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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 | 3300027100 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0085736 | Gp0057306 | Ga0208862 |
| Sample Name | Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF025 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 15857087 |
| Sequencing Scaffolds | 23 |
| Novel Protein Genes | 26 |
| Associated Families | 26 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 3 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Pseudonocardiales → Pseudonocardiaceae → Actinokineospora → Actinokineospora spheciospongiae | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii | 3 |
| Not Available | 9 |
| All Organisms → cellular organisms → Bacteria | 2 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 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 → solid layer → 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) | 42.532967 | Long. (o) | -72.17263 | Alt. (m) | N/A | Depth (m) | 0 to .1 | Location on Map |
| Zoom: | Powered by OpenStreetMap © | |||||||
| Family | Category | Number of Sequences | 3D Structure? |
|---|---|---|---|
| F000819 | Metagenome / Metatranscriptome | 878 | Y |
| F001075 | Metagenome / Metatranscriptome | 786 | Y |
| F001268 | Metagenome / Metatranscriptome | 734 | Y |
| F001373 | Metagenome / Metatranscriptome | 712 | Y |
| F005867 | Metagenome / Metatranscriptome | 388 | Y |
| F007135 | Metagenome / Metatranscriptome | 357 | Y |
| F009902 | Metagenome / Metatranscriptome | 311 | Y |
| F011941 | Metagenome / Metatranscriptome | 285 | Y |
| F012078 | Metagenome / Metatranscriptome | 284 | Y |
| F013580 | Metagenome / Metatranscriptome | 270 | Y |
| F013664 | Metagenome / Metatranscriptome | 269 | Y |
| F014832 | Metagenome / Metatranscriptome | 259 | Y |
| F016563 | Metagenome / Metatranscriptome | 246 | N |
| F017543 | Metagenome / Metatranscriptome | 240 | Y |
| F017693 | Metagenome / Metatranscriptome | 239 | Y |
| F018630 | Metagenome / Metatranscriptome | 234 | Y |
| F021836 | Metagenome / Metatranscriptome | 217 | Y |
| F024627 | Metagenome / Metatranscriptome | 205 | Y |
| F028020 | Metagenome / Metatranscriptome | 193 | Y |
| F038828 | Metagenome / Metatranscriptome | 165 | Y |
| F039375 | Metagenome / Metatranscriptome | 164 | Y |
| F055875 | Metagenome / Metatranscriptome | 138 | Y |
| F056089 | Metagenome / Metatranscriptome | 138 | Y |
| F069088 | Metagenome / Metatranscriptome | 124 | N |
| F069373 | Metagenome / Metatranscriptome | 124 | Y |
| F080569 | Metagenome / Metatranscriptome | 115 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0208862_100609 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 1068 | Open in IMG/M |
| Ga0208862_100883 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria | 951 | Open in IMG/M |
| Ga0208862_101057 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 896 | Open in IMG/M |
| Ga0208862_101331 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Pseudonocardiales → Pseudonocardiaceae → Actinokineospora → Actinokineospora spheciospongiae | 822 | Open in IMG/M |
| Ga0208862_101347 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 818 | Open in IMG/M |
| Ga0208862_101486 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 792 | Open in IMG/M |
| Ga0208862_101773 | All Organisms → cellular organisms → Bacteria → Terrabacteria group | 745 | Open in IMG/M |
| Ga0208862_101871 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 729 | Open in IMG/M |
| Ga0208862_102018 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii | 711 | Open in IMG/M |
| Ga0208862_102319 | Not Available | 677 | Open in IMG/M |
| Ga0208862_103130 | Not Available | 602 | Open in IMG/M |
| Ga0208862_103178 | All Organisms → cellular organisms → Bacteria | 600 | Open in IMG/M |
| Ga0208862_103198 | All Organisms → cellular organisms → Bacteria | 598 | Open in IMG/M |
| Ga0208862_103578 | Not Available | 572 | Open in IMG/M |
| Ga0208862_103581 | Not Available | 572 | Open in IMG/M |
| Ga0208862_103624 | Not Available | 569 | Open in IMG/M |
| Ga0208862_103696 | Not Available | 565 | Open in IMG/M |
| Ga0208862_103914 | Not Available | 552 | Open in IMG/M |
| Ga0208862_103951 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii | 550 | Open in IMG/M |
| Ga0208862_104141 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii | 540 | Open in IMG/M |
| Ga0208862_104373 | Not Available | 528 | Open in IMG/M |
| Ga0208862_104531 | Not Available | 520 | Open in IMG/M |
| Ga0208862_104726 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 511 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0208862_100609 | Ga0208862_1006092 | F069373 | VGSVDYSVIPVYLVLVLITFGIIFRKELRARRIQRKLKKAGIPGGTAEPPLLSTRLYELDKIFGPFGSDAAHPSALYAHKQFIEAVGLLALPSVPLAVVMQYVEGNSWSLASAAIAALRKRSDRGEAVERVLVQCGHYSPWAMYFALDFLADAAPRVAVGAPVTHAKDWWVDSRWMPNMFRDYFVRCAGQGDEATFGTTL |
| Ga0208862_100883 | Ga0208862_1008833 | F007135 | MSRVLVIRHHDIDSAGFVADALAARGAELDVHLYPDGAAPLPALDGAD |
| Ga0208862_101057 | Ga0208862_1010571 | F001268 | MTQLTEQQPTGQQPAEQEQSPVIPRPHTDAAALRAIDHAKGELHERIEHIKAAPQDHHPKLVLSDQVRGTSLLDKIADGVNRVCGSMWVFLGITIGIVVWLFLGNIVGFDKTPWPLLLVILNLPQLSIMISLQVSANRSQAASDRRAIADHETLIALHEMGKQQLDILHGQDQVLAILDNFASQEMPERQ |
| Ga0208862_101331 | Ga0208862_1013311 | F000819 | GGDSETVTREREFTRRGRPPGPLGEDAVARVRSYFQRNASARLAMAYYYEEFILGRPAPQPVPMINVVIALDLSGEGAVSDYKKLLQGLIWQERGHARDLAGFLLGNGLLTPADLDQARRVAAANERAGICERARLRLQYRPKDT |
| Ga0208862_101347 | Ga0208862_1013472 | F069088 | MGQMEIRIILDRAEPPAGRLRAVPHPGHCHAGQDEEIRFTGWLGLLRALYEVTGGPGAGSVPVP |
| Ga0208862_101486 | Ga0208862_1014861 | F021836 | MSAMDERTALRSRTRAGLARLAGPWWMFLLTGIAWLILSWIA |
| Ga0208862_101735 | Ga0208862_1017352 | F080569 | PDGDGKVVVRRSPLATAVVRIRDVPGATVFRVHGGGLPLYRIGTTRRVTEALRRSPEFRS |
| Ga0208862_101773 | Ga0208862_1017732 | F013580 | MAGFMLWLSVVVDEACTQVWEAWRSGASVTSLRVSPAVYTAVAAARPAETARDYPLMLLGLPLVADAEVATYAPVVMRKDVRKETPC |
| Ga0208862_101871 | Ga0208862_1018712 | F024627 | MALDADRKNGPAARCFAADAHDCIMVRIKRPYRIQVCGTKMCPNGELASDPQETDRHRPDAEDMQKVPVAGHLRSACSGVKALRNTSDARRHAAKLCYRFGPLTPSARSANLIAGDGTWRNR |
| Ga0208862_102018 | Ga0208862_1020182 | F014832 | EHMRSGFTLEGERETYLHRIAFDTLAEAALDPQASKALILETAESRWLGR |
| Ga0208862_102084 | Ga0208862_1020841 | F001075 | GESFVVFGFGYDIEAMLQDVVVTEQLKNSFTLEGERETYLHRIAFQMLADASLDPVASRELILETAESQWSGARRHAHV |
| Ga0208862_102319 | Ga0208862_1023191 | F028020 | MDVKAVSRFAATFVTDTTNPPAPRPRWLRRGRYDLVEVADVITALICFAVTNSTLTDE |
| Ga0208862_103130 | Ga0208862_1031302 | F013664 | AKHAAVHLSVAQQAAAQRAITAHAYSVGFSKGYLVSAGIALLALIITVVAIRVKREDLAGVNPMAAPTD |
| Ga0208862_103178 | Ga0208862_1031781 | F001373 | MESQHADANEELLLELTSKNTTRSIKDFSPEGISLESNLEGEAKGVYNATFYATITMLVKPDRTIDYEVRQIHTTSDGDTVLVYYKGKSIIESPTHNKFVGETTFQTSSKKLAWLNGMKARHEGEYNPVAGENDFRVYGKR |
| Ga0208862_103198 | Ga0208862_1031982 | F011941 | MAEPHPRGDPFRVHIAYSFDRLLEAKLTQVYEILVPCRERAVGVRGKELNNENDRNLCP |
| Ga0208862_103578 | Ga0208862_1035782 | F005867 | VLLPNAMKPGIHGARTHWIRGFMAFQLARYARTVLLTVP |
| Ga0208862_103581 | Ga0208862_1035811 | F009902 | MAGRRRLDQVDAMRPLKQVGVVSTHTIITFAPAGAAVLSN |
| Ga0208862_103624 | Ga0208862_1036241 | F038828 | CHAGAATVFLAYADTDVFDLGSSVQSVAMVFERIGGLWKLATAVNHADGSGWPALCTQRTPPTAAPELAPGSYTSDLARVLTRADSGAAQTTQTASPFAVNDFLAGPGSIPALSATQIRQDRQGGVTFTGSFAPAPGPTFALPLANGRGFWIIGNLTQSGTYSAPSGVRAKDWPDGNQVAIPRPAVVHH |
| Ga0208862_103696 | Ga0208862_1036961 | F012078 | LHPSWNERIPGTAGYQHILEALVWHSASEFGLLLARIDPSPAQRLVADIEKIPPVIRALHHREFLDDVAPFIAKVAEVVADVDIAIAEELVRPMGTPARDTALAKVAMVAARTDSTRAGQIAFTVTGRPRQAPGQAPPPPSMLVDPDQAIYWKVRALTEIAIVVARADADRSVRRPDDAERFTRTIA |
| Ga0208862_103914 | Ga0208862_1039142 | F055875 | PVNPVSHGCVRIPMDIAAFFHNMVKTPGTEVFVYK |
| Ga0208862_103951 | Ga0208862_1039512 | F056089 | HNQADDMVCVLRPPGEDPRAILRVARLVLPEDPYEELAEQLGVPASWPME |
| Ga0208862_104083 | Ga0208862_1040832 | F039375 | MTNEFENFNDRDEEWLRELELRATDLENDLFDWREAHA |
| Ga0208862_104141 | Ga0208862_1041411 | F017543 | VTPVQPAVQPAAMMSGRYQRAFTVAVVFLVAGWHLAGAGGQLLHNRAAYGSFAFQGAMWLVMALAITAGSVLVLRGTPGWRSA |
| Ga0208862_104373 | Ga0208862_1043731 | F016563 | MAGLPEVIGLLYRADWTRLSLSAEVRFEQDGDLTRRRENAVRAESMRRMGFRPGSPGMPDVEQEPDAERDVYHRWHAALLIAPGRRYRLEYEGDHGGQADGSD |
| Ga0208862_104531 | Ga0208862_1045311 | F018630 | NLFFAADPEARATAEELISAVGLEPAFLGDATATQTVDALLPLWFALVKLNGGDRKVALRIVR |
| Ga0208862_104726 | Ga0208862_1047262 | F017693 | MATKQNVLGRIDAGREIRRPPLVGMQFLHQGTVGATDILRGRAGLNAK |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |