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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 | 3300001647 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0085736 | Gp0057368 | Ga0003882 |
| Sample Name | Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF043 |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 14198901 |
| Sequencing Scaffolds | 27 |
| Novel Protein Genes | 28 |
| Associated Families | 26 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 1 |
| Not Available | 17 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group | 2 |
| All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 3 |
| 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? |
|---|---|---|---|
| F000416 | Metagenome / Metatranscriptome | 1167 | Y |
| F000670 | Metagenome / Metatranscriptome | 946 | Y |
| F000819 | Metagenome / Metatranscriptome | 878 | Y |
| F000830 | Metagenome / Metatranscriptome | 872 | Y |
| F000906 | Metagenome / Metatranscriptome | 842 | Y |
| F001187 | Metagenome / Metatranscriptome | 754 | Y |
| F001406 | Metagenome / Metatranscriptome | 703 | Y |
| F002846 | Metagenome / Metatranscriptome | 526 | Y |
| F003609 | Metagenome / Metatranscriptome | 477 | Y |
| F004082 | Metagenome / Metatranscriptome | 454 | Y |
| F018565 | Metagenome / Metatranscriptome | 234 | Y |
| F018761 | Metagenome / Metatranscriptome | 233 | Y |
| F022708 | Metagenome / Metatranscriptome | 213 | Y |
| F025019 | Metagenome / Metatranscriptome | 203 | Y |
| F025072 | Metagenome / Metatranscriptome | 203 | Y |
| F043534 | Metagenome / Metatranscriptome | 156 | Y |
| F046410 | Metagenome / Metatranscriptome | 151 | Y |
| F049817 | Metagenome / Metatranscriptome | 146 | Y |
| F055935 | Metagenome / Metatranscriptome | 138 | N |
| F062547 | Metagenome / Metatranscriptome | 130 | Y |
| F069096 | Metagenome / Metatranscriptome | 124 | N |
| F070938 | Metagenome / Metatranscriptome | 122 | Y |
| F084479 | Metagenome / Metatranscriptome | 112 | Y |
| F084556 | Metagenome | 112 | Y |
| F099251 | Metagenome / Metatranscriptome | 103 | N |
| F103708 | Metagenome / Metatranscriptome | 101 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| JGI20277J16323_100131 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Actinomycetales | 1323 | Open in IMG/M |
| JGI20277J16323_100246 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia | 1114 | Open in IMG/M |
| JGI20277J16323_100248 | Not Available | 1111 | Open in IMG/M |
| JGI20277J16323_100464 | Not Available | 900 | Open in IMG/M |
| JGI20277J16323_100484 | All Organisms → cellular organisms → Bacteria → Terrabacteria group | 888 | Open in IMG/M |
| JGI20277J16323_100707 | Not Available | 795 | Open in IMG/M |
| JGI20277J16323_100755 | All Organisms → cellular organisms → Bacteria → Terrabacteria group | 780 | Open in IMG/M |
| JGI20277J16323_100974 | All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium | 723 | Open in IMG/M |
| JGI20277J16323_100989 | Not Available | 719 | Open in IMG/M |
| JGI20277J16323_101192 | Not Available | 675 | Open in IMG/M |
| JGI20277J16323_101595 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptosporangiales → Treboniaceae → Trebonia → Trebonia kvetii | 618 | Open in IMG/M |
| JGI20277J16323_101662 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 609 | Open in IMG/M |
| JGI20277J16323_101768 | Not Available | 598 | Open in IMG/M |
| JGI20277J16323_101833 | Not Available | 593 | Open in IMG/M |
| JGI20277J16323_101860 | All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Leotiomycetes → Helotiales → Sclerotiniaceae → Sclerotinia → Sclerotinia sclerotiorum | 591 | Open in IMG/M |
| JGI20277J16323_102157 | Not Available | 564 | Open in IMG/M |
| JGI20277J16323_102170 | Not Available | 563 | Open in IMG/M |
| JGI20277J16323_102187 | Not Available | 562 | Open in IMG/M |
| JGI20277J16323_102215 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 560 | Open in IMG/M |
| JGI20277J16323_102229 | Not Available | 559 | Open in IMG/M |
| JGI20277J16323_102606 | Not Available | 531 | Open in IMG/M |
| JGI20277J16323_102767 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 522 | Open in IMG/M |
| JGI20277J16323_102843 | Not Available | 518 | Open in IMG/M |
| JGI20277J16323_102977 | Not Available | 511 | Open in IMG/M |
| JGI20277J16323_103074 | Not Available | 507 | Open in IMG/M |
| JGI20277J16323_103164 | Not Available | 503 | Open in IMG/M |
| JGI20277J16323_103166 | Not Available | 502 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| JGI20277J16323_100131 | JGI20277J16323_1001311 | F099251 | VPDWDNTESRERDEDAAWRDLVARFDAPLTEQQPVP |
| JGI20277J16323_100246 | JGI20277J16323_1002461 | F001187 | MLSSVDVDELRHALGSVVLEAAYLERTLRTAFSALVGSKYAAVVDGRLTAAALLEDCERITQYHTGLTKAAKEALLAALRACRQANKERNRVIHDTWATRPGSSMVTLHDERRSHDVLITAQTLSEVRQLADQVAGAADELRAAMATAL |
| JGI20277J16323_100248 | JGI20277J16323_1002482 | F000906 | MLDRLAAHRPPTTRNLSPRTHRITIGTAALIPALLIGVLGSTASRTPHDSGLVACTYPLSTQDVPATDYPKIRAQFAGSRWPDLRNAGTAYVDLATALLNARGTDGYQTVWFYQRLSAACAKHSQ* |
| JGI20277J16323_100464 | JGI20277J16323_1004643 | F025019 | MFGFAGVLVAAVATGLLAGRAVRQPRLDTILWTAGTLALTVALAAQSMGFASGFGPATFRAVQLFA |
| JGI20277J16323_100484 | JGI20277J16323_1004841 | F025072 | MPDHSNITHPLLRLGRLPLGPGLRDLVPGTAGSDLVVTATVAVPDSSVSQAYAWDVAWTDAVREASQLGADPDTAQALERGAGTA |
| JGI20277J16323_100707 | JGI20277J16323_1007072 | F002846 | MILIFYSWTALNGASGSSVAMGITDDRGRAMRAGEECLDSGQAIVVIIDAVRPAMAPRTLAPCYVRTGVSWLGQRTGAGEVSWNRFFAPADPDDPRGPGRMGA* |
| JGI20277J16323_100755 | JGI20277J16323_1007551 | F000416 | VSEVPDEVWESDDCVRRMLVLPARLAERLAAQAEQRGLSFSDLLVEYAQDGL |
| JGI20277J16323_100974 | JGI20277J16323_1009741 | F004082 | KHCRDPWLRMGSVVGMTFPLVGQPGHGRTAFVRRQPVRIVDGRVEGGYTDVFEFICPGCGDNPYVDYSEVPSRLQWLRGPLTLEAALEAYDKHLAPLPGPNGDSAGS* |
| JGI20277J16323_100974 | JGI20277J16323_1009742 | F055935 | MGALFILCAIFVGLAVYRSGEARARWQSLRASRTTARNQRNTAWRHAGSAALYVVGAIFFLFIVLKLLK* |
| JGI20277J16323_100989 | JGI20277J16323_1009892 | F046410 | MAGPMVDVVRRRSERSRVRAAERHQPFGIVAAHYASMGWPVCPGAHPYRATRGSKET |
| JGI20277J16323_101192 | JGI20277J16323_1011921 | F000670 | MTNAELLALIERTGHPLTYEHFRTWVVAQSVRNALQTFXGXWAXDPDNPGSGEGFISDGQMRALNITIRRAVHEALRQADKARNVAAQPHRRMLYPAEQEALDFCEFQLGTIRDYMEPPGSPELEEAYQRYVTEPDVNR* |
| JGI20277J16323_101595 | JGI20277J16323_1015951 | F043534 | MTESSTPPGIPSPARLAAWLNDHVPGGPLELTDIQLIAGGRSNLTYRLTVSQPGAEPGAG |
| JGI20277J16323_101662 | JGI20277J16323_1016621 | F084556 | LPRFRFGVAWWSGGVALAWLALALWRTITLGSPQFAVLLFFGAVNLAMVGRVVFPGSRAG |
| JGI20277J16323_101768 | JGI20277J16323_1017681 | F003609 | MSGTNADLIPIIIIPVVALAFMLGMIFXANSHPQWGSQATADTVSTHALEGGTPAQRLSSPGPVVPGERLGRAADEVAPEQVRGSEPRKE |
| JGI20277J16323_101833 | JGI20277J16323_1018332 | F069096 | TNADDVSRGLADGTRRDRASDEEVRACLELVRASTRAIDPRARIVCAASNATATRHLDVMTASGGNTWLVRRGLDGADRALLEELDHLTDIHRMLHQPGRRHPAGPADLVILVAQDHIFARSVRRLRLLGVPTWLLVPGRLVARELFTSACAVTFIGPRPRSR* |
| JGI20277J16323_101860 | JGI20277J16323_1018601 | F000670 | MTNAELLALIERTGHPLTYEHFRTWVVAQSVRNALQTFHGGWALDPDNPGSGEGFISDGQMRALNITIRRAVHEALRQTDKARNADKARNVAAQPHRRMLYPAEQEALDFCEFQLGTIRDYMEPPGSPELEEAYQRYVTEPDVNR* |
| JGI20277J16323_102157 | JGI20277J16323_1021571 | F084479 | MTSRLLFQPEKKQVTVGPNQPGGPXRILIPVIIGVAGLLLLGLLAVPVLVGTNLFFAAGAGCSGQQTGVVGQPTAG |
| JGI20277J16323_102170 | JGI20277J16323_1021701 | F070938 | MSLGGILTILDDDPQLHDVVSRAESDTITAPGAESSAAALTGEDLVAPPT |
| JGI20277J16323_102187 | JGI20277J16323_1021871 | F018565 | MHPEIAKTLVEQRHEELTRTTAETRRNRNAGPSWLGRHLPRWHVSWTRAVLSPAGGSGTAGSGDLDRLGKRG |
| JGI20277J16323_102215 | JGI20277J16323_1022151 | F000819 | VPDGGKQLTTQAGTIVRRSSEPGEDAVARVRSYFERNATARLTMAYYYQEFILGLAAPQAVPMMNVVIALDLSGEGAVSDYKKLLQGFIWKERGHARDLADFLLANGLLTPADLDEARQAAADNERSGVCAMARQRLQYRQKDN* |
| JGI20277J16323_102229 | JGI20277J16323_1022292 | F049817 | STGAAGLQREREERYRKDRESWRARLRQYQGARQLPTSARDGWWSLDDGDEYDEMCRWPVISDDFVRGPPPAEARESA* |
| JGI20277J16323_102606 | JGI20277J16323_1026061 | F000830 | MANPAGEIGQLREEDLPVVRVIVPPDLSGRVFEDDLDPGDLVFDGKRTPMLVWHEHYPLGRGWRSGWVLSYDTDGNGNPEDYIVGLGLRDVD |
| JGI20277J16323_102767 | JGI20277J16323_1027671 | F001406 | APLRRRSRQRWMVAGGVAACWLLLEVVTGSVVSATVVLMVIAALTAAGVGGLRALGITRDHPWIRRIASRPWRDGQDVLKVVMRHLADVFVVTPSGALIAPXLVELQLNPDDLAFLCERMEPGVISASMTEVYREQVTAYGARLAGAGRAEVYVIGAGSVARGRYRLRQGDPVS |
| JGI20277J16323_102843 | JGI20277J16323_1028431 | F062547 | NSLRLWSASLSAGGEESPGDLLRQGRRWHDVLAGDVSGKDGLRLTDYVAAADSVAGKLGQTARQVVVRFKAWLIVAFLIAAGGIVLIFVGTKGTIGAGITAVLAAFGLTWKGIGEFFGRVAADGEEQLWDAEIDWAIAYRFTVLRNPPADNQLKPRSKELSIDQPTKEHLRR |
| JGI20277J16323_102977 | JGI20277J16323_1029771 | F018761 | MKFHTWVIGECDKLTAPPAGPYEXXTIGAALAPPGXKKRRVEGIAVFSTSRVLIDVIGVRQLGGLASELAKQTAQKAEKQQHAVLTDAQQLDIDALYESPPLSTGVS* |
| JGI20277J16323_103074 | JGI20277J16323_1030741 | F103708 | VEECAAYRAWLMVLPPGDAGQSCDCDVATMIAGEATEGTSASAVLRPGPVRVHGERHGKRHGEQHGLLGRGTGYSISLHARANRSSTQR* |
| JGI20277J16323_103164 | JGI20277J16323_1031641 | F003609 | MSGTNADLIPIIIIPVVALAFMLGMIFYANSHPQWGSQATADTVSTHALEGGTPAQRLSSPGPVVPGERLGRAADEVAPEQVRASEPR |
| JGI20277J16323_103166 | JGI20277J16323_1031661 | F022708 | LLGCAVTACSSGPPPIPVPTSSQAGQFRSSDAPALLVECMLSQGTLGRSDSIFSGPPSWLRNGNIVITAATQAKFDSWYRANSGISVAGMTLSEWAKWAGANDKLPAQVCGSTVTASALQRQVFGKDSAAGNPWGA* |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |