Sample 3300026052

Overview

Basic Information
IMG/M Taxon OID	3300026052 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0111376 \| Gp0116087 \| Ga0208289
Sample Name	Natural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - MayberryNW_CattailA_D1 (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	53088475
Sequencing Scaffolds	19
Novel Protein Genes	23
Associated Families	23

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	1
Not Available	6
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	7

Ecosystem and Geography

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 → Terrestrial → Soil → 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)	terrestrial biome → wetland area → soil
Earth Microbiome Project Ontology (EMPO)	Free-living → Saline → Water (saline)

Location Information
Location	USA: Antioch, San Francisco Bay, California
Coordinates	Lat. (^o)	38.05241603	Long. (^o)	-121.76907401	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F002494	Metagenome / Metatranscriptome	554	Y
F003529	Metagenome / Metatranscriptome	481	Y
F011452	Metagenome / Metatranscriptome	291	Y
F016408	Metagenome / Metatranscriptome	247	Y
F016436	Metagenome / Metatranscriptome	247	Y
F019288	Metagenome / Metatranscriptome	230	Y
F019455	Metagenome	229	Y
F021486	Metagenome / Metatranscriptome	218	Y
F022278	Metagenome / Metatranscriptome	215	Y
F023611	Metagenome / Metatranscriptome	209	Y
F026668	Metagenome	197	Y
F027235	Metagenome / Metatranscriptome	195	Y
F039374	Metagenome	164	Y
F039844	Metagenome	163	Y
F062546	Metagenome / Metatranscriptome	130	Y
F071750	Metagenome	122	Y
F075739	Metagenome / Metatranscriptome	118	Y
F081902	Metagenome	114	N
F083436	Metagenome	113	Y
F086339	Metagenome / Metatranscriptome	111	Y
F086537	Metagenome / Metatranscriptome	110	Y
F097092	Metagenome	104	Y
F098311	Metagenome	104	Y

Family

Category

Number of Sequences

3D Structure?

F002494

Metagenome / Metatranscriptome

554

F003529

Metagenome / Metatranscriptome

481

F011452

Metagenome / Metatranscriptome

291

F016408

Metagenome / Metatranscriptome

247

F016436

Metagenome / Metatranscriptome

247

F019288

Metagenome / Metatranscriptome

230

F019455

Metagenome

229

F021486

Metagenome / Metatranscriptome

218

F022278

Metagenome / Metatranscriptome

215

F023611

Metagenome / Metatranscriptome

209

F026668

Metagenome

197

F027235

Metagenome / Metatranscriptome

195

F039374

Metagenome

164

F039844

Metagenome

163

F062546

Metagenome / Metatranscriptome

130

F071750

Metagenome

122

F075739

Metagenome / Metatranscriptome

118

F081902

Metagenome

114

F083436

Metagenome

113

F086339

Metagenome / Metatranscriptome

111

F086537

Metagenome / Metatranscriptome

110

F097092

Metagenome

104

F098311

Metagenome

104

Scaffold	Taxonomy	Length	IMG/M Link
Ga0208289_1000001	All Organisms → cellular organisms → Bacteria	39716	Open in IMG/M
Ga0208289_1000602	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	2230	Open in IMG/M
Ga0208289_1002051	Not Available	1465	Open in IMG/M
Ga0208289_1003005	All Organisms → Viruses → Predicted Viral	1254	Open in IMG/M
Ga0208289_1004300	All Organisms → cellular organisms → Bacteria → Proteobacteria	1068	Open in IMG/M
Ga0208289_1004536	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	1042	Open in IMG/M
Ga0208289_1007542	Not Available	820	Open in IMG/M
Ga0208289_1009087	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	755	Open in IMG/M
Ga0208289_1010424	Not Available	710	Open in IMG/M
Ga0208289_1010850	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	697	Open in IMG/M
Ga0208289_1011187	Not Available	687	Open in IMG/M
Ga0208289_1011363	Not Available	682	Open in IMG/M
Ga0208289_1012285	All Organisms → cellular organisms → Bacteria → Proteobacteria	660	Open in IMG/M
Ga0208289_1012465	All Organisms → cellular organisms → Bacteria	655	Open in IMG/M
Ga0208289_1014277	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	617	Open in IMG/M
Ga0208289_1016859	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	575	Open in IMG/M
Ga0208289_1018796	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	549	Open in IMG/M
Ga0208289_1018924	Not Available	547	Open in IMG/M
Ga0208289_1019300	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	543	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0208289_1000001

All Organisms → cellular organisms → Bacteria

39716

Open in IMG/M

Ga0208289_1000602

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria

2230

Open in IMG/M

Ga0208289_1002051

Not Available

1465

Open in IMG/M

Ga0208289_1003005

All Organisms → Viruses → Predicted Viral

1254

Open in IMG/M

Ga0208289_1004300

All Organisms → cellular organisms → Bacteria → Proteobacteria

1068

Open in IMG/M

Ga0208289_1004536

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

1042

Open in IMG/M

Ga0208289_1007542

Not Available

820

Open in IMG/M

Ga0208289_1009087

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

755

Open in IMG/M

Ga0208289_1010424

Not Available

710

Open in IMG/M

Ga0208289_1010850

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

697

Open in IMG/M

Ga0208289_1011187

Not Available

687

Open in IMG/M

Ga0208289_1011363

Not Available

682

Open in IMG/M

Ga0208289_1012285

All Organisms → cellular organisms → Bacteria → Proteobacteria

660

Open in IMG/M

Ga0208289_1012465

All Organisms → cellular organisms → Bacteria

655

Open in IMG/M

Ga0208289_1014277

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

617

Open in IMG/M

Ga0208289_1016859

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

575

Open in IMG/M

Ga0208289_1018796

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

549

Open in IMG/M

Ga0208289_1018924

Not Available

547

Open in IMG/M

Ga0208289_1019300

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

543

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0208289_1000001	Ga0208289_10000017	F086339	MAKGMQGTASANKMMPNMSTYGGQESPGYKPPTGSAGAKAHGEYSTKKNPLSVPQKGSQIGPGYGNADRMKAMRSKDEQAAKENLRGQAC
Ga0208289_1000602	Ga0208289_10006022	F086537	VLSGNDEGGGELLAQWLKEAGRRAQSKGKASDGAASDADDTFNSPASLHRYLEELAGRKLQTHAEVLAFLKEVAGGQPQGHRDHERRRMVREVALIALLAISYLHFYYWEVQLQIAALKGVPVLVPAPTAQPSKIRS
Ga0208289_1002051	Ga0208289_10020512	F023611	MPYIFDRFAGPAQVSNAAATKFTVSAGESWIVDHIHVQNPSAATVTFTMSIGADAAGTRLLDAYPIGAGQVLDLYPQYQLDAAEIFQAFAGTNNILTLTIDGRKSILG
Ga0208289_1003005	Ga0208289_10030052	F016408	SVFMVEAIEYTKLAEWSTDSDRKSVLNGVRELIANAFDEIRRQIDAQMQQPGTGVIGTVTSDTPAGGSNVIVLTTDGFGNKLMRFGQTVQIFDSTLATLRGSGTITFLDPAMSGDHTINITPQIAGVVAGDLIVTNGLSAPASLPALYGVPYHHSNASTGTWLGFNRATTPEIRSNRVNGGGAALQLPLPRLAINSIGYRVGINNDFDPTAWMNPCQIQSYEEIGQLVIAIFKQPKDESLNMYFGNGKGSGMQMAGAKVRGHFTWDKTRIDFMVDQLWGRGEIMPLGFYKTDGRNIFEIRGASGGVATSDIFYMINGMQTFVSNPAGTAYIDSLAVPDGY
Ga0208289_1004300	Ga0208289_10043001	F097092	EIADAHPRLDLWLAWRRGGLGAAAREFVLHARRLAR
