Sample 3300025557

Basic Information
IMG/M Taxon OID	3300025557 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0111376 \| Gp0101331 \| Ga0210141
Sample Name	Wetland microbial communities from San Francisco Bay, California, USA, that impact long-term carbon sequestration - China_Galinas_CordB_D2 (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Sample Name

Wetland microbial communities from San Francisco Bay, California, USA, that impact long-term carbon sequestration - China_Galinas_CordB_D2 (SPAdes)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	184313335
Sequencing Scaffolds	42
Novel Protein Genes	44
Associated Families	31

Dataset Contents

Total Genome Size

184313335

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	10
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	6
All Organisms → cellular organisms → Bacteria → Acidobacteria → Holophagae → unclassified Holophagae → Holophagae bacterium	2
All Organisms → cellular organisms → Bacteria → Proteobacteria	3
All Organisms → cellular organisms → Bacteria → FCB group	2
Not Available	10
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium	1
All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → Ignavibacteriales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → unclassified Desulfobacteraceae → Desulfobacteraceae bacterium	1
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Halanaerobiales → Halanaerobiaceae → Halanaerobium	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → cellular organisms → Bacteria

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria

All Organisms → cellular organisms → Bacteria → Acidobacteria → Holophagae → unclassified Holophagae → Holophagae bacterium

All Organisms → cellular organisms → Bacteria → Proteobacteria

All Organisms → cellular organisms → Bacteria → FCB group

Not Available

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium

All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium

All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → Ignavibacteriales

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → unclassified Desulfobacteraceae → Desulfobacteraceae bacterium

All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Halanaerobiales → Halanaerobiaceae → Halanaerobium

Ecosystem Assignment (GOLD)
Name	Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration
Type	Environmental
Taxonomy	Environmental → Aquatic → Marine → Wetlands → Unclassified → Natural And Restored Wetlands → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Ecosystem Assignment (GOLD)

Name

Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Type

Environmental

Taxonomy

Environmental → Aquatic → Marine → Wetlands → Unclassified → Natural And Restored Wetlands → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	Unclassified
Earth Microbiome Project Ontology (EMPO)	Free-living → Saline → Water (saline)

Alternative Ecosystem Assignments

Environment Ontology (ENVO)

Unclassified

Earth Microbiome Project Ontology (EMPO)

Free-living → Saline → Water (saline)

Location Information
Location	USA: San Francisco Bay, California
Coordinates	Lat. (^o)	38.015896	Long. (^o)	-122.501663	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

Zoom:	Powered by OpenStreetMap^©

Location Information

Location

USA: San Francisco Bay, California

Coordinates

Lat. (^o)

38.015896

Long. (^o)

-122.501663

Alt. (m)

N/A

Depth (m)

N/A

Location on Map

Zoom:

Powered by OpenStreetMap^©

Family	Category	Number of Sequences	3D Structure?
F024682	Metagenome / Metatranscriptome	205	Y
F026597	Metagenome	197	Y
F034003	Metagenome	176	Y
F035820	Metagenome / Metatranscriptome	171	Y
F037736	Metagenome / Metatranscriptome	167	Y
F038247	Metagenome / Metatranscriptome	166	Y
F040632	Metagenome / Metatranscriptome	161	Y
F040940	Metagenome	161	Y
F042909	Metagenome	157	Y
F044506	Metagenome / Metatranscriptome	154	Y

Scaffold	Taxonomy	Length	IMG/M Link
Ga0210141_1000134	All Organisms → cellular organisms → Bacteria	10233	Open in IMG/M
Ga0210141_1000159	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae	9816	Open in IMG/M
Ga0210141_1000552	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	6673	Open in IMG/M
Ga0210141_1000671	All Organisms → cellular organisms → Bacteria	6196	Open in IMG/M
Ga0210141_1000711	All Organisms → cellular organisms → Bacteria → Acidobacteria → Holophagae → unclassified Holophagae → Holophagae bacterium	6042	Open in IMG/M
Ga0210141_1000984	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	5335	Open in IMG/M
Ga0210141_1002353	All Organisms → cellular organisms → Bacteria → Proteobacteria	3707	Open in IMG/M
Ga0210141_1002543	All Organisms → cellular organisms → Bacteria	3588	Open in IMG/M
Ga0210141_1002669	All Organisms → cellular organisms → Bacteria → FCB group	3511	Open in IMG/M
Ga0210141_1003042	Not Available	3299	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0210141_1000134

