3300002386: Freshwater microbial communities from Lake Mendota, WI - 16NOV2012 deep hole epilimnion

Overview

Basic Information

• IMG/M Taxon OID: 3300002386
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063444 | Gp0055670 | Ga0003654
• Sample Name: Freshwater microbial communities from Lake Mendota, WI - 16NOV2012 deep hole epilimnion
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 35740672
• Sequencing Scaffolds: 38
• Novel Protein Genes: 46
• Associated Families: 46

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	9
All Organisms → cellular organisms → Bacteria	2
Not Available	16
All Organisms → Viruses → Predicted Viral	2
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Freshwater phage uvFW-CGR-AMD-COM-C403	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylocystaceae → unclassified Methylocystaceae → Methylocystaceae bacterium	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	3
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Chlorobi → unclassified Chlorobiota → Chlorobiota bacteirum	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Moraxellales → Moraxellaceae → Acinetobacter → Acinetobacter baylyi	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater lake biome → epilimnion → lake water
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Water (non-saline)

Location Information

• Location: Lake Mendota, Madison, Wisconsin, USA
• Coordinates
  • Lat. (^o): 43.098333
  • Long. (^o): -89.405278
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000813	Metagenome / Metatranscriptome	880	Y
F001125	Metagenome / Metatranscriptome	769	Y
F001259	Metagenome / Metatranscriptome	735	Y
F001332	Metagenome	720	Y
F001414	Metagenome / Metatranscriptome	699	Y
F003134	Metagenome / Metatranscriptome	505	Y
F004670	Metagenome	428	Y
F004762	Metagenome / Metatranscriptome	424	Y
F009262	Metagenome / Metatranscriptome	320	Y
F010386	Metagenome / Metatranscriptome	304	Y
F010763	Metagenome / Metatranscriptome	299	Y
F013083	Metagenome / Metatranscriptome	274	Y
F013755	Metagenome / Metatranscriptome	268	Y
F021772	Metagenome	217	Y
F021942	Metagenome / Metatranscriptome	216	N
F024101	Metagenome	207	Y
F025683	Metagenome / Metatranscriptome	200	Y
F030417	Metagenome / Metatranscriptome	185	N
F030757	Metagenome / Metatranscriptome	184	N
F033029	Metagenome / Metatranscriptome	178	N
F037116	Metagenome / Metatranscriptome	168	N
F037735	Metagenome	167	N
F039634	Metagenome / Metatranscriptome	163	Y
F041191	Metagenome	160	Y
F053253	Metagenome	141	Y
F054029	Metagenome	140	N
F054609	Metagenome / Metatranscriptome	139	N
F060897	Metagenome / Metatranscriptome	132	N
