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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 | 3300027101 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0085736 | Gp0057308 | Ga0208727 |
| Sample Name | Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF027 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 18759515 |
| Sequencing Scaffolds | 17 |
| Novel Protein Genes | 17 |
| Associated Families | 17 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1 |
| Not Available | 5 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 1 |
| All Organisms → cellular organisms → Bacteria → Acidobacteria | 5 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group | 1 |
| All Organisms → cellular organisms → Bacteria | 2 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micrococcales → Dermacoccaceae → Demetria → Demetria terragena | 1 |
| All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 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) | 42.471116 | 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? |
|---|---|---|---|
| F001179 | Metagenome / Metatranscriptome | 756 | Y |
| F002451 | Metagenome / Metatranscriptome | 558 | Y |
| F007494 | Metagenome / Metatranscriptome | 350 | Y |
| F009221 | Metagenome / Metatranscriptome | 321 | Y |
| F011345 | Metagenome / Metatranscriptome | 292 | Y |
| F011772 | Metagenome | 287 | Y |
| F017693 | Metagenome / Metatranscriptome | 239 | Y |
| F018409 | Metagenome / Metatranscriptome | 235 | Y |
| F019167 | Metagenome / Metatranscriptome | 231 | Y |
| F020264 | Metagenome / Metatranscriptome | 225 | Y |
| F035373 | Metagenome / Metatranscriptome | 172 | Y |
| F041876 | Metagenome / Metatranscriptome | 159 | Y |
| F053405 | Metagenome / Metatranscriptome | 141 | Y |
| F065993 | Metagenome / Metatranscriptome | 127 | Y |
| F070357 | Metagenome / Metatranscriptome | 123 | Y |
| F075255 | Metagenome / Metatranscriptome | 119 | Y |
| F091687 | Metagenome / Metatranscriptome | 107 | Y |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0208727_100107 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1411 | Open in IMG/M |
| Ga0208727_100729 | Not Available | 849 | Open in IMG/M |
| Ga0208727_100770 | All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium | 837 | Open in IMG/M |
| Ga0208727_100813 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 822 | Open in IMG/M |
| Ga0208727_101260 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 736 | Open in IMG/M |
| Ga0208727_101612 | Not Available | 689 | Open in IMG/M |
| Ga0208727_101961 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 652 | Open in IMG/M |
| Ga0208727_102784 | All Organisms → cellular organisms → Bacteria → Terrabacteria group | 592 | Open in IMG/M |
| Ga0208727_102994 | Not Available | 579 | Open in IMG/M |
| Ga0208727_103308 | All Organisms → cellular organisms → Bacteria | 563 | Open in IMG/M |
| Ga0208727_103360 | Not Available | 561 | Open in IMG/M |
| Ga0208727_103553 | All Organisms → cellular organisms → Bacteria | 552 | Open in IMG/M |
| Ga0208727_103563 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micrococcales → Dermacoccaceae → Demetria → Demetria terragena | 551 | Open in IMG/M |
| Ga0208727_103955 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 534 | Open in IMG/M |
| Ga0208727_104351 | All Organisms → cellular organisms → Bacteria → Acidobacteria | 518 | Open in IMG/M |
| Ga0208727_104443 | All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium | 515 | Open in IMG/M |
| Ga0208727_104908 | Not Available | 501 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0208727_100107 | Ga0208727_1001074 | F065993 | GSANFKTAVGAQFGNIPDDAEVALDVVALLFPPSAPFDVAASVLLELAVYCAPSIHLAPDPDPMVDAQTTLSRTGRA |
| Ga0208727_100729 | Ga0208727_1007291 | F041876 | FWLRDYHHAELFKDPGKLPEPSLQELHIVANCLECRGTGKLLGDERCRYCEGRGTVWVIVSRKN |
| Ga0208727_100770 | Ga0208727_1007701 | F002451 | LAEDLKFELAILATVQGFYQKLLRDSLGGDVPIPSGLDEVSLRHSEGDLPETLSRMYRWLHLLDMAITPAMLRQALTPDVDSEVAEALLRYFVRRREASEVNRDKTDLIATFLYRHPRVQGQWQQHGYGLDGALPLSP |
| Ga0208727_100813 | Ga0208727_1008132 | F075255 | MANVKPVVVLTGIAGNLGSRLLPLLGDFSVIGVDLSPPQTDLPLQFER |
| Ga0208727_101260 | Ga0208727_1012601 | F070357 | GVAELKTFGWHETASNDDGGVAAAIEHFALREATPCA |
| Ga0208727_101612 | Ga0208727_1016122 | F011345 | MRRRLRNQLMLDLDCGGRQRPAIPAPEELLNALADLLLEALGNQKNVMPAEREACDAFQD |
| Ga0208727_101961 | Ga0208727_1019611 | F053405 | MEALTRLVADSLARHGFDRPVDPRRLQWSRWFRCDSTHSLLVVPSKPGIFALAEDIMD |
| Ga0208727_102784 | Ga0208727_1027841 | F009221 | WGLDFHSFGGQDDPAFITRMLAWLHANHAIGIYWAFQHVAPEPAVPPGPLLPNQGAYAGGPPGVNGLGLLLGGRLQYAEAFLPDQQPISDSSAQAVLAAWPATGYQLILGVPLVPLTVPTYNGPPEPGLQPYQLANYPDALAAFRQGVR |
| Ga0208727_102994 | Ga0208727_1029941 | F035373 | VSKTAAVVLAFLSLMLFPTLSKAQQSGGDHSGGGLLPSGNVYVGAAYADNVDVVNRLTFRGWNASFEDFALRRFSHLSFVADGSGFYREGVQ |
| Ga0208727_103308 | Ga0208727_1033081 | F011772 | KITAETELTCLMFTAWVFRPFAMEHPESSWALLEMMVQRVRDAESR |
| Ga0208727_103360 | Ga0208727_1033602 | F020264 | KEALRVPASSKHQATVLGHGPDAVPELVRVLDELGVLS |
| Ga0208727_103553 | Ga0208727_1035531 | F017693 | MATKKDVLGLIDAGGEIRRPPLVGMQFLHQGAVSTADRVRVGAGLNA |
| Ga0208727_103563 | Ga0208727_1035631 | F001179 | AEADKSFEEIAETAHAKDQDLQEAQAYGHMAEYQTDDNAALKYLQQAEESLAHRTISQGDKDEELSRILRNRTVRAAHAGSQPLADQSLKQLEALAASGRNRIVQSSYNGAAGTLLMDQKKFDEAITYLEEDQANPFSMELLVQAYYQTNHPDKLAEADPHVQVMHRTEKAGLGKAYVAGFGW |
| Ga0208727_103955 | Ga0208727_1039552 | F007494 | MKQNLRVSLGAVVLALATLAAMIFAWLNFVQRTEFESP |
| Ga0208727_104351 | Ga0208727_1043511 | F091687 | MKCTTVRTKLAGYLDDALTDTTSAAERVQIGQHLNGCTVCRAELERFRKLSVLLSRMPKNVPPADLAVRIKVAAAQAQHSQDWSSRLRKMRDRAEILLDNVFRPLTVPATGGVFSAVVVF |
| Ga0208727_104443 | Ga0208727_1044431 | F018409 | AGVTGAYIGVINNGVLTQEGPVLTTDTTATGAITTVTASQQAAPASGIPSP |
| Ga0208727_104908 | Ga0208727_1049081 | F019167 | VTTVRIVHALRHNRPARAPDGSDVADWRLVQRLIVLADDAGHRAVPLWVVAGHKGLLGRLGRPAADAEVTSGLLETAVRLLRTAGTAVSAVDIE |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |