 |
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |
| Basic Information | |
|---|---|
| IMG/M Taxon OID | 3300001653 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0085736 | Gp0057366 | Ga0003880 |
| Sample Name | Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF041 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 9168459 |
| Sequencing Scaffolds | 32 |
| Novel Protein Genes | 33 |
| Associated Families | 33 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 4 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 5 |
| All Organisms → cellular organisms → Bacteria | 3 |
| Not Available | 10 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group | 1 |
| All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Trebouxiophyceae → Chlorellales → Chlorellaceae → Chlorella clade → Chlorella → Chlorella variabilis | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Xanthobacter → Xanthobacter autotrophicus | 1 |
| All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Pseudonocardiales → unclassified Pseudonocardiales → Pseudonocardiales bacterium | 1 |
| All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Leotiomycetes → Helotiales → Sclerotiniaceae → Sclerotinia → Sclerotinia sclerotiorum | 1 |
| Ecosystem Assignment (GOLD) | |
|---|---|
| Name | Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies |
| Type | Environmental |
| Taxonomy | Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies |
| Alternative Ecosystem Assignments | |
|---|---|
| Environment Ontology (ENVO) | forest biome → land → forest soil |
| Earth Microbiome Project Ontology (EMPO) | Free-living → Non-saline → Soil (non-saline) |
| Location Information | ||||||||
|---|---|---|---|---|---|---|---|---|
| Location | Harvard Forest LTER, Petersham, MA, USA | |||||||
| Coordinates | Lat. (o) | 42.550409 | Long. (o) | -72.180244 | Alt. (m) | N/A | Depth (m) | 0 to .1 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000496 | Metagenome / Metatranscriptome | 1076 | Y |
| F000543 | Metagenome / Metatranscriptome | 1040 | Y |
| F001206 | Metagenome / Metatranscriptome | 748 | Y |
| F001268 | Metagenome / Metatranscriptome | 734 | Y |
| F001420 | Metagenome / Metatranscriptome | 698 | Y |
| F004082 | Metagenome / Metatranscriptome | 454 | Y |
| F004500 | Metagenome / Metatranscriptome | 435 | Y |
| F004557 | Metagenome / Metatranscriptome | 433 | Y |
| F004590 | Metagenome / Metatranscriptome | 432 | Y |
| F006560 | Metagenome / Metatranscriptome | 370 | Y |
| F006905 | Metagenome / Metatranscriptome | 362 | Y |
| F009541 | Metagenome / Metatranscriptome | 316 | Y |
| F011419 | Metagenome / Metatranscriptome | 291 | Y |
| F016866 | Metagenome / Metatranscriptome | 244 | Y |
| F023477 | Metagenome / Metatranscriptome | 210 | Y |
| F025019 | Metagenome / Metatranscriptome | 203 | Y |
| F025323 | Metagenome / Metatranscriptome | 202 | Y |
| F025863 | Metagenome / Metatranscriptome | 200 | Y |
| F026726 | Metagenome / Metatranscriptome | 197 | Y |
| F029193 | Metagenome / Metatranscriptome | 189 | Y |
| F030227 | Metagenome / Metatranscriptome | 186 | Y |