All Organisms → cellular organisms → Bacteria

10233

Open in IMG/M

Ga0210141_1000159

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae

9816

Open in IMG/M

Ga0210141_1000552

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria

6673

Open in IMG/M

Ga0210141_1000671

All Organisms → cellular organisms → Bacteria

6196

Open in IMG/M

Ga0210141_1000711

All Organisms → cellular organisms → Bacteria → Acidobacteria → Holophagae → unclassified Holophagae → Holophagae bacterium

6042

Open in IMG/M

Ga0210141_1000984

All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria

5335

Open in IMG/M

Ga0210141_1002353

All Organisms → cellular organisms → Bacteria → Proteobacteria

3707

Open in IMG/M

Ga0210141_1002543

All Organisms → cellular organisms → Bacteria

3588

Open in IMG/M

Ga0210141_1002669

All Organisms → cellular organisms → Bacteria → FCB group

3511

Open in IMG/M

Ga0210141_1003042

Not Available

3299

Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0210141_1000134	Ga0210141_10001345	F034003	MKKRRKRNPAFKKTNQLSFDFSLNDPIEIHTPKSNISDLRRELAWEHRPIIEIFKS
Ga0210141_1000159	Ga0210141_10001593	F076109	MEVLFKILFVIAFIAFILCLFVFVGGLFMAFQKNELPDLEDV
Ga0210141_1000552	Ga0210141_10005528	F076109	MEVLFKILFFVSVIAAILCLCVFLGSLFILFQKNELPDIEDV
Ga0210141_1000671	Ga0210141_10006711	F084253	FVLIKAAQGFAVPAHGTGRRTSVRRSRKPAENAEQDKNGHLWMDTT
Ga0210141_1000711	Ga0210141_10007115	F040632	MGNSTEHTAAFEIEDLRDPASTQDMVHVVVATREEDLLWAVFDGFCELPTVRVTGCSTLPQTRQICAADPPTYLIIDVGLLEHEPMDLITLANLSDSQCHIVALTNHPVFEIGARFGNARLTFLQKPVSAHDLLLLLRLRIGDGMQRAKVC
Ga0210141_1000984	Ga0210141_10009844	F040940	MGTLNNIFSLVFGMNLILVGLVALLAGIVSLAKKDASVKKLTSMIYIIAGAAAVYFGVVLSKSAYSL
Ga0210141_1002353	Ga0210141_10023531	F084253	FVLIKAAQGFAVPAHGTGRRTSVRRSRKPAENAEQDKKGHLWMDTN
Ga0210141_1002543	Ga0210141_10025434	F078289	MKKTVIILMTLFIVVPLYGFNSLVRHEDIPKMRELGVSQEVIQYFISNQTSSVSSEDVIKMKQAGLNNDDIMSAIQSDLYRPEQKSTSMKEVELIAKLKESGMSDEAVLQFIQTVKSTRRVDSDGNVTKQYTNESNRTQYPTEGATFPKPDNYGYDPLNGRFLLLVKPQNQ
Ga0210141_1002669	Ga0210141_10026694	F078881	MSKKITNLFLIVVLLLILLLSGCGTGQVSVGVGVYVPGAWGGPYGGGYYPPVRVGYPVY
Ga0210141_1003042	Ga0210141_10030422	F047065	MTDLLNKFSEAAKAATSSKTNLWECVKRAFADHLNDINTDSLPEEIKIFYDSVKLRVKSAEVFGYIDNDEACYIANDIMYLADVISSGLRKS
Ga0210141_1003045	Ga0210141_10030451	F026597	MLSMFERHRLIVSVSLALLIIAVVGVTVSSFSPSKKSEYFKELKQIYNTVNNYDNKEIYSWEAAKNTLVDLNYWFDFIPRYDAISDEDNDVLVLQEKVRDLTIRQQLRTLPEIRKYFGEYLSDKLYGLDYKVTILNDERNKIIVFTHDSFTGRSALEKFHNTVANDLRALGFKQIRYKWYELEKLKEEKYIHYNFKDLPDNELRRFNLSVIKN
Ga0210141_1006907	Ga0210141_10069072	F077317	MEETLIKPADETVWYENDQIIKEFLESFRKPEILDADHQAEELSWIKIIEKSIQI
Ga0210141_1008524	Ga0210141_10085243	F052687	VTRFLAILLLLVAVGGGLYYLLTMETVEDVKVTGKLQISQQIGNYVKASQTDDEAYFAVVEGKIKNNLGKPIKNVFIKYMIAGKETSATVFDVAPGQEIHFNTRGVNTSASNPEYDFVGIYYD
Ga0210141_1008699	Ga0210141_10086992	F058158	MGVTKKDRENRIDKRIVNQKSYMSDFTKTEKDDIDIWELHVKEREYILAQIANDRRTSRIRNWIELIFMLGFIYYMLYDIYKDGDLDTIIKFLTT
Ga0210141_1011398	Ga0210141_10113982	F076109	MEVLFKILFVIAFIGFILCLCVFAVGLFMAFQKNELPDLEDV
Ga0210141_1011482	Ga0210141_10114822	F044506	MMEQLDSGVMGSGILQYWIYGPATGWIDDKIKVAIILLKTNIPAFHHSIIPISGKIRKPQNATIFSVGCRNSETLITGRPNPAGRFDKT
Ga0210141_1015960	Ga0210141_10159601	F045765	MKNNSSKSDNTTPIKIDDRLYGLLRKFCDKEGRRLKEFVEDALENAIYTEESIKVLTEEIRTLKRKEAKYDYAFRRGFQKGFYISFCALHGQILVEPDDEAFEILKNDPYRISKGAQLDLFR
Ga0210141_1016181	Ga0210141_10161813	F047065	AKAVSSSKTLMWECVKQAYADHLSDISRDDLPEEIQIFYDSVKLRVTSVEPPGYIGNDEAIYIANDIMYLADVINSGLRKS
Ga0210141_1017027	Ga0210141_10170272	F093888	MIVNFFSQLSKTTGLPLIVSTCALVIIFAICTFGILILFRVRSIKKVLNNLDDRLDIIGHQLGWQSGEFENIQVDKDNLGSHENDEIDPGGHSSLQTSHPADIAQQNGSEEQGINPKISAKIHELLKKSGKPTPYHELTEKLSKDYPGYNYDFFLKEVEDLQKEGKVEVQLIAGKLYFQIGKKG
Ga0210141_1017027	Ga0210141_10170273	F042909	MAELMTFIGNLNLGTFIVLWTSTIILVICVSLLLFYIRQINREANTISKKAKILILKLSEEKNKSWK
Ga0210141_1019140	Ga0210141_10191401	F070131	MMKTKLTKIGKIGVLSFCFLLQVGLAGGDAAIYHQNKTKINVPMEIELYFSSAPMLNEPTILNIEIRVLRDAPNTLIDIELPSEGFELISGNLHLNEDLSSGSTTIYQLEVLPVARGQYKIAASATSEQTDFIFGKKEELYVNITDGFSEQSKNNFIPETADPWSEATKIGNVCEAPTQALQDLKPIVSQDVSYFAAPDPGQIMVKGYWYYQDRAGVNQPL
Ga0210141_1019501	Ga0210141_10195012	F045765	MQYNSSKSENTATIKIDDRLYDLLRKFCDKEGRRLKDFVEDALENAIYTEESIKILNEEIKSLKKKEAKYDYAFRRGFQKGFYISFCALHGQILLGPDDEEYEILKNDPFRVSKGAQLDLFR
Ga0210141_1020322	Ga0210141_10203221	F057480	MKKILFIFLSVLFLFLFSAMSPCFAKDEDPCKDQGIIVKNLSFKEIWYKPQGGNCIVLKRHNTFTIKPAEEIGLFSDIVCETPYCPASTYSDYKSYDLNGDCGIRILPHNTLSDM
Ga0210141_1021930	Ga0210141_10219301	F076231	MQLKSSRSGTADISEVSGFISTKQNGIISLTKVVVLISVLLALL
Ga0210141_1023353	Ga0210141_10233533	F038247	MKSVFFWSEGQARTHRKNNPKPRGIYLNLRQAAILTKPIQSVLFGY
Ga0210141_1029305	Ga0210141_10293052	F059980	MEEACSMGFSGGFEQGKPETALPELIRFIPGNVKRVNPQNRFYCG
Ga0210141_1029365	Ga0210141_10293651	F035820	NDPTTNLRAVRDEESSTGWTIEIGPFPGWAEVPEW
Ga0210141_1032591	Ga0210141_10325911	F099975	LLKVKEIKELRGGVLLYAAQAIPQIDAEIGQKGHLWMETS
Ga0210141_1035943	Ga0210141_10359433	F093888	MMILFFNQLSNLTGLPLIVSIFAFVVTSSLALFGILILIKVRSIKKGLNDLNDRLDSISQGLSWQSAEFENIQPYKFKLGSHINDELAADGRTNSEINTTADSANKNGPEEHRINMEISKKIHALLKKSGKPTPYHDLTKHLSKDYPKYNYDFFLKEMEDLQKEGKVEVQLIAGKLYFQIKKT
Ga0210141_1038011	Ga0210141_10380111	F048676	MLFRYSRLCGTASDAVRRSRLRGDAVKSEIPQGFKLLKLKMSEYIKNIVELTILKI
Ga0210141_1039041	Ga0210141_10390412	F048675	MDNSEKHIHSNEVLFSESYAAAQSLKNVWTRLASTYGCIMVVLCRETLTIKPHWFAKWLVSLLGLDLCHEIPITNIRGVTEMGKWFSYGKIELYFMTIDGENQRILLYMKKYREFIDTVKNAIYP
Ga0210141_1039988	Ga0210141_10399881	F040632	MSNRSGHAGSIEREIEELRDPSNTPDMVHVVVSTREEELLWAVFDGFSELPTVRVTGCSTLPQTRQICAADPPSYLIIDMTLLDHEPMDLITLANLSNCRSHIVALTDHPVFEIGARFGKARLTFLQKPVSAHDLLLLLRLRI
Ga0210141_1041435	Ga0210141_10414352	F084254	HIPVFISEPLVIEIMAEVIRQSKRHPRADQVASALAIRGLPIAEKDVMTVFDQYDIEKKIADSH
Ga0210141_1041785	Ga0210141_10417852	F024682	MALDAQDELISKLKQEIGKNLPPMFSGMAENMLENNKDVIINWLKDNKDLVKQVIES
Ga0210141_1043123	Ga0210141_10431232	F076109	MEELFNLFFVISVIATIFCPCVFMGGLLIAFQKSELPDIEDV
Ga0210141_1044079	Ga0210141_10440793	F048676	LFRYSRLCGTASDTVGAVKLEIPQGFKLLKFKMSEYLRNTFN
Ga0210141_1061915	Ga0210141_10619151	F050382	QISNKIKNQLFRILNFGYCDLFVLCVLIFEFLFAET
Ga0210141_1066691	Ga0210141_10666911	F076231	MMHLKPNKTGTADISEFSGFISTKQNSIISLTKLVVLLSVILAVLMVVSR
Ga0210141_1068193	Ga0210141_10681931	F099323	ICGAFFLFNVLFGNYRIGDVTEGHLVVLGIFLIMLLINAFMPDEMIHRRSFRYFLALPGMMLAIHCLSKRTKPDSKNLVLYCSIAVLALTIQFVAYHTVERVVNSGGLESYGLSGNMHHFGSFAGLILPVLFYFSTQIKGWLRLLCVAGVIAAFYLLWESSSRIAWFAFFSSILMAILLFLRNRKLLMGLAGFFTISFIAALVSGLAVIKNRIWDILSNWRSEE
Ga0210141_1078686	Ga0210141_10786861	F058158	MAQIMIDKQKSYKSDFTKTEQDNRDIWELHLKEREHMLAQISKYRRKNRARDWIELILMIGFIYYMLYDMYKAGDLDTIIKFLKYSIV
Ga0210141_1085404	Ga0210141_10854042	F058721	ETLPCADPHCKHQMRLVFQNERFIGYRCLMKPNSHNFRYDIENKRWEKLIIKTKTILKYKEAPFE
Ga0210141_1098326	Ga0210141_10983261	F084253	KAAQGFTARRTSVRRSRKPAENADQDKKGYFWMVTNSFCELQQTC
Ga0210141_1100854	Ga0210141_11008541	F078881	MNKKIKHLLFIIFFFLLLLLSGCGTGQVSVGVGVYAPGAWGGPYGAGYYPPVRVGYPVY
Ga0210141_1113286	Ga0210141_11132861	F037736	VQLDGLQILWLLANPLWTHGIGESRSKTITGWLLMGAADANHIWWLNTNPFTGLLLHLNSYRILHLPCGFLNMLCFLLLCHRQRNDNY

Showing 1 to 44 of 44 entries

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300025557: Wetland microbial communities from San Francisco Bay, California, USA, that impact long-term carbon sequestration - China_Galinas_CordB_D2 (SPAdes)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences