3300002184: Freshwater and sediment microbial communities from Lake Erie, Canada

Overview

Basic Information

• IMG/M Taxon OID: 3300002184
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053068 | Gp0059907 | Ga0005854
• Sample Name: Freshwater and sediment microbial communities from Lake Erie, Canada
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 743990132
• Sequencing Scaffolds: 41
• Novel Protein Genes: 43
• Associated Families: 34

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Deinococcus-Thermus → Deinococci → Deinococcales → Deinococcaceae → Deinococcus → Deinococcus ficus	1
All Organisms → cellular organisms → Bacteria	9
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Actinoplanes	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. URHA0002	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Nocardioidaceae → Nocardioides	1
Not Available	4
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria → unclassified Saccharibacteria → Candidatus Saccharibacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Rubrivivax → unclassified Rubrivivax → Rubrivivax sp.	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Tenacibaculum → Tenacibaculum finnmarkense	1
All Organisms → cellular organisms → Bacteria → Acidobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	2

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Alternative Ecosystem Assignments

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

Location Information

• Location: Lake Erie, Canada
• Coordinates
  • Lat. (^o): 42.285437
  • Long. (^o): -81.355591
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002233	Metagenome / Metatranscriptome	580	Y
F003086	Metagenome / Metatranscriptome	508	Y
F003555	Metagenome / Metatranscriptome	480	Y
F004798	Metagenome / Metatranscriptome	423	Y
F005987	Metagenome / Metatranscriptome	384	Y
F006745	Metagenome	365	Y
F013948	Metagenome / Metatranscriptome	267	Y
F020037	Metagenome / Metatranscriptome	226	Y
F020707	Metagenome / Metatranscriptome	222	Y
F021521	Metagenome / Metatranscriptome	218	Y
F022258	Metagenome / Metatranscriptome	215	Y
F026495	Metagenome / Metatranscriptome	197	Y
F031674	Metagenome / Metatranscriptome	182	Y
F034611	Metagenome / Metatranscriptome	174	Y
F036908	Metagenome	169	Y
F043643	Metagenome / Metatranscriptome	156	Y
F045214	Metagenome / Metatranscriptome	153	Y
F045771	Metagenome	152	Y
F045796	Metagenome / Metatranscriptome	152	Y
F046195	Metagenome	151	Y
F047100	Metagenome / Metatranscriptome	150	Y
F048419	Metagenome / Metatranscriptome	148	Y
F049491	Metagenome / Metatranscriptome	146	Y
F053518	Metagenome	141	Y
F064866	Metagenome / Metatranscriptome	128	Y
F064891	Metagenome	128	Y
F066742	Metagenome	126	Y
F069970	Metagenome	123	Y
F073514	Metagenome / Metatranscriptome	120	Y
F081816	Metagenome / Metatranscriptome	114	Y
F088774	Metagenome / Metatranscriptome	109	Y
F093312	Metagenome	106	Y
F094045	Metagenome	106	Y
F105487	Metagenome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI24770J26754_10000033	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	79728
JGI24770J26754_10000140	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	47251
JGI24770J26754_10002555	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	12536
JGI24770J26754_10003827	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	10009
JGI24770J26754_10004474	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	9130
JGI24770J26754_10004975	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	8585
JGI24770J26754_10007883	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Deinococcus-Thermus → Deinococci → Deinococcales → Deinococcaceae → Deinococcus → Deinococcus ficus	6507
JGI24770J26754_10016264	All Organisms → cellular organisms → Bacteria	4106
JGI24770J26754_10017048	All Organisms → cellular organisms → Bacteria → Proteobacteria	3985
JGI24770J26754_10018689	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	3731
JGI24770J26754_10019295	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Actinoplanes	3652
JGI24770J26754_10020393	All Organisms → cellular organisms → Bacteria	3514
JGI24770J26754_10021074	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	3436
JGI24770J26754_10023372	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	3206
JGI24770J26754_10024820	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	3071
JGI24770J26754_10025263	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. URHA0002	3033
JGI24770J26754_10035545	All Organisms → cellular organisms → Bacteria	2376
JGI24770J26754_10045376	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1981
JGI24770J26754_10046608	All Organisms → cellular organisms → Bacteria	1942
JGI24770J26754_10052060	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1786
JGI24770J26754_10053997	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1737
JGI24770J26754_10057249	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Propionibacteriales → Nocardioidaceae → Nocardioides	1660
JGI24770J26754_10060277	All Organisms → cellular organisms → Bacteria	1592
JGI24770J26754_10061622	Not Available	1565
JGI24770J26754_10063995	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	1521
JGI24770J26754_10068555	All Organisms → cellular organisms → Bacteria → Proteobacteria	1439
JGI24770J26754_10088003	All Organisms → cellular organisms → Bacteria	1191
JGI24770J26754_10102151	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1068
JGI24770J26754_10106270	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	1038
JGI24770J26754_10123238	Not Available	937
JGI24770J26754_10128515	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria → unclassified Saccharibacteria → Candidatus Saccharibacteria bacterium	910
JGI24770J26754_10133076	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Rubrivivax → unclassified Rubrivivax → Rubrivivax sp.	888
JGI24770J26754_10135965	All Organisms → cellular organisms → Bacteria	876
JGI24770J26754_10141523	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Tenacibaculum → Tenacibaculum finnmarkense	852
JGI24770J26754_10173771	All Organisms → cellular organisms → Bacteria → Acidobacteria	744
JGI24770J26754_10234439	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	616
JGI24770J26754_10241218	All Organisms → cellular organisms → Bacteria	605
JGI24770J26754_10249311	All Organisms → cellular organisms → Bacteria	593
JGI24770J26754_10279387	Not Available	553
JGI24770J26754_10301697	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	528
JGI24770J26754_10313671	Not Available	516

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI24770J26754_10000033	JGI24770J26754_100000338	F034611	MLPSKTVLSLTIDLLAHNAFNHLKDEEISALHHLILKLQEPLTAMQQNLLLTFWNHAYTGDLPASLLYRCNALLHQLGRSPLEEVMMEMEMY*
JGI24770J26754_10000140	JGI24770J26754_1000014011	F088774	VGTTVQADTKFLRRVLFGLVLLTLATGIMAGLTTVQAMTEKSGQCLMFCQQ*
JGI24770J26754_10002555	JGI24770J26754_100025557	F034611	MLQSKTVLSLTIDLLAHNAFNHLRDDEISALHHLILKLTEPLTPIQQNLLLTFWNHACTTGLPAPLLHRCNSLLMQLGRNPMEMMEAEMEMY*
JGI24770J26754_10003827	JGI24770J26754_100038275	F066742	VVLLGLGAGAFLVAQRPSFWIGFGSRLGKALLPLAWRYFSKRMPPEEEAAWREAERRGQGDEWLRERWRRLKRN*
JGI24770J26754_10004474	JGI24770J26754_100044747	F006745	MRTSAKARRTSSAVVLYVIVLVAFQVFLITVAVEAFQTDXESLAWATAAVSVXLFAAAAAFLRYLRP*
JGI24770J26754_10004975	JGI24770J26754_100049758	F069970	MTTQFNSPIKVGDKVTFDNDQIEIFKAETSSNDKAVRQYQQLVLGGIDQVGIVKELGGNLTTVSYPDGWDLPVPTKYLIVLPSE*
JGI24770J26754_10007883	JGI24770J26754_100078834	F006745	VRTGRQAPRASSALVIYVVILVAFQVFLLTVAVEAFSSYDNSLAWATATVSVVLAAGSVALYRYLRP*
JGI24770J26754_10016264	JGI24770J26754_100162642	F006745	MRTSARARRTSSAVVLYVIILIAFQVFLITVAVEAFQTDTESLAWATAAVSVALFAAAAAFLRYLRP*
JGI24770J26754_10017048	JGI24770J26754_100170482	F020037	MGAESRWVAAISTVLLHLLVVFVLTRGTARPTQPPTAPALHEISADRLRGAGERLVDVDISPGLALRGIVCEGSSYIGVGVTADPRTDRIILVGDNTPASRAGLQHDDIVLNPAVWRDAHVEGTLLHVLVLREGGQRLVSVLVGKICIG*
JGI24770J26754_10018689	JGI24770J26754_100186895	F045796	MTVSYNLQKLALSVFGALVASSLFLAAAVGPVPVI*
JGI24770J26754_10019295	JGI24770J26754_100192954	F081816	MPQTITYRGPRVLVGALAHLLRQEGLAFDQPPEDRTELDPVAVVVLEVRAADQAHDLTRATMIDAAVAKFTKRFGDDAALIEITDS*
JGI24770J26754_10020393	JGI24770J26754_100203931	F031674	TGEETVRFLARALLICVPALVPLPAAAYSCVVSPAKDSIIIKADNSSDRSRTCKVDCTFKAPDGPVTVSCSQQIPAGATGWYVCLRPSGGKALEFVSGNENCN*
JGI24770J26754_10021074	JGI24770J26754_100210745	F049491	MCSSVLKMRLEFASTLILFPLLAQAAPSIPNDCWSGVMAAEKAPHGQLVATGPVAQWRVGMSLVVYPTKENYEQILALGEKGQTGTFDTSRPITVIPTWILGPEPGDQDSGEEKSIAIRMQYRTAQGETGDIVLNYWTPMSGQESSLPPHQRATMAQFDQQLHDMNCRGIP*
JGI24770J26754_10023372	JGI24770J26754_100233722	F021521	MAGYLHRAATTAYLAAFLPWEGSAGAGRVRPAAANIGQKVFYKK*
JGI24770J26754_10024820	JGI24770J26754_100248202	F034611	MLQSKTVLSLTMDLLAHNAFNHLRDDEXSALHHLILKLQEPLTPXQQNLLLTFWXHACTTGLPAPLLHRCNAVLMQLGRTPMEMMEVEIEMY*
JGI24770J26754_10025263	JGI24770J26754_100252635	F020707	MCPIHRDFKHFAASNANHFRHRGNLSSIMWAKVLSIMRAEARQVTMG*
JGI24770J26754_10035545	JGI24770J26754_100355454	F006745	MRASERSRRASSALVVYVIILVAFQVFLITVAVEALQTDKETLAWSTAAVSVVLAGMSAALLRYLRP*
JGI24770J26754_10045376	JGI24770J26754_100453763	F002233	MQQIRSLLRGAPSRIGRRLSQIVAIAAASLPTAGA*
JGI24770J26754_10046608	JGI24770J26754_100466082	F047100	MTHLAIEHALLAVMAARDGDPAAAAGHIARAQQQSRTTARRSRQVVEIAALIIADDRPRAAGLAFEHATEFPDDAELLALVAPTDG*
JGI24770J26754_10050267	JGI24770J26754_100502672	F105487	MKTAIILMLAGALIGVTAASFIVPPMLSWYTSPGGLPQGAQIQAVVQIPEVIRYATSKLLIGQSVGGGIGAVLGLVIGIMFRRKPRPLAAQPVVSSPV*
JGI24770J26754_10052060	JGI24770J26754_100520604	F073514	VRQRVARSRDLVAAGYKPAAVARVSQISRQAIYRTPTTTPSAARRSRPP
JGI24770J26754_10053997	JGI24770J26754_100539972	F053518	MFVLFSWGLPARAQSFNRQDLDCAVAATIEAKRAGTARENNTELTHFFLGRLVAQDDETNWARVVYDRSNLKQKFVSAELLVKCMELYRQSLHR*
JGI24770J26754_10057249	JGI24770J26754_100572493	F081816	MPQTITYRGPRVLVGALAHLLRQEGLAFDQPPEDRTELDPVAVVVLEVRARDTALDPTRAAMIDAAVAKFTKRFGDDAALIEIADR*
JGI24770J26754_10060277	JGI24770J26754_100602772	F006745	MRTSARGRRTSSAVVLYVIILVAFQVFLITVAVEAFQTDSESLAWATASVSVALFVAATAFLRYLRP*
JGI24770J26754_10061622	JGI24770J26754_100616222	F093312	MTLKQSSAVQIPASYSADVILPGSSFKLRLLVINLASVPGGQLVNSPTAQSLERCVQVVETSHKL*
JGI24770J26754_10063995	JGI24770J26754_100639952	F034611	MQKNDTILSLTANLLANGAFNHLEDDKVSALHRLILKLTEPLTPIQQNLLLGFWNHACTDSLPGSLLYRCNTILYQLGRTPMEMQESEIEMY*
JGI24770J26754_10068555	JGI24770J26754_100685553	F046195	MKVSRRWIEWAHGPGAEDGQPLAMSLCDLTSAPGVGAIEVADPALIAELVDVAGLYINPCRGDALHDMGPWWMGQPRRIISEGRASLRSANSAAKSPTVDGEPE*
JGI24770J26754_10088003	JGI24770J26754_100880032	F045214	MADTRRTVEGVVALFNASDDTVDMMQSLLTQSGRHQTLVSCHFADLKKGVVDAGTYLATHNPEVVIFDLSPPYDENWTYFMSIRRTPHMAGRGVVLTTTNKARLDECVGTDSQALEVVGKTEDLAAIDRAITLETQKALTMRLATLTSGRG*
JGI24770J26754_10102151	JGI24770J26754_101021512	F048419	MFDLGDRMLIPCDGGPSISRLERFPPAFEIPTDDGTYVLVDDGPPEQWRYEYVPRRL*
JGI24770J26754_10106270	JGI24770J26754_101062702	F064866	MKTSYLNFILFVYVMALPILSPAQMSDSQSLAKYSYPIFAVTGDQQYTGTAFFYRSGDTTYLVSNYHAIKGMSPLKKSITFNIDTLYLKYPVKNSNEFKVIGIDISEQITGKTEIFSMVNRIDLLKIPVETPADADIFFINDLIDEDYLNKEPEEVFVFGYPTDPGSIPAFYSQQQRLEGKVNPNGFTDYDASLRLNFPATSDDARAILGGTSRYYYFIRPYASQGYSGAPVFGKFRNADNQVIYRFTGVIFAGQPTTRQTWAIKGTVALKYLQGEL*
JGI24770J26754_10116991	JGI24770J26754_101169912	F064891	MTTTPRKHNKDQWISSFEDEMLRLRPHMSARVLASIGLMAWSRYGTAGSAPYDAARRWSESMDRESR*
JGI24770J26754_10123238	JGI24770J26754_101232382	F005987	MSKLLNLPERKDVDGNWHQVMRDVCYWCGCRYLYAEDDHDLIWEPGSERQKGCSDDECECHISAVIGTRRD*
JGI24770J26754_10128515	JGI24770J26754_101285152	F094045	MKYISIFFTILLIWIAIVLMAFTRSSATEVFELFLAAIASTVILFLIGFKRK*
JGI24770J26754_10133076	JGI24770J26754_101330761	F045771	VDSAPPWSDRCELLWIGLADEDGRSWYGISSEVEINPSTNAFMSGVFRLITPTEPRMSRAQLATAVMDFCGEVDEFWAWIPTLDRFAGFFGLGGDEASNLFEKFRDVDLQMLQGLVRPWPAAWPDRLLDLNAA
JGI24770J26754_10135965	JGI24770J26754_101359651	F043643	MKLFLAIAALLALIFGVALLVVPEQFYGPTGIHFSPMIATLAQAHGATLVGMGIVLWLSRFADRRGQVAVLAGNLVVQVLSLLVDLRTMALGAGAAVAPGVIIHVVLGSLFAYFLARLL
JGI24770J26754_10141523	JGI24770J26754_101415231	F013948	MRDKLKKIVAYIFRSWEDEPGYTHPRLKILPPFLLELLAYLIGLAILCQIGVYLWSII*
JGI24770J26754_10173771	JGI24770J26754_101737711	F003086	MNFIDAAIVDATEALCHRFQLLTGRTNVWLAIQLTNLSIVVYFVWAAALYVWSGDFALRVFMTIFCTGVFVVLLRTFFKVPIESSENEAYKRVAKGMRNPRRVRDAQLRISFLTLSILLGAPVAFVFATLHSKLVLTAYLLTVLTTVVLYVLACDPLPPCPGKVREWVDNFARSRRIPA*
JGI24770J26754_10234439	JGI24770J26754_102344393	F004798	QRRLFAMMEDQMPGVPGVKEARAAMSMMPDLRQAQNVIKAMQNVVSSGGNAFESMQRVMGDFAKYMPGLRR*
JGI24770J26754_10241218	JGI24770J26754_102412182	F022258	MTIHPQRGGRYWYYWVLIVGGIAFVIAYYLTDGFGLTP*
JGI24770J26754_10249311	JGI24770J26754_102493112	F003555	VFARVVRFSDVTPERVEEILRRIDESNGPPPGVPATGLQVLVDEDQGTAVVVQLFDSAEDLRAGEQVFTAMDSSETPGVRASVDRCEVKRDLRMT*
JGI24770J26754_10279387	JGI24770J26754_102793872	F026495	VFDVTVASRNTRFQAARYDLTWAGLAPADRASFAWRLLSFDHLV
JGI24770J26754_10301697	JGI24770J26754_103016972	F036908	MTRMLLCAAAFAACAATGALAGPVDVYRTGPAFCPQDRPASAKRITEAEAIARTKEMLPKDFCGPGVFVSGCTFDVENEYDSWRVYAHQYKDVGGRKDKGGLAHTYLILDAVGNCLANIPGTEFGALK*
JGI24770J26754_10313671	JGI24770J26754_103136711	F053518	RLVSLTIFALFSLSLPTRAQSFNRQDLDCAVAATGEGAQAGTTTQNTELTLFFINRLVAQDDQTNWTRVAYDRYKLSRKGISAELLAKCKELYFQSRPR*