Ga0208289_1004536	Ga0208289_10045361	F022278	PIMSVLLIEPILDRYVAQVEKRDKDWKAKEVEALLLRLRKEILDCLR
Ga0208289_1007542	Ga0208289_10075422	F075739	EAEKLIASTAAFVQRARARCHDEMFEHVDVISKRLSELRVRSEWLRLVALGVIEPESLPEHKERQGPDRRVAIDRRIAGMRQQVRAHASKLRKVG
Ga0208289_1008637	Ga0208289_10086372	F002494	MSGMALMRCAELQKEFGCGSLTQFRIVTTAKPGNVPFHWPWLRRGRECPERADEKEVRELRLALSPLKLVEKSRKNPRAYHCPACGGRKAFGARQCRSCWRVSVRR
Ga0208289_1009087	Ga0208289_10090871	F039374	GRAMPLRLVVTAKNAGLFSRQDEEAEKITQLSEGENLVPMVQSEGGRQWYMVRTQKGLVGWIKSTDVREEKTKQ
Ga0208289_1010424	Ga0208289_10104241	F083436	MSKDPNTIKIVNLLVEVAKLDAVHRDVHLRRARQLLSATLDESAYRAIGSTEKEIQDLMSRSRSAVLQRNWAQAAELSGQIDSMRQRLAKMGKLANIGKE
Ga0208289_1010850	Ga0208289_10108501	F081902	ANRRISNSFCKIHQVHDFFIASAGFYDTRAGQRLNIKELVTRVARKSDSLTVAVNRSSRAIASALSQAVSDAREDDGLYNVLVGGNVVTFFFGFEDGKPATYAHRFSVRTQPEHSKLPLIDATHEDCGPQCVTADGNPYLMHTRSEAMDNFRSQNLGFLRDDPVAFVRSMILSDIAANKDRSGPPVDILRIDHNGPKWIEKKPNCP
Ga0208289_1011187	Ga0208289_10111871	F071750	DFETALTDPTNLSKILNKHNFEYSAAGETKLIVPGTMPNPLLPDLRAFRSEHWEPKNQGDQAIVEVSIYEWEPDYAPQPEVIKTIRVMIRRNPAYADKTNEFLEGIKNKYPNKSKRYFHNSELYKSYGEPFNVFTNDSKIEVRTETVKPIYSQFYIISFDLIR
Ga0208289_1011363	Ga0208289_10113631	F098311	MGKSLTLKIMVALGVIQGVAGLLRGFNWVQFGSDIFRQGLFLLPMIGAVAVMRGVFIAGIALLFLLFVVGALLGKSWAWWICLTAVVVNLIIVLSALAQGGLVAEGIAWSVIPVILLFYLFSQTG
Ga0208289_1012099	Ga0208289_10120992	F019455	MDQKQVIAALKRLRARHRDDPEYKKLRKDLPADWPI
Ga0208289_1012285	Ga0208289_10122851	F062546	MATPKLKFYFREPTIDTNIPITDGTVKLDGFDWEFVPNEEECDAWDCGFAAR
Ga0208289_1012285	Ga0208289_10122852	F019288	MSELHPVPDSPQLQALHARLAEYSLGGHWQTRDKNPELVPYLWPWSAIHSCLMESGEVVKLGGVDDAAKRRTVQLVNPALTDKKATSRTLQ
Ga0208289_1012465	Ga0208289_10124652	F021486	QVFPDWALAERWDGEHEAHTFLLKKPREPLHLLKVSRAVLDDCGPRKLTGLLEGRQVAHALRKAEHHRLMLTARGLDPI
Ga0208289_1014277	Ga0208289_10142772	F027235	MDSYVVRIYRRDGKKFRILIGTVEAAGSGRKMAFSNTEELWEILRRSRLRKEVMSAGEVPDVEGPAEGARQTKPTIEP
Ga0208289_1016859	Ga0208289_10168592	F026668	MSLVNLTVMYGHLEGAGRGFARDPTGYLSVEAGIFLKHGLDVSWQHVQGTEERYRRLENGSAQISLLVGRASL
Ga0208289_1018796	Ga0208289_10187962	F003529	MAIFESLANSLRVLAVGHRVKVTLRPETGRFPNPMEGRITEKDDSGNLSLTSDQGLVQVRAE
Ga0208289_1018924	Ga0208289_10189242	F011452	MKQYKGHPIYGIAVPALKGDWCSRGLVFDRDQSQTIEIKRIECAAELTFKRKQLAEEHGLKLCR
Ga0208289_1019300	Ga0208289_10193001	F039844	MKPHEWRQKLGDCVRDLFQSQEMEHFYSIPMTVERARIYLLQLSLYVRQRRNFWPQVAAN
Ga0208289_1021496	Ga0208289_10214961	F016436	LRATRLIRSDRKFAIEFLKGPWVDLGNNPEKIAARVYDVAGPDFLENGLVSEEIQRQMIADASVRIKPKQPVLPEQVFDFSIVRKIAATLK

Scaffold ID

Protein ID

Family

Sequence

Ga0208289_1000001

Ga0208289_10000017

F086339

MAKGMQGTASANKMMPNMSTYGGQESPGYKPPTGSAGAKAHGEYSTKKNPLSVPQKGSQIGPGYGNADRMKAMRSKDEQAAKENLRGQAC

Ga0208289_1000602

Ga0208289_10006022

F086537

VLSGNDEGGGELLAQWLKEAGRRAQSKGKASDGAASDADDTFNSPASLHRYLEELAGRKLQTHAEVLAFLKEVAGGQPQGHRDHERRRMVREVALIALLAISYLHFYYWEVQLQIAALKGVPVLVPAPTAQPSKIRS

Ga0208289_1002051

Ga0208289_10020512

F023611

MPYIFDRFAGPAQVSNAAATKFTVSAGESWIVDHIHVQNPSAATVTFTMSIGADAAGTRLLDAYPIGAGQVLDLYPQYQLDAAEIFQAFAGTNNILTLTIDGRKSILG

Ga0208289_1003005

Ga0208289_10030052

F016408

SVFMVEAIEYTKLAEWSTDSDRKSVLNGVRELIANAFDEIRRQIDAQMQQPGTGVIGTVTSDTPAGGSNVIVLTTDGFGNKLMRFGQTVQIFDSTLATLRGSGTITFLDPAMSGDHTINITPQIAGVVAGDLIVTNGLSAPASLPALYGVPYHHSNASTGTWLGFNRATTPEIRSNRVNGGGAALQLPLPRLAINSIGYRVGINNDFDPTAWMNPCQIQSYEEIGQLVIAIFKQPKDESLNMYFGNGKGSGMQMAGAKVRGHFTWDKTRIDFMVDQLWGRGEIMPLGFYKTDGRNIFEIRGASGGVATSDIFYMINGMQTFVSNPAGTAYIDSLAVPDGY