| F038439 | Metagenome / Metatranscriptome | 166 | Y |
| F041930 | Metagenome / Metatranscriptome | 159 | Y |
| F043534 | Metagenome / Metatranscriptome | 156 | Y |
| F047035 | Metagenome / Metatranscriptome | 150 | Y |
| F051407 | Metagenome / Metatranscriptome | 144 | Y |
| F055067 | Metagenome / Metatranscriptome | 139 | Y |
| F069096 | Metagenome / Metatranscriptome | 124 | N |
| F073819 | Metagenome / Metatranscriptome | 120 | Y |
| F082239 | Metagenome / Metatranscriptome | 113 | Y |
| F082961 | Metagenome / Metatranscriptome | 113 | Y |
| F101101 | Metagenome / Metatranscriptome | 102 | Y |
| F101621 | Metagenome / Metatranscriptome | 102 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| JGI20275J16321_100036 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 1668 | Open in IMG/M |
| JGI20275J16321_100155 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 1154 | Open in IMG/M |
| JGI20275J16321_100165 | All Organisms → cellular organisms → Bacteria | 1144 | Open in IMG/M |
| JGI20275J16321_100319 | Not Available | 919 | Open in IMG/M |
| JGI20275J16321_100433 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 830 | Open in IMG/M |
| JGI20275J16321_100452 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 822 | Open in IMG/M |
| JGI20275J16321_100571 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales | 761 | Open in IMG/M |
| JGI20275J16321_100651 | Not Available | 729 | Open in IMG/M |
| JGI20275J16321_100962 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 655 | Open in IMG/M |
| JGI20275J16321_100970 | All Organisms → cellular organisms → Bacteria | 654 | Open in IMG/M |
| JGI20275J16321_100990 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 652 | Open in IMG/M |
| JGI20275J16321_101024 | Not Available | 645 | Open in IMG/M |
| JGI20275J16321_101063 | Not Available | 638 | Open in IMG/M |
| JGI20275J16321_101118 | All Organisms → cellular organisms → Bacteria | 629 | Open in IMG/M |
| JGI20275J16321_101164 | All Organisms → cellular organisms → Bacteria → Terrabacteria group | 623 | Open in IMG/M |
| JGI20275J16321_101253 | All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Trebouxiophyceae → Chlorellales → Chlorellaceae → Chlorella clade → Chlorella → Chlorella variabilis | 607 | Open in IMG/M |
| JGI20275J16321_101308 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 599 | Open in IMG/M |
| JGI20275J16321_101327 | Not Available | 596 | Open in IMG/M |
| JGI20275J16321_101396 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii | 588 | Open in IMG/M |
| JGI20275J16321_101432 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 582 | Open in IMG/M |
| JGI20275J16321_101459 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Xanthobacter → Xanthobacter autotrophicus | 578 | Open in IMG/M |
| JGI20275J16321_101467 | Not Available | 578 | Open in IMG/M |
| JGI20275J16321_101476 | Not Available | 577 | Open in IMG/M |
| JGI20275J16321_101482 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii | 576 | Open in IMG/M |
| JGI20275J16321_101511 | All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium | 572 | Open in IMG/M |
| JGI20275J16321_101548 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Pseudonocardiales → unclassified Pseudonocardiales → Pseudonocardiales bacterium | 567 | Open in IMG/M |
| JGI20275J16321_101670 | Not Available | 554 | Open in IMG/M |
| JGI20275J16321_101720 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 549 | Open in IMG/M |
| JGI20275J16321_101758 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 546 | Open in IMG/M |
| JGI20275J16321_101807 | Not Available | 541 | Open in IMG/M |
| JGI20275J16321_101856 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Leotiomycetes → Helotiales → Sclerotiniaceae → Sclerotinia → Sclerotinia sclerotiorum | 536 | Open in IMG/M |
| JGI20275J16321_102256 | Not Available | 506 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| JGI20275J16321_100036 | JGI20275J16321_1000365 | F047035 | PVAAGAWAVVTGTLIAIWAVTAVIGVGTWLPWWLLVAIPWIWVLIRRARRRGE* |
| JGI20275J16321_100155 | JGI20275J16321_1001552 | F004500 | VTNINSDVLTAGVLTAAVLETEPWRARLGAFCPRSTFPGTSVPSAGGTGLAVVAQSVPRVRVKAVPAFPVPQSALAAQPGQINNYNHMTSVYAVGEGASGPPPYREPV* |
| JGI20275J16321_100165 | JGI20275J16321_1001652 | F073819 | VDILLAVATLVVAAAVLYVTLTLSQRIRATTGPLIDDLAGQLEATSAELRRQLEAVVSELREDREQLRLDGRRIQGRLDHADSRLTTVANQLQSEVEAVRRLSDQLGVRQLPGSRPGE* |
| JGI20275J16321_100319 | JGI20275J16321_1003192 | F016866 | MTFMSTTGQAPVPPAEPRGPLGPPLMTPGRWVALAVGVPVALALIGWTGFNLVTTVARGSYPFSYAXPVQDGQVAVNINAGDVTLQEAPGSSTARLTGTVQYGLIRPGISESNTPTGANIGMNCNGINTNCEMSASLDVPARTAVTLWSNGGNITASGFSSGIALSAAGGNVNATNLAGNLQLDSGGGDLTANGLTGTLQIATEGGNV |
| JGI20275J16321_100433 | JGI20275J16321_1004332 | F001268 | MTETISPPEAPAAESPHLARPHTDAAALRAIDEATKHLHDRAVKIRACPELHVPKLVLSEHVRGTSILDKIADGVNRFCGSMYVFIFITVGIVVWLFLGNIVGFDKTPWPLLLVILNLPQLSIMISLQVSANRSQAASDRRAIADHETLIALHEMAKQQLDILNGQDRVLAILDNFASKDMPGRQRH |
| JGI20275J16321_100452 | JGI20275J16321_1004522 | F000543 | PDVSLAGAADSVPWLVLGQLFDAFAGIRGVGFAKMTKALYPKRPALIPMLDSIVQSYLRDDDLGAHAPFAERALGFVHGYKRDLDRNWAALREVREELARSGHGLTEVRILDLLILSASAETATRPARPAGRSRSPGQPGSPGA* |
| JGI20275J16321_100571 | JGI20275J16321_1005713 | F101101 | MFERFTDKARKVVILAKGKATERGDDQIRPVHMLYGLAAADGVAAR |
| JGI20275J16321_100651 | JGI20275J16321_1006511 | F006905 | DRNREVNRFLAPLAASVHAIMRAQEIAIPYGSRLEHIAAGGVAKYPDIVKLSLDEIAAEFEGLCNRPGNE* |
| JGI20275J16321_100734 | JGI20275J16321_1007341 | F043534 | MTESSTPPGIPSPARLAAWLNDHVPGGPLELTDIQLIAGGRSNLTYRLTVSQPRAEPGAGAESTRLLV |
| JGI20275J16321_100962 | JGI20275J16321_1009621 | F025323 | MGFFSWVSSCGTVGEDEPPSLIRINEGNPAQTEVQRRAAEDVARIEQDDKYFGPPDNNDDL* |
| JGI20275J16321_100970 | JGI20275J16321_1009701 | F038439 | MASERVLEIPVRRHVLDSERPFSDVLDGIFGGISQPDIGLLFSKLEASTSYQEFSSLVAQAQG |
| JGI20275J16321_100990 | JGI20275J16321_1009902 | F009541 | VLFAGAAYVVWEHEQGRHGRPHALCPLCWLNKIVPAPEASGGSSPAEPPEQA* |
| JGI20275J16321_101024 | JGI20275J16321_1010241 | F101621 | PLGVSQVTAAVMALDSYPTGPVDVVRVQRVADVMRQFLGFPTFDVGSMVGG* |
| JGI20275J16321_101063 | JGI20275J16321_1010632 | F011419 | MPDNETFHTSFPSGPPLPPGQNVFWSAESESGGGRDYEDIMLRRVPAAVAHRFRGAAGARGFTHAQYLTALVSLHEAMRKRADDGDTEMAAALNQLGLGTVSI* |
| JGI20275J16321_101118 | JGI20275J16321_1011182 | F055067 | RQSLSEELAAVAGEGAFEPSELVVPGVPEESTEPPDKPR* |
| JGI20275J16321_101164 | JGI20275J16321_1011641 | F029193 | MNPNYTYQLYQAQRVTSRAEIRAADDRRGRQAAAVSRGGRRLTRATVGRLVSRAYRRRSPSWA* |
| JGI20275J16321_101253 | JGI20275J16321_1012531 | F082239 | LSRHRTGNRSNRRKRGLIRRVGIVFPVAVFAVVAVIGVAVGAAVFHPGSGAFNVAQAVEAVPGSHTIALLETERRQLIAMTDAANTKILVAKPQLASPSEVAAANPGTGTGTSTGTSTGGGGI |
| JGI20275J16321_101308 | JGI20275J16321_1013081 | F001206 | QHCPFGHALWPGQARVGWKPCICAAAREGAERGRGMGHLLVSCQSCHAQRRDATFYEPPHDIRCRQAGPWLC* |
| JGI20275J16321_101327 | JGI20275J16321_1013271 | F004557 | NPLRRTRRILLVVAGLATALLVCACDTAQQVPWATYNSQLQQQIDAATATRECAALRVYLAAAKASSSLHEKATGFPNDALVSYIQAAQQQADCPAKAD* |
| JGI20275J16321_101396 | JGI20275J16321_1013961 | F030227 | MRHLIGVALAIVMAAAVFFAASWGYLKLLSGSARGTLPAGSGSLIHDHAVLEGFGVLLAVGLLAGILMVVPIISP |
| JGI20275J16321_101432 | JGI20275J16321_1014322 | F082961 | GSQVPLGQPFSVHDPLWAWGGGRTLTGGDGSAIPTIVAGLFFDGITLLLVYILVVIVRDTPSTRSPPMSVPADADPGGVRRTQHPDRGHHGSGARRPARRGRGRH* |
| JGI20275J16321_101459 | JGI20275J16321_1014591 | F041930 | MNVLGSAAIVQSTNRAGAVSRFAAIFGAPPLHEFQIDGRDLSVSVFPGVSVLAGPASALEALTDLRATVFVRSLSEAEAELRAGGWTTEGALGDGASLLARDPDGNLLEFVENPGAPG* |
| JGI20275J16321_101467 | JGI20275J16321_1014671 | F001420 | TKNPRQDVQHAHLHAFYAEHDRTENHESSALAGHPVIAEGHRAFSAALGSDAVPVERDSTRLAAGLRAAAQPWGGSYCSCQLGVDGALWVMPALGPSQDEVNRRLARADGLQAEPDPTLGGAINLVRPTLADTGRLHAAQRATADQRASFETFVAQRGLNAQSLTAGPAPRTPPAP* |
| JGI20275J16321_101476 | JGI20275J16321_1014761 | F069096 | AMRPLSAPADVLAQPMLLPYPPELPDGLPARPRVLQLTNADDVSRGLADGTRRDRASDEEVRACLELVRASTRAIDPRARIVCAASNATATRHLDVMTASGGNTWLVRRGLDGADRALLEELDHLTDIHRMLHQPGRRHPAGPADLVILVAQDHIFARSVRRLRLLGVPTWLLVPGRLVARELFTSACAVT |
| JGI20275J16321_101482 | JGI20275J16321_1014821 | F025863 | MRKDNFPVEMVRGVPVVAAPEEIDITNAAGLRAALLEAAGL |
| JGI20275J16321_101511 | JGI20275J16321_1015112 | F004082 | VRRQPVRIVDGRVEGGYTDVFEFICPGCGDNPYVDYSEVPSRLQWLRGPLTLEAALEAYDKHLAPLPGPNGDSAGS* |
| JGI20275J16321_101548 | JGI20275J16321_1015482 | F026726 | MLGRSSPSYTVRGYSLPRVGTFSSRPRSLAARAFA |
| JGI20275J16321_101670 | JGI20275J16321_1016702 | F006560 | MTVALVLAGQPDAGLRGQLAALGVRQVDAAERAGPGLLTVAAAARAAGERVLICAGD |
| JGI20275J16321_101720 | JGI20275J16321_1017202 | F051407 | MRPLIRRLARIETVAVLVVAWLAGALGLGLATSAGAVPTVALMALGPLLGGLLLLIRHNLDLAGRIGNLASQSERTLDTV |
| JGI20275J16321_101758 | JGI20275J16321_1017581 | F000496 | RAMEPPATGRYGVGHCVIEHEELLVHNWRVTQLTRLGVPGPLAETYADRIDWHQVARLVHRGCPPRLALRIVR* |
| JGI20275J16321_101807 | JGI20275J16321_1018071 | F025019 | MFGFAGVLVAAVATGLLAGRAVRQPRLDTILWTAGTLALTVALAAQSMGFASGFGPATFRAVQL |
| JGI20275J16321_101856 | JGI20275J16321_1018561 | F023477 | MTNAELLALIERTGHPLTYEHFRTWVVAQSVRNALQTFHGGWAFDPDNPGSGEGFISDGQMRALNITIRRAVHEALRQADKARNVAAQPHRRMLYPAEQEALDFCE |
| JGI20275J16321_102256 | JGI20275J16321_1022561 | F004590 | SFAESNLPTGLSSGSPALSYLGGTAAPGTYSGAVVTATDSDGAALRGTFTLTVEANAVASSYGDEVNRFGNGFDVFRRHQYPGAIIAGWTATQGDPATDFIRTNGTHQGAFRFEYAPQGSGSGLCVSDPGGGWSSDPLRDGLVLASCNTGPWQQFIPQSNGTLKNVAT |
| ⦗Top⦘ |
|
Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |