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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 | 3300027099 Open in IMG/M |
| GOLD Reference (Study | Sequencing Project | Analysis Project) | Gs0085736 | Gp0057307 | Ga0208726 |
| Sample Name | Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF026 (SPAdes) |
| Sequencing Status | Permanent Draft |
| Sequencing Center | DOE Joint Genome Institute (JGI) |
| Published? | N |
| Use Policy | Open |
| Dataset Contents | |
|---|---|
| Total Genome Size | 15419329 |
| Sequencing Scaffolds | 30 |
| Novel Protein Genes | 34 |
| Associated Families | 32 |
| Dataset Phylogeny | |
|---|---|
| Taxonomy Groups | Number of Scaffolds |
| Not Available | 9 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 2 |
| All Organisms → cellular organisms → Bacteria | 4 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 3 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 9 |
| All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria | 1 |
| All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 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? |
|---|---|---|---|
| F000083 | Metagenome / Metatranscriptome | 2471 | Y |
| F000156 | Metagenome / Metatranscriptome | 1877 | Y |
| F000514 | Metagenome / Metatranscriptome | 1062 | Y |
| F000708 | Metagenome / Metatranscriptome | 926 | Y |
| F003045 | Metagenome / Metatranscriptome | 511 | Y |
| F003793 | Metagenome / Metatranscriptome | 468 | Y |
| F006319 | Metagenome / Metatranscriptome | 376 | Y |
| F006679 | Metagenome / Metatranscriptome | 367 | Y |
| F007656 | Metagenome / Metatranscriptome | 347 | Y |
| F007822 | Metagenome / Metatranscriptome | 344 | Y |
| F010428 | Metagenome / Metatranscriptome | 304 | Y |
| F012290 | Metagenome / Metatranscriptome | 282 | Y |
| F015805 | Metagenome / Metatranscriptome | 252 | Y |
| F016708 | Metagenome / Metatranscriptome | 245 | N |
| F017181 | Metagenome / Metatranscriptome | 242 | Y |
| F018406 | Metagenome / Metatranscriptome | 235 | Y |
| F021837 | Metagenome / Metatranscriptome | 217 | N |
| F021875 | Metagenome / Metatranscriptome | 217 | Y |
| F024143 | Metagenome / Metatranscriptome | 207 | Y |
| F025158 | Metagenome / Metatranscriptome | 203 | N |
| F030235 | Metagenome / Metatranscriptome | 186 | Y |
| F053913 | Metagenome / Metatranscriptome | 140 | Y |
| F055300 | Metagenome / Metatranscriptome | 139 | Y |
| F055962 | Metagenome / Metatranscriptome | 138 | Y |
| F063010 | Metagenome / Metatranscriptome | 130 | N |
| F063125 | Metagenome / Metatranscriptome | 130 | Y |
| F067153 | Metagenome / Metatranscriptome | 126 | Y |
| F072553 | Metagenome / Metatranscriptome | 121 | Y |
| F080276 | Metagenome / Metatranscriptome | 115 | Y |
| F088860 | Metagenome / Metatranscriptome | 109 | Y |
| F089285 | Metagenome / Metatranscriptome | 109 | N |
| F092161 | Metagenome / Metatranscriptome | 107 | N |
| Scaffold | Taxonomy | Length | IMG/M Link |
|---|---|---|---|
| Ga0208726_100025 | Not Available | 2680 | Open in IMG/M |
| Ga0208726_100030 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 2590 | Open in IMG/M |
| Ga0208726_100064 | All Organisms → cellular organisms → Bacteria | 2173 | Open in IMG/M |
| Ga0208726_100104 | All Organisms → cellular organisms → Bacteria | 1929 | Open in IMG/M |
| Ga0208726_100157 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria | 1735 | Open in IMG/M |
| Ga0208726_100183 | Not Available | 1658 | Open in IMG/M |
| Ga0208726_100262 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 1468 | Open in IMG/M |
| Ga0208726_100279 | All Organisms → cellular organisms → Bacteria | 1433 | Open in IMG/M |
| Ga0208726_100387 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 1264 | Open in IMG/M |
| Ga0208726_100898 | Not Available | 878 | Open in IMG/M |
| Ga0208726_100943 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 856 | Open in IMG/M |
| Ga0208726_101198 | Not Available | 771 | Open in IMG/M |
| Ga0208726_101546 | Not Available | 699 | Open in IMG/M |
| Ga0208726_101718 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 672 | Open in IMG/M |
| Ga0208726_101917 | All Organisms → cellular organisms → Bacteria | 648 | Open in IMG/M |
| Ga0208726_102021 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 633 | Open in IMG/M |
| Ga0208726_102171 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 616 | Open in IMG/M |
| Ga0208726_102231 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 609 | Open in IMG/M |
| Ga0208726_102379 | All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia | 594 | Open in IMG/M |
| Ga0208726_102456 | All Organisms → cellular organisms → Bacteria → Proteobacteria | 588 | Open in IMG/M |
| Ga0208726_102546 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 580 | Open in IMG/M |
| Ga0208726_102804 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 559 | Open in IMG/M |
| Ga0208726_102994 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae | 545 | Open in IMG/M |
| Ga0208726_103078 | Not Available | 539 | Open in IMG/M |
| Ga0208726_103458 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 518 | Open in IMG/M |
| Ga0208726_103511 | Not Available | 515 | Open in IMG/M |
| Ga0208726_103524 | Not Available | 515 | Open in IMG/M |
| Ga0208726_103601 | Not Available | 511 | Open in IMG/M |
| Ga0208726_103798 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium | 502 | Open in IMG/M |
| Ga0208726_103833 | All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales | 501 | Open in IMG/M |
| Scaffold ID | Protein ID | Family | Sequence |
|---|---|---|---|
| Ga0208726_100025 | Ga0208726_1000252 | F089285 | RWSRRLRSAGDWRWRRGGCSATDTRARPAARRTTIQHTAHHPGAGIEICYPYHPLYRQTATVLRVEHTKGESHLRVITEAGEERLIPRWMSDPNAFQPSSVEQPLIGLDALRHLLRVVFSSPLHLSRRDQEGRRDDPIAPVSAASEPQRATSQQGVQRSERPCRQPADCSDCGEQKETAAAGDRQP |
| Ga0208726_100030 | Ga0208726_1000302 | F006679 | MKPSDRYSVSLCTSCHELQHRFGELTFWSVLRIDPLNVALRLWTVSGDLEAGERIVFR |
| Ga0208726_100064 | Ga0208726_1000642 | F030235 | EAIITQLVNRSATADLRAIKILLDMLRDIEGQAEPASPETSAFSEADEKVIEQLRARFSKAEK |
| Ga0208726_100104 | Ga0208726_1001041 | F030235 | GGRRTISKRRAIITQLVNRSAKGDLRALKILLDILQEMERRIEPGSSETFSFGEADQKVIEQLKMRFSKGEK |
| Ga0208726_100157 | Ga0208726_1001571 | F092161 | EGGGAAVEGPASEAQVDLLYRQIGQLKVENDLYEGLGVKQDAVLLCAAMTAAL |
| Ga0208726_100183 | Ga0208726_1001831 | F000708 | MTKPDLALSQIAARFTQHDVEWSRGAFMIIDRRTTNPIARLRPIPDTDRFELFYWSNLKGRWTTFGNLGRMKLMLK |
| Ga0208726_100262 | Ga0208726_1002621 | F088860 | MGPPLRSFAADAHGCIMVRVPGPAGYKVVARLIRARK |
| Ga0208726_100279 | Ga0208726_1002792 | F016708 | MGKQRREQPQDSIFVDNPFVDEFLEWMGSREGRQCIEVRDVLWDLLEDAQLDAKQRQLIWPDAERLDLVQSIQRIQKLYPDFPGHEIEEVLLNWIDMGYDPKNYSQAQLNEFDSLTERWVADHLRNANASKTRK |
| Ga0208726_100387 | Ga0208726_1003871 | F063010 | MDTTASSFTARNNAKRAAEKMIANGKAPAVNYGIRPRDDGRFEIVWKTAPTTGEVEAEIATAATAAEDGHYNTNPRFSVNEDPSDAPPNAGAEEAAAATGNEPAASSVPASGAPERDNKWPDGTRVMVRNKPKSWSEATIYTRLDAEYWRVQYPSGGTGMFKEGDLRAYDAERDAKRARQPRRARAAGPRAASRSRYALDPAVIAAGKLPDKAPVVTSAANPHYQKRFDELHKLAAAGDWAAVRDYKVSGSNSYSKLVARYQQDLLALHAAWEAAQ |
| Ga0208726_100696 | Ga0208726_1006961 | F000083 | MSTLDEITQEKQRVSEALARIDAQRQKLAGQLGELEATERVLARYNTGTKRTVSAKSPPSPTKAVAPAQRQRGRRPATTAKPGDGRRTSATLSDQVLALATGRTQHEIASACKGARPNHVGAAISRHKRAGRIEERDGKLYASQATEAAQHAAV |
| Ga0208726_100898 | Ga0208726_1008981 | F025158 | MLQSEVLQPLETTRNKIKEQLSTVQEYRLLVALEKCIAQIPDISNDTMTTLERVRERLKECLQEVRDYRALRAIEETIVEVRSILAEAPSAVQPQAAE |
| Ga0208726_100943 | Ga0208726_1009431 | F055962 | VSSDEKVFDFPKAEITSEEKVRRAMAEAKRLASLAPGEWRLWIDRAAERLGVPRATLEGLISAIIKDSERKA |
| Ga0208726_101198 | Ga0208726_1011981 | F003045 | IRGDAAAIFLALLTLFMSGASAQGTKGPNVIIRLRLAGESVALPPIRSCLVDKLSQMPDVKVATMPTDGARFIVDIVASKSTDENISASLMVAETFPMEQFRPRIKEGEDADALLKSIRYYVLLRMHELIPARSSESLCLTIAADIGDKVLSKEYTERSD |
| Ga0208726_101546 | Ga0208726_1015462 | F021875 | MSTDSISPPSRSSSPAARRMRRYRKQRRQGLRSVRILLDETDIDALIRMRLLKEDQRQNVEALQTAVLGLVYRAQEDLA |
| Ga0208726_101718 | Ga0208726_1017181 | F006319 | MAYERLDKALRQLKTDRERAEATENQRKRAGEEARIRFARIKSAVIGPIFDEVVARLVAKGFFGETVDEQNDASGPISLDVNLSEDDGPSRQGRLQVRFDLDKHTCEFGKSTSAKTASTIQIMFDDRHYKFDEITE |
| Ga0208726_101917 | Ga0208726_1019171 | F088860 | MAVMPRGRMGPPSRSFAADAHGCIMVRVPGPAGYKVVARLIRARK |
| Ga0208726_102021 | Ga0208726_1020211 | F003793 | MVFMPNKSTPDYWFEKAHQCFRRSRTDSNARVELEALGNEFMVEAIDLDIKLQNLAKGNYTASSPARA |
| Ga0208726_102171 | Ga0208726_1021712 | F017181 | MLTCEGRALVTEIQDRLIELYVQQDEARREHDPDRAHELQVEIDKATVQREEIPR |
| Ga0208726_102231 | Ga0208726_1022311 | F018406 | VAHRNREVPEERALNLRCAVHLGEVDIVSNDREGPHVSLAFRLEEISRASLPAALNPIPPEQFPLQNYVLCSEEVAGILSRRATRWELASIGLLKLKGFPGWREVFRVLPEVHPSDLSEAGGRPG |
| Ga0208726_102379 | Ga0208726_1023791 | F055300 | MQLVPNQLPPERLIVSLDAQESRVAEDGADSPFVLKGAGTMSGNSRWIFIGVIIGAILLSIGGIIYTRLAGKEGDRFGFHTFIKARTHHLAEPGSTASPAPIVIQLSPEMVRVSAIALGHPRLAVINGKTVAEGDNVHLQAPNASLGLILRVVKI |
| Ga0208726_102456 | Ga0208726_1024562 | F000514 | MLAERRFPVRIRIGIPPEGLGRRHAQLTAWLDENCGADGWAMTPSGTRGVLNDAVSIYFPDPALAGAFVARWCIGYKVETAE |
| Ga0208726_102530 | Ga0208726_1025301 | F067153 | EAEDERTRAICSGMVLERAWGKPREYDPDKEAPKRVPPFNPDLYTTDELRQMQAVMLMMARRQGLVPEEGEAV |
| Ga0208726_102546 | Ga0208726_1025461 | F053913 | VVRLNFGAGASRGSCSTTQFEGRLAMKAVSCCATTLALMAAIGLSPAMGQGPKPSGGRTWPGIAQPVEHDADPAHSANPSFQGASPQGTSQRGFVVMPFDPEAAKIKPHYEWQYHYTGRHAHWEGHWTL |
| Ga0208726_102689 | Ga0208726_1026891 | F000156 | MARRTPPRKVTYFEPVPPRLARNTIIESTFEVGRRFRCTMRVDCGQLDPGALIRPVPGEWHPRMPERLDEEELADWRTGRNPVYQLAALTIGARLALAEA |
| Ga0208726_102804 | Ga0208726_1028042 | F012290 | MAGRNCGKVTAGNLTPSGCALVALLLLAAALSPPTAVAQRTPQPVFTELFIYDPAAPSQLLGKWLISSQLDTKLQPLRVGVVEDPIGKTVGRVTVQEGDGLDGASEAMLQTKRYVCDSKGSRAAAMEAEPGGVVPSERAEIQVR |
| Ga0208726_102994 | Ga0208726_1029942 | F063125 | MVRPRPIRRAIHLEFAFDRLLAAKLEQAYDILVPGRVRLVGRAK |
| Ga0208726_103035 | Ga0208726_1030352 | F080276 | LAEALAAIMAAYPEADRIRCYEYSVDNEFPVEVAPLLRSGEKWLPGD |
| Ga0208726_103078 | Ga0208726_1030782 | F021837 | AGRALGSASKFLPRWMVRMRPLLLPAFLAFTAAVLPPNASIGQDAGFGRDADVHVREDSFACKETSELDRLLQRNQSGGFTSGVQLYEYLQSHNCIGLSAGRVRVRATHGQYVCIYDPKGKNKTMKPCAWTRKDMLSK |
| Ga0208726_103458 | Ga0208726_1034581 | F024143 | FVPLQFWNESLATVSATNPLFEALTSTSWEFVCWDQVQLTGPVGINVNLTQAFQGTRKGIVRAGPAMKVENGAPNDDIGPVTLLGLIETTEGTAANVFLERKYNFNVNVTGTPVATRFVPFPFSGPSTPPAAD |
| Ga0208726_103511 | Ga0208726_1035111 | F015805 | MRAAEIEDFLEGFNQPTYRGMRVNGVRVATWSSRDGWSGDSRPEAEWLR |
| Ga0208726_103524 | Ga0208726_1035241 | F007822 | MIPRTAIAQIAKEIGRELNSGAQPSEEALAIGPILAEAGATPEIVGRLFAEAQRNRRNDRMIHAYAFMLEGALGTLRVQASGGDVGADHTIAAVHKEVADNLRKSSIAPDVLMLVARAFARAE |
| Ga0208726_103601 | Ga0208726_1036011 | F007656 | MSLYRCRFLDSTFNVFEIQGVACENDAEAIMMARRMSANTGADRFELWQNERCVHSETMA |
| Ga0208726_103798 | Ga0208726_1037981 | F010428 | LTRKGGYAFDSWTPEEGLSRGYTYGRIEDARHARNFEIRSRKKGDSDHTIACSTVDDFVRLTI |
| Ga0208726_103833 | Ga0208726_1038332 | F072553 | MIFSDLPSPAEASSQTMSRAKGFAQAGNGFPPRIKCGAGFFGITL |
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Bioinformatics & Integrated Biology Lab Institute for Fundamental Biomedical Research Biomedical Sciences Research Center "Alexander Fleming" |