F062745	Metagenome	130	Y
F063690	Metagenome / Metatranscriptome	129	Y
F063708	Metagenome	129	Y
F074547	Metagenome	119	N
F076012	Metagenome	118	Y
F077294	Metagenome	117	Y
F078232	Metagenome / Metatranscriptome	116	N
F078718	Metagenome	116	Y
F080911	Metagenome / Metatranscriptome	114	Y
F085159	Metagenome	111	N
F092057	Metagenome	107	N
F098811	Metagenome / Metatranscriptome	103	N
F100692	Metagenome / Metatranscriptome	102	Y
F100715	Metagenome	102	N
F100718	Metagenome / Metatranscriptome	102	N
F102493	Metagenome	101	N
F104762	Metagenome / Metatranscriptome	100	N
F105027	Metagenome / Metatranscriptome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
B570J29613_1000109	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	7696
B570J29613_1000122	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	7458
B570J29613_1000180	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	6704
B570J29613_1001274	All Organisms → cellular organisms → Bacteria	2518
B570J29613_1001497	Not Available	2269
B570J29613_1001580	All Organisms → cellular organisms → Bacteria	2182
B570J29613_1002025	Not Available	1824
B570J29613_1002502	Not Available	1549
B570J29613_1002887	Not Available	1376
B570J29613_1003017	All Organisms → Viruses → Predicted Viral	1325
B570J29613_1003503	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1182
B570J29613_1003563	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Freshwater phage uvFW-CGR-AMD-COM-C403	1168
B570J29613_1004358	All Organisms → Viruses → Predicted Viral	1002
B570J29613_1004722	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylocystaceae → unclassified Methylocystaceae → Methylocystaceae bacterium	945
B570J29613_1004759	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	940
B570J29613_1004928	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	917
B570J29613_1005326	Not Available	867
B570J29613_1005909	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Chlorobi → unclassified Chlorobiota → Chlorobiota bacteirum	808
B570J29613_1006526	Not Available	761
B570J29613_1006621	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae	754
B570J29613_1006725	Not Available	747
B570J29613_1007099	Not Available	725
B570J29613_1007471	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	703
B570J29613_1007685	Not Available	692
B570J29613_1007909	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	680
B570J29613_1008194	Not Available	666
B570J29613_1008953	Not Available	638
B570J29613_1009882	Not Available	604
B570J29613_1010089	Not Available	598
B570J29613_1010647	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	582