Ga0208289_1004300

Ga0208289_10043001

F097092

EIADAHPRLDLWLAWRRGGLGAAAREFVLHARRLAR

Ga0208289_1004536

Ga0208289_10045361

F022278

PIMSVLLIEPILDRYVAQVEKRDKDWKAKEVEALLLRLRKEILDCLR

Ga0208289_1007542

Ga0208289_10075422

F075739

EAEKLIASTAAFVQRARARCHDEMFEHVDVISKRLSELRVRSEWLRLVALGVIEPESLPEHKERQGPDRRVAIDRRIAGMRQQVRAHASKLRKVG

Ga0208289_1008637

Ga0208289_10086372

F002494

MSGMALMRCAELQKEFGCGSLTQFRIVTTAKPGNVPFHWPWLRRGRECPERADEKEVRELRLALSPLKLVEKSRKNPRAYHCPACGGRKAFGARQCRSCWRVSVRR

Ga0208289_1009087

Ga0208289_10090871

F039374

GRAMPLRLVVTAKNAGLFSRQDEEAEKITQLSEGENLVPMVQSEGGRQWYMVRTQKGLVGWIKSTDVREEKTKQ

Ga0208289_1010424

Ga0208289_10104241

F083436

MSKDPNTIKIVNLLVEVAKLDAVHRDVHLRRARQLLSATLDESAYRAIGSTEKEIQDLMSRSRSAVLQRNWAQAAELSGQIDSMRQRLAKMGKLANIGKE

Ga0208289_1010850

Ga0208289_10108501

F081902

ANRRISNSFCKIHQVHDFFIASAGFYDTRAGQRLNIKELVTRVARKSDSLTVAVNRSSRAIASALSQAVSDAREDDGLYNVLVGGNVVTFFFGFEDGKPATYAHRFSVRTQPEHSKLPLIDATHEDCGPQCVTADGNPYLMHTRSEAMDNFRSQNLGFLRDDPVAFVRSMILSDIAANKDRSGPPVDILRIDHNGPKWIEKKPNCP

Ga0208289_1011187

Ga0208289_10111871

F071750

DFETALTDPTNLSKILNKHNFEYSAAGETKLIVPGTMPNPLLPDLRAFRSEHWEPKNQGDQAIVEVSIYEWEPDYAPQPEVIKTIRVMIRRNPAYADKTNEFLEGIKNKYPNKSKRYFHNSELYKSYGEPFNVFTNDSKIEVRTETVKPIYSQFYIISFDLIR

Ga0208289_1011363

Ga0208289_10113631

F098311

MGKSLTLKIMVALGVIQGVAGLLRGFNWVQFGSDIFRQGLFLLPMIGAVAVMRGVFIAGIALLFLLFVVGALLGKSWAWWICLTAVVVNLIIVLSALAQGGLVAEGIAWSVIPVILLFYLFSQTG

Ga0208289_1012099

Ga0208289_10120992

F019455

MDQKQVIAALKRLRARHRDDPEYKKLRKDLPADWPI

Ga0208289_1012285

Ga0208289_10122851

F062546

MATPKLKFYFREPTIDTNIPITDGTVKLDGFDWEFVPNEEECDAWDCGFAAR

Ga0208289_1012285

Ga0208289_10122852

F019288

MSELHPVPDSPQLQALHARLAEYSLGGHWQTRDKNPELVPYLWPWSAIHSCLMESGEVVKLGGVDDAAKRRTVQLVNPALTDKKATSRTLQ

Ga0208289_1012465

Ga0208289_10124652

F021486

QVFPDWALAERWDGEHEAHTFLLKKPREPLHLLKVSRAVLDDCGPRKLTGLLEGRQVAHALRKAEHHRLMLTARGLDPI

Ga0208289_1014277

Ga0208289_10142772

F027235

MDSYVVRIYRRDGKKFRILIGTVEAAGSGRKMAFSNTEELWEILRRSRLRKEVMSAGEVPDVEGPAEGARQTKPTIEP

Ga0208289_1016859

Ga0208289_10168592

F026668

MSLVNLTVMYGHLEGAGRGFARDPTGYLSVEAGIFLKHGLDVSWQHVQGTEERYRRLENGSAQISLLVGRASL

Ga0208289_1018796

Ga0208289_10187962

F003529

MAIFESLANSLRVLAVGHRVKVTLRPETGRFPNPMEGRITEKDDSGNLSLTSDQGLVQVRAE

Ga0208289_1018924

Ga0208289_10189242

F011452

MKQYKGHPIYGIAVPALKGDWCSRGLVFDRDQSQTIEIKRIECAAELTFKRKQLAEEHGLKLCR

Ga0208289_1019300

Ga0208289_10193001

F039844

MKPHEWRQKLGDCVRDLFQSQEMEHFYSIPMTVERARIYLLQLSLYVRQRRNFWPQVAAN

Ga0208289_1021496

Ga0208289_10214961

F016436

LRATRLIRSDRKFAIEFLKGPWVDLGNNPEKIAARVYDVAGPDFLENGLVSEEIQRQMIADASVRIKPKQPVLPEQVFDFSIVRKIAATLK

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300026052: Natural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - MayberryNW_CattailA_D1 (SPAdes)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences