenome / Metatranscriptome | 109 | Y |
| F090406 | Metagenome | 108 | N |
| F090407 | Metagenome | 108 | Y |
| F090430 | Metagenome / Metatranscriptome | 108 | N |
| F095003 | Metagenome | 105 | Y |
| F099324 | Metagenome / Metatranscriptome | 103 | Y |
| F103282 | Metagenome | 101 | Y |
| F105196 | Metagenome / Metatranscriptome | 100 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0193981_1000176 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → Geobacter | 3835 | Open in IMG/M |
| Ga0193981_1000593 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales | 2593 | Open in IMG/M |
| Ga0193981_1001500 | Not Available | 1893 | Open in IMG/M |
| Ga0193981_1002382 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Oceanospirillales | 1595 | Open in IMG/M |
| Ga0193981_1002595 | Not Available | 1546 | Open in IMG/M |
| Ga0193981_1005265 | Not Available | 1193 | Open in IMG/M |
| Ga0193981_1006652 | Not Available | 1094 | Open in IMG/M |
| Ga0193981_1006949 | All Organisms → cellular organisms → Bacteria | 1079 | Open in IMG/M |
| Ga0193981_1011145 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → Sedimenticola → Sedimenticola thiotaurini | 909 | Open in IMG/M |
| Ga0193981_1011752 | All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → unclassified Halobacteria → Halobacteria archaeon | 893 | Open in IMG/M |
| Ga0193981_1013519 | Not Available | 847 | Open in IMG/M |
| Ga0193981_1013582 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 846 | Open in IMG/M |
| Ga0193981_1015745 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Thiotrichales → unclassified Thiotrichales → Thiotrichales bacterium SG8_50 | 801 | Open in IMG/M |
| Ga0193981_1015941 | All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp. | 798 | Open in IMG/M |
| Ga0193981_1016313 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → unclassified Anaerolineae → Anaerolineae bacterium | 791 | Open in IMG/M |
| Ga0193981_1017026 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium | 779 | Open in IMG/M |
| Ga0193981_1017454 | Not Available | 772 | Open in IMG/M |
| Ga0193981_1019020 | Not Available | 748 | Open in IMG/M |
| Ga0193981_1020656 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Halieaceae → Pseudohalioglobus → Pseudohalioglobus sediminis | 726 | Open in IMG/M |
| Ga0193981_1022023 | Not Available | 710 | Open in IMG/M |
| Ga0193981_1022703 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales | 702 | Open in IMG/M |
| Ga0193981_1025165 | Not Available | 678 | Open in IMG/M |
| Ga0193981_1029545 | Not Available | 640 | Open in IMG/M |
| Ga0193981_1031841 | Not Available | 624 | Open in IMG/M |
| Ga0193981_1033479 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales | 613 | Open in IMG/M |
| Ga0193981_1033687 | Not Available | 612 | Open in IMG/M |
| Ga0193981_1034622 | All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Olavius algarvensis Delta 1 endosymbiont | 606 | Open in IMG/M |
| Ga0193981_1036474 | Not Available | 595 | Open in IMG/M |
| Ga0193981_1041405 | Not Available | 570 | Open in IMG/M |
| Ga0193981_1043367 | Not Available | 561 | Open in IMG/M |
| Ga0193981_1044728 | Not Available | 555 | Open in IMG/M |
| Ga0193981_1047317 | All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → unclassified Phycisphaerae → Phycisphaerae bacterium | 544 | Open in IMG/M |
| Ga0193981_1053036 | Not Available | 524 | Open in IMG/M |
| Ga0193981_1053140 | All Organisms → cellular organisms → Bacteria | 523 | Open in IMG/M |
| Ga0193981_1055641 | Not Available | 516 | Open in IMG/M |
| Ga0193981_1061208 | Not Available | 500 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0193981_1000176 | Ga0193981_10001763 | F099324 | MFKQIIFVIMLGWVLVLSGCAAIDKGHDIEGEDYRGGYPPRGGYTRTTQHKALVSEACNIEANNLAGDKDFMADDRARRVYFSQCMQRNGYNAAGNYVGIPPK |
| Ga0193981_1000593 | Ga0193981_10005935 | F001488 | LFLHEHLNRILRPIKKQNVKEKLNMARLELTLNFPKSFQIKTFNVKSEKKLSPLAKLILQSVQFKHFYYVRDDISYLLKSNPIERDFLLQALYSIVISLQNNLSINFFDMWVYEVYINKVSTHNKFMSQKSQNLEPGEYITIKLAYGSSVSQEKK |
| Ga0193981_1000965 | Ga0193981_10009651 | F076890 | MTGNRTVTTTLLVTLALLVSACSTLDFEDYCRYSDEHSIREADPESLALVLGVKRGLARETPFVVVRSLSEHNRGAVIKLNATAAPHPIPMSLDESRCAAVDWNTYTLTVDEGEWNAFWSDDRNSPFEIAIAFLDNNESLLVSKFGAAIVDTDAADYLVSCGCYWK |
| Ga0193981_1001500 | Ga0193981_10015003 | F074892 | MTAMMQKYALIALLGLLLSACSERGENVYRTWVGPDRSTMAIVTLRLGEDVRDITIRERVLPRSEYGAILLVPGAYTLYEHDGANIGISISPMLINVEKARANGELIIGHTYVLRAGKSKETGERALWIEDARSGEVFIDRR |
| Ga0193981_1002382 | Ga0193981_10023822 | F012457 | MMIKDLEKSKDLDRDALSAVRGGRDSIEQGGVYAPVANINNGFSFASPTTIVSTPVNAPSAVFNDNDLHLKLANKSTSVLGSLGTVVWQ |
| Ga0193981_1002595 | Ga0193981_10025951 | F003471 | EITMKDKTTYQQPKPCPVPDFAGYPDKVANTQTNKMKGSGAATKGTGFSKRTA |
| Ga0193981_1005265 | Ga0193981_10052652 | F001139 | MRIFKNDLTHYFLREHDQLPASYLKSCNKFFKELSSKRQASSGKPQALIQKNLHKPGTRVKNRFNRKV |
| Ga0193981_1006652 | Ga0193981_10066524 | F082775 | MNEPDILYPAIFVFSMLLIGLLLTMWEFSRLYKRQQQKVENDKRFTGLDSRVYRENVRNVSHF |
| Ga0193981_1006949 | Ga0193981_10069492 | F063710 | MNKPRQRSLRVRVEHEPNRFSDDCLERIYEQLHPTKSRKVTPDKNNKQGEVEPQKGKGGQ |
| Ga0193981_1007404 | Ga0193981_10074041 | F076890 | MIGTRSVAAMLVAMGALGTSACSTLEVDDYCRYSETRSIRTADPESLALVLGVQAGRARQTPFVVIRSLSESAPGTSITLYTTPAAHPMPMGLDESRCARMDWKTYTLAVDPDEWNAFWQDDRNSPFEIGIAFLEDFHPLPLSAFGAAILDTGSADPLVSCGCFWR |
| Ga0193981_1011145 | Ga0193981_10111452 | F062772 | MNLNGVWSSELGGAYGWEPIGTFFLKDGHLTGGGINHFSVGSYKTKGDGAVFHIVINQFGKKRALFGQKSEQVRVVVKGKRNDDKIIGEATLPGHVEYGICVRFQRRADLPEEKTH |
| Ga0193981_1011145 | Ga0193981_10111453 | F062772 | MSLNGIWSCELGGAYGWEAIGTLFLKDGHLQGCGRNHYTLGTYKTKGDGAVFHMELNQYGNKRTLFGQKKEQVCVTVKAKRDGDKLIGEATLPGRRKYAIFVRF |
| Ga0193981_1011752 | Ga0193981_10117522 | F010065 | VRGESGISFTGLYICGVISLVMLVLKLSVMDAWSWWRVMLPVGLIVGFTVTNMVVAFIYLSFAHIPERPDGDEAELLEPHTINVHYVAAMLFFVVFGDNVVRWIDGSETSYWFWLMSGKVEVLAAFGVLSVLALFAYWLRLGRVLKASD |
| Ga0193981_1013519 | Ga0193981_10135191 | F095003 | MFLAGLLSGAGIGWYSGILRERIRQTDPKKSKREAIIYRHLLEKAGLSEEKDKAG |
| Ga0193981_1013582 | Ga0193981_10135822 | F074892 | MTSKYVSIVLLGLLLSSCAERGENVYKSWVGPDRPNMAIVTLRLGDDVRDITVRERVLPRSEYGTLLLVPGQYTLYEDDGANIGITIRPVMMNTEKARASGELILGHTYILHAGKSKDGGERALWIEDARSGEVFIDTR |
| Ga0193981_1015745 | Ga0193981_10157452 | F085722 | MIRNAMTGVCYALLVIGLNGCSNPHKEAARASTEASKAEASVHNEKAKILEDYRKCLSKNKSNEQACESYKKALDSM |
| Ga0193981_1015941 | Ga0193981_10159411 | F006971 | MLLTQLLIEKLQKECTTGKNLVMIYQGIEYKKHQKVKFVIPTDLRIVDPQTKKILWRYGIIQFFAKNTKSAWILENGTKESIKISLFCVLPVN |
| Ga0193981_1015941 | Ga0193981_10159413 | F022317 | VATLKIDTKTIVPIIATIILSAFGWVFNSIEEIKSHQNACDAMVMEINSELDMLESNFTDLLFKLNG |
| Ga0193981_1016313 | Ga0193981_10163131 | F053659 | VNIDQAKPKRQKRTITLYLGNTLGEYEATYLTETGLKALIRRVETADSINWGCLATGHEAGCPRQLHFTHHDSYSRWVKHFNGTQSVVVIHRVRCLDCGAVFSVQPSFLIRYKRYDTDATEK |
| Ga0193981_1017026 | Ga0193981_10170261 | F004928 | MGQVIQSILAEPENTVEIVVHITETLGEQRRGDLVAGLEDNGGIRTAEFCPLRYHLMLVRYDRDIYSSQDVLDRVKAQNVDARLIGPV |
| Ga0193981_1017454 | Ga0193981_10174542 | F026008 | LRINGQGELIYQALRNKEGKNVQLEIFRPDTLLRGIIENVSSPIEEISPRGSVTQYCIVRFRGSKVIATSSSGQGLGIQLLGVNNLGL |
| Ga0193981_1019020 | Ga0193981_10190201 | F090407 | MVLDNTLIGVLILILGGILVLGYFNWSNTRDARRHTQKIFQQQRLVREVPDAHRLSQAVHLLRPSVRLGFDYFIETEDGKLPHISEWNTAGTMPTQAEFDEALRRVGSIDSKGYAAMRRQEYPSIEEQLDAAFKARHGDTSEQEELDSRIEQIKSKYPKS |
| Ga0193981_1020656 | Ga0193981_10206561 | F090406 | VLWWIIVLVGLTSCSTTLTSVDGKGGNVYALPPTVVDQILKDAMSTEISTGTLRRGSTPYPSYLGEVTWGSLDKDTITASARPAKGRKLDGTIVDGYVFEVSRKGTAPATGEPTVKRIFAKLQKDAELTGTGAAFVEFAD |
| Ga0193981_1022023 | Ga0193981_10220231 | F035554 | MAAKFLEDYVGVDDLIKQMNEQYPEGRLVSEIVEKTDKMVVFKTSFYTKDNVSPKCTGHGSKYSTEDHWLEKAEQKSRGRCLRVLLGGAEPTREEMEGIVPSKTAAPKKKSLDEKVKDLEAEGLVEDVSNKTSALMGNLKDYSLGVTGNNLDKARAITAEALSTMGISKAEVSINNLQSIKNKISDLATQEKVYADKGE |
| Ga0193981_1022703 | Ga0193981_10227031 | F047064 | METIEIKTVKSWKRDVIEYFEDLEIICNDYNRMFLRYLGKLNRLLHEERIDQSGYDDLKKTLLKASEAINNIPLTIQDLK |
| Ga0193981_1025165 | Ga0193981_10251652 | F105196 | MHIVDRCRDPYGKLSAARRTLLKQLLNAPDRLNWERARGLIIRDIPIVTLESAVRSVRRNTAADRTPDPFNLYRALRFAVDYESRETESDCGGICR |
| Ga0193981_1029545 | Ga0193981_10295452 | F090430 | EQVGGELRPHSSFKQTDCPGDAWRQWIIEKKTATIDELKKATNITAEDLSNASGPEMVHPHFIQKKLDIIIAKLENIETKLKLGRIIQ |
| Ga0193981_1031841 | Ga0193981_10318412 | F058158 | MGVTKKDRENRIDKRIVNQKSYMSDFTKTEKDDIDIWELHVKEREYILTQIAKDRRTSRIRTWIELIFMLGFIWYMLYDIYKDGDLDTIIKFLK |
| Ga0193981_1033479 | Ga0193981_10334791 | F088283 | PGAGKLALRRRGLTMKTKALLLFASMGVCSGCATSTDIAGTYAPSCIAFEGDTIELADGRFTWDKFTDEVSVDKAGNEVDPFPGFPVRGAYTVEDDVVSLVTNVGELAAELYLVHRPDQVYLLTKAEFEAWRRDGTVPKCALLLGAGD |
| Ga0193981_1033687 | Ga0193981_10336871 | F074893 | MVPSRLYAIADNGSLTIRISGPMDLLLTSALRECCHDTATDYSRYIVDFQDVSIVRDSGLALLLMLKRLANRTGATLHVINGNTDLMHRCYKLGIKSASL |
| Ga0193981_1034622 | Ga0193981_10346222 | F044506 | MMEQWNSGIMGSGMMQCWINGPATGGIDDKLKMVNILLKTNVPAFHSSIIPFLGHIQRPQKTLIFSVGCRNSETLNYSRNLHFT |
| Ga0193981_1036474 | Ga0193981_10364741 | F085722 | MMRNAMIGVCYAVLVIGQMGCSNPHKEAARASTEASKAEAEVSSQKAKILGDYRKCLNKNKGDEK |
| Ga0193981_1041405 | Ga0193981_10414051 | F010065 | VMLVLKLSVMESWSWWRVILPVGLIVGFNVTNMVVAFIYLTFAHIRERPDRDEAEILEPHTINVYYVAAMLFFIVFSDNVVRWIDGSETSYWFWLFSGDVEVLALFGALSVLALFSYWSNLGRVLKASG |
| Ga0193981_1043367 | Ga0193981_10433672 | F089490 | VAKGSATPNDKESSMYHLMKSEKFTLDHLVSGLMSSYRQSEIGHFRRFRTALGACQVANNKGRSRYYVLNESGQEYYDGTWID |
| Ga0193981_1044728 | Ga0193981_10447281 | F103282 | VRGESGISFTGLYICGVISLVTLALKLSVIDAWSWWRVMLPVGLIVGFNLTNMVLAFIYLSFARLPERPDGDEA |
| Ga0193981_1047317 | Ga0193981_10473171 | F072252 | MKAKKYTQIQRIKRLENIVSQMYLSLEVLKKSIDKQKEK |
| Ga0193981_1053036 | Ga0193981_10530361 | F073262 | QSATNTTGTNPSASLNRPKDIATLQDKCPMLVASLLAVCEVATTADPPVHWSTVHATSKATKWAACHANALDSAGSKTNKPAPVTSPPLVQDTGNGRFTASSANNPTEGMSIFRIQSSCMPRCQECLNRNRMFEVLVQGVDAASFEAQQMALTNDELELPQSAEEFKGHINGYQ |
| Ga0193981_1053140 | Ga0193981_10531402 | F005815 | MTMNTTRLTTYWNTGEAATAIEFLDILREALWETYGEQITRMHRDACHDHIPDTSQSEFEFDDEIQF |
| Ga0193981_1055641 | Ga0193981_10556412 | F029124 | LGLDIGSYVETQVTTPSTDIETYDLFIERIRHKVDARNKTWNWQIGLSPAETGAWILGVNSLGIDTNLSYT |
| Ga0193981_1061208 | Ga0193981_10612082 | F003225 | MNTELETYFDNYNVLFGSEGFKQLVQELSTNAQRLADIQTVKDAEDLHFRKGQVAALASVINLPDTIAAAREQAEADNEEVEVDV |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |