2140918023: Permafrost microbial communities from permafrost in Bonanza Creek, Alaska - Bog Site B3

Overview

Basic Information

• IMG/M Taxon OID: 2140918023
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063124 | Gp0051911 | Ga0026287
• Sample Name: Permafrost microbial communities from permafrost in Bonanza Creek, Alaska - Bog Site B3
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 52031674
• Sequencing Scaffolds: 37
• Novel Protein Genes: 38
• Associated Families: 37

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	13
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	1
All Organisms → cellular organisms → Bacteria	6
All Organisms → cellular organisms → Archaea	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → Fulvivirgaceae → Fulvivirga → Fulvivirga marina	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Marinilabiliales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium	1
All Organisms → cellular organisms → Bacteria → Elusimicrobia → Elusimicrobia	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Olavius algarvensis Delta 1 endosymbiont	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → unclassified Terriglobia → Acidobacteriia bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Permafrost In Bonanza Creek, Alaska
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Permafrost → Soil → Soil Microbial Communities From Permafrost In Bonanza Creek, Alaska

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → solid layer → permafrost
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: Bonanza creek, Alaska, USA
• Coordinates
  • Lat. (^o): 64.7
  • Long. (^o): -148.3
  • Alt. (m): N/A
  • Depth (m): .3 to .7

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002210	Metagenome / Metatranscriptome	583	Y
F007147	Metagenome / Metatranscriptome	357	Y
F008168	Metagenome / Metatranscriptome	338	Y
F009862	Metagenome / Metatranscriptome	312	Y
F010068	Metagenome / Metatranscriptome	309	Y
F010213	Metagenome / Metatranscriptome	307	Y
F012640	Metagenome / Metatranscriptome	279	Y
F014811	Metagenome	260	Y
F016481	Metagenome / Metatranscriptome	247	Y
F022789	Metagenome	213	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
ConsensusfromContig10030	Not Available	1030
ConsensusfromContig12522	Not Available	795
ConsensusfromContig15086	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2048
ConsensusfromContig16050	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	2680
ConsensusfromContig16119	Not Available	3142
ConsensusfromContig1736	Not Available	938
ConsensusfromContig22540	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	1508
ConsensusfromContig22970	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1675
ConsensusfromContig24047	All Organisms → cellular organisms → Bacteria	640
ConsensusfromContig26132	All Organisms → cellular organisms → Bacteria	1200

Sequences

Scaffold ID	Protein ID	Family	Sequence
ConsensusfromContig10030	B3_GZBA_C_00182700	F024934	MPADAEFAKKIIKMRVRYVLEKSQGQILDEKKIKNIADKVRQGENNRAVADEIKKLTLNGIEKAKPLLKDVVKQLLDEYAQSIKEITDEAILEMVSGEIQKMAEEQAEK
ConsensusfromContig12522	B3_GZBA_C_00411540	F030615	MKKKKFRVICYNKGETSFYETRIKTWLGWVSFTVFYKTDIIHILSDPSVQKSLAYERIFQYCQIQGYNKKNVEISEIDK
ConsensusfromContig15086	B3_GZBA_C_00740000	F032882	VNPRKADLIKASMPASATPNIQPRSEWYWGRRRQDIDHSYFKRSPQIRLGGRVGEGNDDGSTSVEKSDLSILAMKLAKASGAKGEMD
ConsensusfromContig16050	B3_GZBA_C_00380300	F055311	MAEDLLDYWVRLIKTIFPANAWITSRFFNNDHLIQVDWKLQNDPKNPNKRSKKIEIIIKEGTIENYLGKNKKDRELSDIMLKEFIYERYNHFSSNNDICTTKYVPKERWLISRDVLNCKPSFDTPFRDKVKSVYQ
ConsensusfromContig16119	B3_GZBA_C_00018820	F092956	MPSKVNWMHDSDDRMLARYQHLHKSALKVKAFQLQKIQRTETRELCISALLKAVVICNDTLKEMGFEDYEAGHEQSLLEKSS
ConsensusfromContig1736	B3_GZBA_C_00627270	F084901	METHRKTYYSTDRREQYKKRAFEADLLKLAVAIVAELLIFFVWFDGPARERYEILVHIALPICIVLPILNYRYLIVVPFIAFLPDVARAIGIDISHSLVILPLVFLAAFVPFIRRPKTALVAGYAACAIWASHLIVDARKYTPIQNVGGYLWSDLVLYALLLTVIGFLLLQLLRFSETNEMARS
ConsensusfromContig17482	B3_GZBA_C_00372560	F068285	IDPTLAIPAERIDWMQELFVKAGVIPKTVPTASLIDTSVRDDATKLSIK
ConsensusfromContig22540	B3_GZBA_C_00427940	F008168	MANKIIKIIAHLPAIPDWLKIDNSITVPLPMKSAKELAQKLLEVQDDVEIKLNFASGKKTTVEINWESEKKE
ConsensusfromContig22970	B3_GZBA_C_00855300	F104112	WQGIEWRFHEHCTSAIDEADDSLRAVMWQIAMGVVSKTDENGNFIVEACGQPNMKMARHFLEWQRPEKWGKRRKRHVPHNAGVLVIGGDVTKKPEYDTTASVKARKWKSFSRKFREAKT
ConsensusfromContig24047	B3_GZBA_C_00351560	F045455	FSLVVNQALLVLLAYTLVQVHLVLRQRQELNRGVWEYTRQMLSPSLEVVAVYYRQRFCLLTLAEFGRILLDIPDPARAKLREKLKRIERQQYSLLENARPP
ConsensusfromContig26132	B3_GZBA_C_00031880	F087967	MKIDIGSYVRIAGNFPSNRNLQDQTGTIESLPNKEHRREYLVKLYGGIVSPHLAGMLVWVPSSKLELANKNIALS
ConsensusfromContig26239	B3_GZBA_C_00134100	F016481	MMYGKETEGSDKHEMEGMKGFWEHMSEDKKKMFIKAKLDFKIKKVQAKLDFLKELQKIFG
ConsensusfromContig26251	B3_GZBA_C_00146430	F046737	MKSLRILTTIKVAFYFIAFMAIIVACDSEQGMMHGGSGSMNMGNWNWVLILLGLIIVFLLGYLV
ConsensusfromContig26299	B3_GZBA_C_00191540	F028976	MENKEKTTVLFTEKYDHNVLTHFIADKDYCAQADNFIKKILSDAHTLPHEIICDCLLWKTKELPLLSIKGDAVDTTRMLMLYEGNGLAEFVFNSGKCHYSICRLHSLHRIERTDYSLIVVTQNALVPCAEIIIFGKYQLMYRLSVEGYKEVEELDKFLVKLKDLMLK
ConsensusfromContig27381	B3_GZBA_C_00274950	F059491	MFSLNKLSEDDIPIPITHRCRPERIGKDMTGLELHEFGLALFTSYFSDQGGELFAINMNPENGAPHVMIWNQQKVLLYVWVKTDLAPNIPVYVPNETHDVITEISRKYKAIPSFASITISCASKEGNLIPKCGGEYYAVLNEFEEI
ConsensusfromContig27733	B3_GZBA_C_00625020	F012640	MSQSFTFIDIAGNQAQYTVWEKDLHDEFHWSTDHGDHGVASAFEDAQLRARTVLKDSMAANRRSDEATRMSKYSVRWRSH
ConsensusfromContig27750	B3_GZBA_C_00641200	F010213	MTTVAKADKSRLTIRGLVDGDQYIVREQPGGWFITPEKKHRVKKSGMSAEAFARIYRSRTPLDPATAAEISANLAATDKAQ
ConsensusfromContig29689	B3_GZBA_C_00578760	F042655	PQQYIDFIKKEIKTPKRPNTDLLELWLERELSIENKGTYGNTPTDESHVTVQVLPNGNYKVLISDACFTMIVSHVQPEPHSHKISNEDLFHCWLDLKTNKVHAEEHIKVKETA
ConsensusfromContig30026	B3_GZBA_C_00145600	F080676	MILAINFLTETLNMKRLLVVIFGIFIVTVSCDKDRINENFRDDPSILNINGKWKVVSYEDFEKASVTVKNDVDSWNGMDVILTFADSTFYGHNTANIVSGKYTLAGRYINIIIYGGTKIGQPAWGNMFSDIVYRLRTFAINEHQLRFYYNDSANSVTLTHD
ConsensusfromContig30350	B3_GZBA_C_00243620	F022789	MADPSQTVSIVAAAESVATFEWHQLHLHVVTREPLSADQVRTIQRTLPKVASVGMFVDLLGMLLGRSVRIRTERPSPDIRLEVGR
ConsensusfromContig31080	B3_GZBA_C_00681620	F074194	MRVQMNVRSSFILGVAAFAATAAGLACYEKPNSFQPVTYGAQPWNPPADWDPEPACAVGYYVAIDTCPGCTGISYALCTGVTFTQCACGGPFWPGAECPKSLGCSPDDFPPFNWLEFTWYAGPGWAGLSPGADTRTCP
ConsensusfromContig3280	B3_GZBA_C_00172530	F078013	MRDEALTNVKAPPPSEYDIAQFEEAFADNDGEYDYDGSERNAKQRALIWYSDTLYSASELSFIMPKVVPHYKQFDGVKTIQLLTGMYPEAYFLPSREYGVAIFVYPPNGTTALKKPNKIEMERLKADSYTIHVILREDKLIHVIELWFD
ConsensusfromContig33765	B3_GZBA_C_00657010	F002210	MSSKPEHPIQAMGFWIFGFLSVVLAVLKLTVAGYWSWWRVALPFLAFLGHNAVHLLTGFLCLCWLKHEEDEEEPSTVQKHSREGYNKAALLFFFLFLDNLLRRIEGQGWKGFWPCSGRFEVVVLFGMLSLVAQFVYWSRIVSGLNQEHA
ConsensusfromContig35240	B3_GZBA_C_00135180	F096293	MVLISTPFITYRDIKVKDIDLIEDAWGLNTEFCDVIDLLRQINEVPGRCLTTNLIKKIRK
ConsensusfromContig35791	B3_GZBA_C_00682500	F014811	MWIYDYRTKKEYFASSPRSKFYNYKSIVVEPIPGKPCTILIKKEMEEGRKPAQILEQLDIFTSMSNSSNT
ConsensusfromContig36280	B3_GZBA_C_00173190	F007147	MVKRAAKNDGVRRCLAGGVVVFLWTVSLQVRALAENDLLQKAINYLFTGRTDPQDIPEILDRKSCVVVVPDAKSKQYVRYYLGRFRMDTALIDKTYAGSDTAYNLDIKGAEVIVEYLDIDKSTVLHGYKSAHISLPGDIDQTNKALELIASLCRNGKPKAQF
ConsensusfromContig36294	B3_GZBA_C_00186770	F059490	MKRPAENQMRKKILVNALSKNLEKMSKSPWVRSLKDGKDLVCPFCDQPIQPCKSNPSATCEKMLLAGTEGKELENALKECDENKYGLCLSCGKKISTGHLKKHPTAELCSHCVRKGHKTGKKKTTHV
ConsensusfromContig36865	B3_GZBA_C_00754470	F071802	MGAKTSKPNYASLISKILIVLVILNIAGDVLAAAFFLWDPSLGELSVYGGLIASFAGKNGAVMITSAILLGYAVVYAVSVFGLLSKLKWAPPLVIAVSVVNRVLALGVIFEPNVAFLIWSAWKLVIIALAFYLWQKK
ConsensusfromContig37723	B3_GZBA_C_00615400	F010068	MNIKGSTYVTTKTTMIEAFGEERWNSFMAKLVEKDNYFSKMIMSITLIPVEKLIIFFDEMCKEFFNNDRMQYSMFGKAGAKFVLSPEGPYRSYMLAKDINQFVELYMPKIWSTYFDGGVFTAKFVNNIVHIKVTGVDVKNFYFEELIMGYNQQALKLFGKKSVAKRVRSISSGDDDIYFQFELKDS
ConsensusfromContig39234	B3_GZBA_C_00130130	F084900	MARKINDDTRASLAFIEALHRTEDMDFSRDDIIISEKKKMGDPVVCTIEARKRNGISSQAKGKAFIYSDLVIVCVESVRKKSRAPIHPHHYEYLSY
ConsensusfromContig39318	B3_GZBA_C_00211780	F098320	RLAEKSGVQGLLGAGHLSPYTGFVESSGAVTVMSPYTVLS
ConsensusfromContig41973	B3_GZBA_C_00859210	F042098	NKTPETMSYYFTKNGDYMSMETPDSQKDKDMNFMISTKDGLMITFGEERVPKSQDKNRKVLKVMDMHSMMKGSAESMAALAKTLPKKDKPDTENKKPNQLDNFIKTGKTKQFFGYPAEEYSKEFTKEENGQMHSGTMSAWYAKVDFDPEMMFSLGMGSMAGGQSQSKMNQSHPNNMLGMGLTQKNYLLVEMNFAENGGKSGTAMKVVSIEKTSFSKSTDGYYIKNYAGMSMMEMMQKESEEK
ConsensusfromContig4399	B3_GZBA_C_00291120	F009862	DKPLVVRCPNCKQMREPDLNETTHRYVCPICSEPLDTQVVVEKKKRGLK
ConsensusfromContig44327	B3_GZBA_C_00221000	F024934	MAENAEFAKRIIKMRIKYVLESSQGQILDEKKLRNIAIKVKQGESNPAIAEEIRKLAVNGIEKAKPLLKDVVKQLVDEYIQTVMDITDEAILEMVSGEIQKMVKEQSPK
ConsensusfromContig45046	B3_GZBA_C_00341760	F029942	MPKYKVEFSDKTTTLPEHELDFPNVEAACKGARKIASKLRAAGMIMYGSNFSDWRMTIMNEHGKTVAEFPLEEHEDI
ConsensusfromContig45493	B3_GZBA_C_00383320	F057781	MPKPDLQLLTQWLDPALVSILEAKRRLKNEWHRHRKLATLETLWLMLAVSLDTHQSSLYEILRLATGTLDIQWSIS
ConsensusfromContig47809	B3_GZBA_C_00699790	F056198	SWYFSQKVVTVQGGYGALFAVMVQILLSITSVAVQV
ConsensusfromContig8348	B3_GZBA_C_00241400	F069504	RLLADLCAKRGAATAKRIMGRKIQEGRPTKAAPRPDSVRKAVEYRMAKLGIPTEHKRRKPDMREAKRWTEAQTTALLGALGADATIESIAARTGHSVKSVRAKIARLDYAVHEVHGFAVFTVNSLADLLRVTPRQIRRWKERGWLETKARRITEECLGQFLRAHPDRIPFDSLRREDQVFLVDLGFPCQEAATFKKNVR