3300002355: Freshwater microbial communities from Lake Mendota, WI - 20APR2010 deep hole epilimnion

Overview

Basic Information

• IMG/M Taxon OID: 3300002355
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063444 | Gp0055839 | Ga0003597
• Sample Name: Freshwater microbial communities from Lake Mendota, WI - 20APR2010 deep hole epilimnion
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 21641257
• Sequencing Scaffolds: 32
• Novel Protein Genes: 35
• Associated Families: 31

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica	2
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Oomycota → Peronosporales → Peronosporaceae → Phytophthora → Phytophthora ramorum	1
Not Available	22
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium ADurb.Bin397	1
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Cnidaria → Anthozoa → Hexacorallia → Scleractinia → Astrocoeniina → Acroporidae → Acropora	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Skeletonemataceae → Skeletonema → Skeletonema marinoi-dohrnii complex → Skeletonema marinoi	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Cnidaria → Hydrozoa → Hydroidolina → Anthoathecata → Aplanulata → Hydridae → Hydra → Hydra vulgaris	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira	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?
F003109	Metagenome / Metatranscriptome	506	Y
F015696	Metagenome / Metatranscriptome	252	Y
F015817	Metagenome / Metatranscriptome	252	Y
F018650	Metagenome / Metatranscriptome	234	N
F020301	Metagenome	224	N
F032577	Metagenome / Metatranscriptome	179	N
F033356	Metagenome / Metatranscriptome	177	Y
F034061	Metagenome	175	N
F044498	Metagenome	154	N
F048786	Metagenome / Metatranscriptome	147	Y
F051784	Metagenome	143	N
F052281	Metagenome / Metatranscriptome	143	N
F053089	Metagenome / Metatranscriptome	141	N
F057114	Metagenome / Metatranscriptome	136	Y
F057117	Metagenome / Metatranscriptome	136	Y
F057914	Metagenome / Metatranscriptome	135	N
F060610	Metagenome	132	Y
F061552	Metagenome / Metatranscriptome	131	N
F069484	Metagenome / Metatranscriptome	124	Y
F075711	Metagenome / Metatranscriptome	118	Y
F079377	Metagenome / Metatranscriptome	116	N
F083713	Metagenome / Metatranscriptome	112	N
F088300	Metagenome / Metatranscriptome	109	N
F096670	Metagenome	104	Y
F098700	Metagenome / Metatranscriptome	103	Y
F100269	Metagenome	102	Y
F100374	Metagenome	102	N
F102145	Metagenome / Metatranscriptome	102	N
F104099	Metagenome	101	N
F104317	Metagenome	100	N
F104330	Metagenome / Metatranscriptome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
B570J29638_100016	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica	9211
B570J29638_100063	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	6012
B570J29638_100297	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica	3389
B570J29638_100408	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Oomycota → Peronosporales → Peronosporaceae → Phytophthora → Phytophthora ramorum	2914
B570J29638_101035	Not Available	1942
B570J29638_101368	Not Available	1711
B570J29638_101495	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium ADurb.Bin397	1627
B570J29638_101771	Not Available	1487
B570J29638_101869	Not Available	1442
B570J29638_102673	All Organisms → Viruses → Predicted Viral	1187
B570J29638_103286	Not Available	1061
B570J29638_103304	Not Available	1057
B570J29638_103542	Not Available	1015
B570J29638_104048	Not Available	937
B570J29638_104401	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Cnidaria → Anthozoa → Hexacorallia → Scleractinia → Astrocoeniina → Acroporidae → Acropora	892
B570J29638_104432	Not Available	887
B570J29638_105096	Not Available	817
B570J29638_105525	Not Available	776
B570J29638_106017	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Skeletonemataceae → Skeletonema → Skeletonema marinoi-dohrnii complex → Skeletonema marinoi	737
B570J29638_107183	Not Available	656
B570J29638_107285	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Cnidaria → Hydrozoa → Hydroidolina → Anthoathecata → Aplanulata → Hydridae → Hydra → Hydra vulgaris	651
B570J29638_107342	Not Available	647
B570J29638_107535	Not Available	637
B570J29638_107666	Not Available	630
B570J29638_108532	Not Available	589
B570J29638_108652	Not Available	584
B570J29638_109055	Not Available	567
B570J29638_109139	Not Available	564
B570J29638_110146	Not Available	529
B570J29638_110258	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira	525
B570J29638_110510	Not Available	518
B570J29638_110946	Not Available	504

Sequences

Scaffold ID	Protein ID	Family	Sequence
B570J29638_100016	B570J29638_1000163	F061552	MKDEEEMKRGVHITGTITMEATHHHPTCLHXLTTLVNEKITGFDCPILDISDSKMGKVGLAILVDMSPLMAPARECDGYLKLTRKNLKRWKQPSIYAWPIVNSGLKRIDGVGLLILNDLAKSVYNFITTVQSEGNGXGSANRS*
B570J29638_100063	B570J29638_1000633	F034061	VKNKTAMCYESLLGLQGCDRPEPTTGLYIDDLGINQTLLGQLITDQYNSGVELFEAKRAFAWRKMSTDILSRLTPMMKADTVVESKRIGQVVSNAANIDTMVGAGKYTGIRVTIDPNTESFLNFYLSNFKIDIYTMAVPVEIFVYDMTTLKLIDSFFYQSEAVEQFIGKTFKANRRKLDLAFVYESLYDTTKMIPKKGHCFDCSGNVRGAHICPFVDAVGIELTVSGDDVISSKSKKYTQGMSLVYNVNCDREAWLCSIGGLMAMPLAYATAVEIYNYGLTISPNQRVNTTVSVNTGFATSDPNDGMIAGRDIAATRYSEELTAMLQNMRLPSDNTCFDCRRNMKYVTALP*
B570J29638_100297	B570J29638_1002973	F044498	MQTDLNKFSYVANNERVLLLSRYSTNCSLTELLELQSPMAEIESETVPILSFLNGAIQRPLSYEQHIMNQKLMCAKKKFEKSCLLAYRVYCDMELKHNLLVKQYCNDEMILCSKAHDHHGYHCKPSNENHSTFEYDVKKTCETNIVFDGLHDLRCIMAPDYYPDGSHYIFPTPILSCLDSVNEEDVRLLLSLRH*
B570J29638_100408	B570J29638_1004083	F096670	MLWGQRITVYTDHKNLTRDGLGLTSDRVARWRILLEEYAPEIIYIKGIHNTVADAISRLDYDPKLNTTNEYNHATHVKSTKVVSNHQWMMFSKLWSCFNETQDPDDVNPIEMNQVFANRSEEDEIFPLTVKEIVEAQKADPIL
B570J29638_101035	B570J29638_1010352	F104099	MLRRREQLLTVDCTAYRAVQLNYNDRLTVEYNINIPAFVIHNPDLRRNALERVRVLLETDFNPTDTIDYXITGTYVLRNTENDDTREWVGSFYAGLHNPAVLQDFQLXNSRSFVNTVXNLLETCDEQFLYNGRDTKWEFDSLQSIIINVQSTVVEDHRVIQERRLEQGRRRRKFRQTFDLA*
B570J29638_101368	B570J29638_1013684	F033356	MTTQLTNNSSINPLQDDILPQEDQRPKTHLQLQYITQTNRLPFTEAHQEQYSANVTINPFKLLELHNKLIVLEGQLSHLTDKVAAIVVEIHKMTHQN*
B570J29638_101495	B570J29638_1014951	F100374	EELGIEYFQYLGGEIPTTRPFCEHREGEIYHRKEIEAWGNGENSAGINDIRNGTWAGRIEGTDSRSIFTFVGGWNCRHFLVPVIKQRVPASVIARAEAEGYATPTRPRGGAEALTA*
B570J29638_101771	B570J29638_1017711	F051784	MSNVDEDEILELEISDDETFGLCGVGSPGKKRKVAEEVLDTGVLVERTVTLLSNSTVPITLPTSKQTLSKNSVESIPWDDTEIPWDDTEIPCDVSSSASVPAKLSFTQY
B570J29638_101869	B570J29638_1018694	F033356	MTNQFTSNSSLNPLQEDILPQEDQRPKTHLQLQFIKQTNRLPFTEAHQEQYSANVTINPFKLLEIHNKLIILEGQLSHLTDKVAAIVVEIHKMTHQN*
B570J29638_102673	B570J29638_1026733	F060610	MTMDEGRDSTYTTIDEGCVVGIGCKVHTHHHTIHIEPQIVYQSMEKFTIFGRNYCTNQWGQTYELPAEEPMLEPQPMQQTYASDTITPSSSAFLLAPKPXAKIIIKPRTEFTEYKPTMDGPIMGMLLTFTIYLTVQWAWSSMGAWNNLYSELSACLRSSS*
B570J29638_102807	B570J29638_1028073	F100269	MASVRTETIYLIAIIVLVFLLLKSCGENVSNDYRLKHTIYEDSILIASQKKIIAQSSSDAAKQAQQIAELEVKVKNASEVVRIETRTIIKTQIKLGDTVMVQGKPYIQLPKPFLKQTEWYTIGGMINRLGWLQIDSLVIPAKFTYAVGDTMRTGFINRIFRKSDQVVRMRVDNPNVTITGMDNIYIKQDKKWHQTTAFKVGVGVLIGVAITSVGNK*
B570J29638_103286	B570J29638_1032861	F052281	CNKYRLAGDTALWGTRRQSMSTGGTTPGEKCPGSLIVKHEFGMSGGDHPYIKVEHKCVDNREVTSAVARGVKDYRPQLERISPNIEHGNFLSRKVIEEVLRELKNAEKNDKNLWQNITGGNTVRKWIPDMYDKNVKRVALKVIVETALKGYITIVQGRYPTLKYFKVGALKSLPGAKSQYVGHGGRLHSDYPQSVEELEPRFRPVSIIVGLNSFNFMWLNDRTSRESEIRKMTVYPGEMIMFTNHCLHAGGENSTNEEQTRLFAYLASDESHFPSGEVTTWDWQRRDNNPLISKPSRNANTAIVRRPGTNQIRLISGRVASVGGVPDRG*
B570J29638_103304	B570J29638_1033042	F032577	MHIANNYNDVVDVITSLIAIYARTISVEPTIQQAINKRQEHTQIASKLYHSLLPMLYGCNAIELSDLQAHYNDLKRTISRSFAVDLEHPRAHRAFDPNP*
B570J29638_103542	B570J29638_1035422	F057117	RTEAPKRDSTVPPSDGGNERAPANQRLKKPRRSAVADSSKRNVSDMGMFFLHKPDMKASDIFPKDMSELVCVDFTCKGRECTKENCPHLHPRKVGDMKKETVTTIGEHFLAKKIGWFNEWHFLKVQHLLSDKFKALMGGKDGCGSSKKD*
B570J29638_104048	B570J29638_1040481	F079377	VYVQTAGPTDFQNVSRISFLPANFTIDEDNFSSITENSLVVLDDFSFKLANNKQAKINFLKVVNYILVIHNLV*
B570J29638_104401	B570J29638_1044011	F020301	YHCLEAPHFTRDCKNHEGRKCGIDGCTLYHHRVLHRDPKSSRFVGYQIDDEMEPDPPTAEELADVQNAFKISQNGAISIQTLICNVLSGKNKRAANIRTVVLIDSGSSVTFIDEDFAKENNFRVLGKRKGMTLHMLERVETLPGEQLHVEFQLSSICDHVQSCTKNVSGWTVKNLAEHTSVVDWSEQKKQFAHLKDLHFPKMPEDSTIKIIMGVDNTAFFTPVETIRNPDNETDPTAIRLSLGWTCVGRSSPSPKNDKKLSFIFKNIIFKPKN*
B570J29638_104432	B570J29638_1044322	F057114	AHIIPRTPTFTSFGDSCLEGAGGYCISLGFWWHIPFPEAVIQRTLKHKKDNKDGLLISINVLEFVTVIVNYCAALHFVTTTSATDDPYPVLLNVTDNASALSWTTGACKKSKVGRLLARFFCSLMINSPLGINSKWISTDDNKIADDISRIKRGSATEDSPPFFDYSTLTQTYPELIHCSSFKIQPELISLIWEIVLTERWPCHDEIRKLRLKPLGRLITSSGD*
B570J29638_105096	B570J29638_1050961	F104099	MKIGSSHILKFLFYFSENYIKPTSREEKKTSVKMIRRREQLLTVDCTAYNSVQSNQHRDFYLVEYNINIPAFVVYNREDRWNALERIRVLLETDFNPTDEIDYQITGTYVLRNTENNDTREWVGSFYAGLHNPAIIQDFQLFDRHSFVNTVHLSLENVDEKLLYNGRD
B570J29638_105525	B570J29638_1055251	F088300	CGLSNDGTCIRFPIFRLGCCGEDDWVADVAEIPVPTVLEKLFFEKVARLIQYTCDCNPEYSVEAFDWDWASFHKNILLPNRMHIRSVMQLSDTITDRVVYSLHILLNEWNGDDEEENDEDVNVRFEKFFSVEDLDF*
B570J29638_106017	B570J29638_1060171	F098700	PNNMAGILINNLIKEEDIARQRSPLDSKMYTEMLRRSNASLSLDSEHRTLFDATTIGRYLGPRVSEFAQTTDKTVDYHVYPSGRKVIKAFIANDFQFIDVTGQVITGLTDTSIDVVDRVRVTWRIQKNRQNNQKVTLSCDKANPTICPVLAALRLVLRARRLSQPDSMPVACYLKKDTLAYLTGSRIALHFRAAAKAVRPNISKDEEQRYSAHSLRVWACVLLDEAGKSPDYIKKRLRWMGDSFR
B570J29638_107183	B570J29638_1071831	F102145	MDTEQQKSSETLLYNFDYPMVTECGAVKITADRVILQFPEKPTVYVENSVTLRRNVTLRIENFPGFSIDRIPIHTGTDFFRVKEMIEKCLQSYSYLISKTYFSPHSDWFNSIKYYKTLSTEFFTSNTFHLSCFEHTFITCIELSVINKECDEKEIPLHFQLCIGKHVVFCTERDLKCVTQAETVHF
B570J29638_107285	B570J29638_1072851	F020301	SQNGAISIQTLICNVLSGKNKRAANVKTVVLIDSGSSVTCIDEDFALEHNLRILDKREGMTLHMLERIVKLPEDQYHVELQLSSVEQGCTKNISAWTVKNLARHTSVVDWSERKKQFPHLKDINFPTMPEDSTIKIIMGVDNTALYAPVKIVPNDDNDKDPIAIKLSLGWTCVGRSSPSPYKNEVFTNVVFRPKN*
B570J29638_107342	B570J29638_1073421	F053089	DSWYIFVPDIIENHLLSHVIPAPVDISNDLQNKHMIEDFFVYSPVDIIYKDPSSVFWIHPFVDFAMNRSTGNVGSWNKLLFMFTEFCLNNTTYFTRFSDSIIGINVNTSLTSLFDFKFFHLSQVETLLQQITKFLGRKNSMIQSCHFITHNPTFDYITSIHPNVFTFIDYIINNHNDMMPDFKTGIFNI*
B570J29638_107535	B570J29638_1075351	F104330	SPKGQTLNIKCPSRQNHKPTEFIPKGISKFRLPAGCRTELEDHFVYSDSSISSDSGLEHIKLPDVVSLNIPDVSPEHLETIMSDMIKDGLYRPTMNDIIEAHEHMEDLQHHSFRSMIVWIIFAIVILFLIAFTIYIFQYLYYIRATIYSVLKLKSRKALYTFISTFLSTQTLHMPPVQNQPA*
B570J29638_107666	B570J29638_1076661	F069484	MAEACYTARATTKQQVLDGIDKLTLQTNEHGQYTHDAXLLLQKGIQRVLVSQFNPSDPGKGMVKLLDDGDNILTRIQSTDAITAGSVLKSAKKRADDLSTTTGKTILPTFTTRTEAQEEADRLNVINQSVIGAKEGVVEAVSKLVGSDITDAILRTADGSDFKSIDDYTLYEVMKVAIDGADRPTTNDVLEQLLEVI
B570J29638_108532	B570J29638_1085321	F018650	IVMDEYFSLEELRYQVMSILRHAAQFPNNSDVIVLEDQELQMVFDSWYIFVPDVVENHLLSHVIPAPADISNDLQNKHMTEDFYVDSPVDLIYKDPSSVFWIPSFVDFAMNQSTGNVGSWNKLLFMFTEFCLNNTTYFTRFSDCIIGINENTCLTSLFDFKYFHISQIETLLQKITKFLGRKNSIFQSCHFITHNP
B570J29638_108652	B570J29638_1086521	F015817	GLRRKSMASLWECIDVHKLTVYSVDAAERQRFYMLCNLKKPAKSSIRSHVTRMETLNKYLGLLPTIKNSPQAVASTELGNVPFNETTLASIVLSHLPVAWRTQYALIRVLVPESPRASLVDFENIEKLLAEKANEAARANKAKVATALNRANEHVPRKGKREHGGGPSKGAPKKGRTAKYCKWCKAVDGPFTTH
B570J29638_109055	B570J29638_1090551	F015696	AKGAPQTKSDMVTPVKAGGGTLQKXSPSPNQKKKDERNKPKIDNLMHPNGTCYGWAFHNFYAAKEELKRISNKLGAITVIGSEELKPFSNLTTKWLKEAEYSNYIWVIRIDLEQDGAGHCFPVEAHEAYGKKIARGVISQGIWGKGEVEVKMATLSHAEALDLDVRFSVVHNQAADDAFDEAIREADS
B570J29638_109139	B570J29638_1091391	F104330	KGQTLNIKCPSRQNHKPTEFIPKGISKFRLPAGCRTELEDHFVYSDSSISSDSGLEHIKLPDVVSLNIPDVSPEYLETIMSDMIKDGLYRPTMNDIIEAHEHMEDLEHHSFRSMIVWIIFAIIILFLIAFTIYIFQYLYYIRATIYSVLKLKSRKALYTFISTFLSAQILNTPPIQNHPA
B570J29638_110022	B570J29638_1100221	F104317	KEYPFTNIDELQHVEAHVKVNQGDIFILQDQSSRTRDMYDLLIRPLENLFACDMPMSEDLLLAQNDVIKQKWIFSVITKISGHCHWPKKSTMFILRELSKIRILNQKALTETFDQNWNPVSRKCPMQMGAKTTPEDIFDIAENKWNVNINDFNPGGRLYGIYVKMDEPLPFHIQHRF
B570J29638_110048	B570J29638_1100481	F057914	YKNKYYILNQLPTIFPLLLRNVNPQDQLTYKRIPVRADQILDIVQGRTDHLNFPFTINIYTAYSYTGKASNEIRTNMIGQLLAKKNTEEIFHVFLTPDIEQRNVIKINALENVKHSAKFDKHDLFTNTLITEGDKTVFKRSPKEVLLNQKNCICEHKETQDYSPLSRDRNLGIEQLL
B570J29638_110146	B570J29638_1101461	F075711	GSQKYIPTLKRAVPQSWGTSNGTFKTNKVGEITLSFAEYSLSKSVHLTPDIVEYDAGATAPLYDLIXGKXTLHDIGAVLDFKEKTITIDGILLPMRNIVNLQLKPSVTRALRHNTCQAQEPISTQTATKRVIKILDAKYDKADLPAIVNDNCSHLTPLQREKLLSLLLKYESLFDG
B570J29638_110258	B570J29638_1102581	F003109	MHQTVGNVLRTLLHSEPPQNITTAKEFVDEALSIATHAMRAGIHTTLGSSPGSLVFNRDMFLNIPLIADWHAITLKREHLIHENLLRENQKRRRYDYMPQQRVLKKRWKPRKLDERTSGLYRVVQTHVNGTVTIE
B570J29638_110510	B570J29638_1105101	F083713	SLYHSCQDVLTPYAILVKIALEITGLRGQAENEHENIFITMNEALELCLSKAPADIRNPNNGSLARVVEGAKLINWINDEAVEHCTPFQFNSHALVQRIRRARADLVESHVNELRWDEIQTLALHHLDLLNGRMPFSNELKFVDLRFHIMDHCAHCGSLGHRSEACVERTFP
B570J29638_110946	B570J29638_1109461	F048786	GGEPIVCSSYQQSAIAHGYVDSIQDVTLTYDDMCGNGTASQCRSYFVVLTVHGYATHAIFDDYERRRFMFMDYITYRGVPELIAEQMMLQDLERHFRKSHSSLRKYGFPVPDGVPTELEEARSVWLSPEVQTRQGQLLDSLNLTQPNNSEQQLAFDSIMNSILGFRDA