B570J29613_1011587	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Moraxellales → Moraxellaceae → Acinetobacter → Acinetobacter baylyi	557
B570J29613_1011698	All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium	554
B570J29613_1012332	Not Available	540
B570J29613_1012442	Not Available	537
B570J29613_1012819	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	529
B570J29613_1014028	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	506
B570J29613_1014171	Not Available	503
B570J29613_1014323	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	500

Sequences

Scaffold ID	Protein ID	Family	Sequence
B570J29613_1000109	B570J29613_10001091	F001414	RNCRGIRRRKKIVQRDSTLYTIASLSVELGIAPNEFINMDPEMLRAIVQVLSDRAKEIKNASRGRRR*
B570J29613_1000122	B570J29613_10001227	F054029	MELQQIFETTKEQRVEFTHQLIERLNAGELDPLKTHLQVKALEDMLETLKANKDYKDAVLQAAVLNGKDFEYMSAKFNIREVGVKYDYTKCESPAYEEILNEYNSAAKAKKDMEDFLKKVPHQGLDIINGVTGEVTKVYPPAKSSTTSVAVSLK*
B570J29613_1000180	B570J29613_100018014	F003134	CDSLMTQWSPVWLVEIDGVAYTDAVLANLTISSGRTNIYEQAQAGYVNLQLLDVNQATIPVSINSSISVQVQDTSATYVPIFGGTVVDIGLEVRDVGSTMFTQTYSITALGALSRLPKALTNGVLSRDFDGDQIWEILSDLLLNTWAEVPAAETWADYDPTTTWATAENVGLGEIDRPGDYDLAARGNNRTDVYSLVSALATSGLGYIYEDAFGRISYASSTHRSLYLSNNGYVQLTANQARAAGLRVETRAGDVRNNVTIQYGNQSQHEKSASDADSILQYGTLSQIITTTLHDAADATQQANFYLDLRKTPQAIFSEITFDLTNPELDDSDRDNLIGVFMGEALAINDLPANMGGIFQGFVEGWSFQASYNQLSITLNISPVAYSLQALQWDEISAAFTWSGVSPTLDWARATIVV*
B570J29613_1000180	B570J29613_10001808	F025683	MVLDLLDPETLGRLVGVIFLMVLGGAAGYAKGFKEGKREGMARRKAISRHVSNKVAD*
B570J29613_1001274	B570J29613_10012744	F010763	LIDKEKAIISDGLSSVAPLFDERCSYNAMIEFITIRKLKG*
B570J29613_1001497	B570J29613_10014973	F078232	MPVLTPQELADTGGCFDCLEPGLQQTMLLSLLQQIQVASTDAARITTSPSGLLTATATAAANPGRRRFVIQNQKAEHLHLKFGTGCTATDYHYVLLSAATAGAHASSLTFEGYTGPISVAPVAGSPSYTFAEFV*
B570J29613_1001580	B570J29613_10015803	F100718	MASGNVISCKQFQSFLVSQEPVYDKEILKDIRPFDGLIGYYNTGSFDAYSGTTHTFDRFNSVFPNVTGAWENPTGAACTGTPCDTEENKIGWGFTRNTYSLEKQAWGSDLLCFDQIMTKTKAKEHFRQIIDDVLRPATNWITTYYLQRKAMELSGYDAISNTQPGAFACKAGLPAIAFSWVGTGYSVLRVTDVAAAPIAAATLGLLTPDILRSRVTRQYFLGAVQAGKDGYDSLQLHTDKETFRYLSKDNPLLVSSWRFGEFAPAAKEFYKYGFMGYVGDFMVKVLQFPLRFVSTANPGDYRLVLPYRNVVATQGIRSEFNPDYNNAQYQISYINNPRALRVLPFRPEAVNPNMPFLVRDYGGRWKFATNDLGADCAGKPIDNSRGNKGKFIADFQLAVKPEHPEWLEAIFHKVQ
B570J29613_1002025	B570J29613_10020253	F100715	MTKDECISRLKTAQKNKKELRKIKLQLLKEIEQLKLMLRALEEEEQWAX*
B570J29613_1002502	B570J29613_10025025	F102493	MTTTTFDLIWDYQDDDRENNIKGGSVFIDATYGNKKVKLSAKLEELINEELNPDNF*
B570J29613_1002887	B570J29613_10028871	F105027	AHRPRTGEGCIVSDIVHRKVTIVIEDAEGGFTLSMDCVPPIEADGSQVRPTPALMAGSVARRAIEELVNRQTPEAPEAAN*
B570J29613_1003017	B570J29613_10030171	F001125	MGDRANFGFKDQKGDTVFLYGHWAGYDMLAKLANAVQAAEPRWQDPSYATRIAISHLIGEDWNQTLSWGIYVNQLGDNEHKVPVINWVTQTFTLYEEDLETVVFSLSLAAFVDKYSRLIMV*
B570J29613_1003503	B570J29613_10035033	F004670	MLFTDLPLFRDTDPETSRQIKPLRVGSHRAILLRQYFYATLGLTDEEAGARAVLDGHDIKGYWKRCSDLRTLGLIQDTGTRRALLSGSQGIVCAITQQGIDAVKAMS*
B570J29613_1003563	B570J29613_10035634	F024101	KDITQDLIDELAEEKTFIVNTMKKFVETDEIWEQLLDNKEARKAFLNNLQMLFLNDIENSTLIELATTKWGND*
B570J29613_1004358	B570J29613_10043582	F092057	MPLSYDISKIEMYKDNFDXAYQEYQQFGEKYTDVXPRLKGLIFAGGMVALGSITYKNVSEWYARLKLCEEIXSAYLTSEYVKETDNYENKPLEAKELVKYIGLITNHSSITRSQWVKNVKRNQTVDLTASQMEYRLKKLEEEFQREVFK*
B570J29613_1004358	B570J29613_10043583	F078718	MSIKPSQAQMYPKVSDWYETNVVEYRENTSFDKWYIEAVYFEADAEYSYGSDKKHIMSGGYQKVEITDKLNGNFWEEAFLGETAHQDVARWANDIVNKIKYG
B570J29613_1004722	B570J29613_10047223	F009262	IAKELSKLNATMAEILYLIQKEMKKSEELSKKWDKERNE*
B570J29613_1004759	B570J29613_10047592	F004762	MASPEQVLLFLRPNGGYVQVGTEYEGIIFQPSCEPFTKSEYEAGFAQYDAWKAQQEAEQAAAKAAAEAKLEALG
B570J29613_1004928	B570J29613_10049281	F037735	LATTLATITGXRVVFDPXXXNPPCVFIDAPSFDCFNYNIVTMNFSVKVVTLGPGNLDGLRNVLSMCAQVLAKNVAVKSGRPGYIPIGGQTFAAYDLSIDVQAQAG*
B570J29613_1005326	B570J29613_10053262	F054609	MNSLISNAVARGWISFPHPAAVTAHPDVVKARLNSPDYNAQRAWKLWNEGQSLAYVAKAVGVKKRCVMAIIEEGKSKAKEEK*
B570J29613_1005909	B570J29613_10059092	F085159	MLKVEDKDVSNLIRVNMIEAKKRGNNISKKYNYQWIAPERTGSRKVSEVLAYYDFKCDGKVLNSFGYYNYNHDIEPNKEGTDYKVICNARNPYGRVYSLFKNFYPPIEDKSKEGFRKYLTEDLPKGQMMKMIVQPKWDKPFDYVIRLEHMKDDLMKLPFILDVLTEDQVDILSS
B570J29613_1006526	B570J29613_10065262	F060897	VDIISDLSRIRTLLSENTXKXSDEKDILMELLTFLLPDHSVYSPDTVYLDSNSDDYQRIYIEYSVNKEHTILEKEESYDDDDVLSTEYKGTVYLTIEKLNILDQNRNILVEDADWYDIPEYIFEEFEGDLGSLCYKYGLNVDFDYIVKD*
B570J29613_1006621	B570J29613_10066212	F080911	MSNSHPSDYKRNLRREVAGYFIVVLCALPIRFWLYSAVKEQDGWLGFLAGQAFGYLTIGLISAVFVSKFSLRTRLILT
B570J29613_1006725	B570J29613_10067252	F039634	MIMRLNVKTYNTLPAKNSHWWQVVLFPTVSIMNNIQKNDPYVAINIEYLFWSLTIIISYGNSSSYATR*
B570J29613_1007099	B570J29613_10070992	F041191	CRVWCRVDATMDEKMKLLYKPTKLTCEFIVPDIEKSDGVQKVIGFSKGWHHYNSIRLGIRKEENYCVLYFYAYIKGQRIIQRLGRYSIGDLVKVRLHWGYYIECKANDGYAFRVAPKCSFPIGYLLNSYAEKDGVEGVEVPFDIEIINLKINC*
B570J29613_1007471	B570J29613_10074712	F001259	MRDCAFIYVNKTNGIVRVESLDTAKRVDQSPEWKHVSTVNPHVVLESILRATIKERNLIIKHLLA*
B570J29613_1007685	B570J29613_10076851	F010386	NEVPAALTWAAYDPTEQWQNAQNTGLGEIDTPGSYELAQRSSSTIDVYSLVSALATSGLGYIYENAQGQISYASADHRSIYLATNGYTDVSAAQALANSLFVQTRAGDIRNEIVLKYGTNSNSEVTDSDADSILAYGKLAQIITTTVKHQNDAEDQAAFYLTLRAYPQANFNQITFELTNSEIDDADRDALIGIFMGLPLRITNLPLNMASGTYLGFVEGWSWRASYNSV
B570J29613_1007738	B570J29613_10077381	F104762	VAVAVLTDKLAVIKGQPTSIHLAMTASVSXRDLMKDXKERNVTTVNDEQTPDLI*
B570J29613_1007909	B570J29613_10079091	F063708	MLTRSSHFLEYMKLHLISLEQDLEENPMSLHVVDIEGQIYATKHLLSVAT
B570J29613_1008194	B570J29613_10081941	F076012	MPSLEKATPDVTPKSLAMREARTGTILSVARATLPAQMVLRLRRVAGDLSDIAQDANAPAPDRISAAKAMVSVQDQLLDLLAIPRRPAAAGKGKPSTLMLDVSPTPPDLT*
B570J29613_1008953	B570J29613_10089532	F063690	MANIKKAGPWNPQKATAYVGKGVLRNGGDTIPAIKGAITPVPNGPLIKKKGPFKGSTLKNGGSVVKVGGQTHKVFKKKVDKGIGNKGDIVVDHTAGPSAGKWDKINLTKKSKAKTVKQGVASVRKWHKDNPDYYDKKSSMAK
B570J29613_1009882	B570J29613_10098823	F013755	HNVADLGMLCRRLERKLAATRKYLSEVTERVKQLETENDAMRADLLLWSEKEVKL*
B570J29613_1010089	B570J29613_10100892	F100692	VSPPPPIDPESLPKELKDGVVASVLGGLAMTARLLLSTEPVSLGWVVRRVLAAAITAALVGYGIQDHIQSPGLRMAVVGAAGYAAPECLDYLMRYIKARG
B570J29613_1010647	B570J29613_10106471	F053253	MDFDXDTPXXKILTDMLDKVEGHVGDCDCVNCNSLEVLAYMIKVEE*
B570J29613_1011587	B570J29613_10115871	F033029	VDESWFRWALGLPKMRSDAHPFICSGCKLVTPHIELHKYDASDIAEAPEEVWLVECQRCFMQRIIYPADRVTAKEDDIVRCDQCGKWKMK
B570J29613_1011587	B570J29613_10115872	F000813	NLAGYFAKTKQSPKKAIETTKPALAEFIKEQRPNDPDPIVWDVAQITKEFGAEIIDEIPLCSGGDGPMVLKTGTKEGKEYRGWVCPTPKSGHPAKWMRVGSDGHWVFQK*
B570J29613_1011698	B570J29613_10116983	F021942	TAGVSLTIYQPENLASLIKSRRAKQDNKAVIAQFKKARQSAVALN*
B570J29613_1011936	B570J29613_10119361	F013083	RLPKALTDGTLVQDFDGDQILHILQDLLLNNWSEVPAALQWNTYDPTETWANAQNVGLGEIDTPGNYELAQRSSSRIDIYSLVSALATSGLGYIYEDAQGRISYADSTHRSIYLAANGYVDLSANDAQGAGLSIQQRAGDVRNTITLKYNTNSNNEVDATSAESVSLYGQLAQIFTTTVKHM
B570J29613_1012332	B570J29613_10123321	F098811	PKEKVGRFAIDQPGLFAHGPDEKKALSGFAEGLSIVIINTLN*
B570J29613_1012442	B570J29613_10124423	F037116	PGLSLAAAAGATAASFLPILTDWVRLVTAVVGLLCACYGAYRLFKSK*
B570J29613_1012712	B570J29613_10127121	F030417	MTATNAESPQMEDPFIYAPQPTSKVQGITQAGTRPSIHVSMYAYGGISAACMMSWVDLTATFARSDRQTDLRTIREDALISRSRCRATKWFLDSGKDVWVQLDHDIEFAAADVVRMAELAHKHQATVCIPYSCRSLPARPALRP
B570J29613_1012819	B570J29613_10128191	F030757	MAVIMQDLAGQYLRAIDNFACDNLVTAASSDGVWDLTVADLLKSIYDCAVTTVAATNFLPTHIAVDPTTWGLMMQLTDDQKRPIFGYTGGGLNAFNAIGNGGINAFQNANPLGLQIVVDNNFAAKTMVIFNSNAYEIYRQDRGLLSVENPSTISRTMSMFGYAATFAANSSMIRKI
B570J29613_1013456	B570J29613_10134561	F062745	MYTTDCNYFRITNYNNTQEGYYKWTGCTDIVSVSTINPLETEYVCAKDVSVESYSAPLDIVF
B570J29613_1014028	B570J29613_10140281	F001332	KADIAMKAAAWQIQRLGEDVAMLRKALFELAYVAEENGIYLSNLTRSTQDAIVAMRLGGFK*
B570J29613_1014028	B570J29613_10140282	F021772	VNCDICACGFNTADIRMRTELRGICLKCAEEFGFKGMTLEETARCVAMIRVINNLKTQTPAQARHMKDMES*
B570J29613_1014171	B570J29613_10141711	F077294	VAECEPKEKKVNEYPTNYPRHGFHMCHGCGSMAPHHTQENFPDNGWAFNLNHFGYYAGFTDPIGEPEQLVRLCHDCVIKFLDAFPLLSVLVGKGCHSQSGPNEKPCCQYAWKAEWIGNSAINYLASEDGQQWIIQ*
B570J29613_1014323	B570J29613_10143231	F074547	MGLFDRKRTIQAVAPMRGADIAASIGPAPTLDAFYPFGGADYLASREEA