Sample 3300026184

Basic Information
IMG/M Taxon OID	3300026184 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114514 \| Gp0125931 \| Ga0209918
Sample Name	Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_restored_D_shore_MG (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)

Gs0114514 | Gp0125931 | Ga0209918

Sample Name

Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_restored_D_shore_MG (SPAdes)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	311291575
Sequencing Scaffolds	31
Novel Protein Genes	31
Associated Families	22

Dataset Contents

Total Genome Size

311291575

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	17
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Candidatus Nitrosocosmicus	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → unclassified Nitrososphaeraceae → Nitrososphaeraceae archaeon	7
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium	1
All Organisms → cellular organisms → Archaea	2
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria	1
All Organisms → Viruses → unclassified archaeal viruses → ANMV-1 virus	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

Not Available

All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Candidatus Nitrosocosmicus

All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → unclassified Nitrososphaeraceae → Nitrososphaeraceae archaeon

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

All Organisms → cellular organisms → Archaea

All Organisms → Viruses → Predicted Viral

All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria

All Organisms → Viruses → unclassified archaeal viruses → ANMV-1 virus

Ecosystem Assignment (GOLD)
Name	Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.
Type	Environmental
Taxonomy	Environmental → Terrestrial → Soil → Wetlands → Unclassified → Pond Soil → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Ecosystem Assignment (GOLD)

Name

Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Type

Environmental

Taxonomy

Environmental → Terrestrial → Soil → Wetlands → Unclassified → Pond Soil → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	terrestrial biome → wetland area → soil
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Soil (non-saline)

Alternative Ecosystem Assignments

Environment Ontology (ENVO)

terrestrial biome → wetland area → soil

Earth Microbiome Project Ontology (EMPO)

Free-living → Non-saline → Soil (non-saline)

Location Information
Location	South San Francisco, USA
Coordinates	Lat. (^o)	37.4958	Long. (^o)	-122.1331	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Location Information

Location

South San Francisco, USA

Coordinates

Lat. (^o)

37.4958

Long. (^o)

-122.1331

Alt. (m)

N/A

Depth (m)

Location on Map

Zoom:

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Family	Category	Number of Sequences	3D Structure?
F001667	Metagenome / Metatranscriptome	654	Y
F005874	Metagenome	387	Y
F008189	Metagenome / Metatranscriptome	337	Y
F015275	Metagenome / Metatranscriptome	256	Y
F015411	Metagenome	255	Y
F022369	Metagenome / Metatranscriptome	214	Y
F029940	Metagenome / Metatranscriptome	187	Y
F032166	Metagenome	180	Y
F033186	Metagenome	178	Y
F033343	Metagenome	177	Y

Scaffold	Taxonomy	Length	IMG/M Link
Ga0209918_1000903	Not Available	17635	Open in IMG/M
Ga0209918_1001401	Not Available	12968	Open in IMG/M
Ga0209918_1009672	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Candidatus Nitrosocosmicus	3190	Open in IMG/M
Ga0209918_1018764	Not Available	2029	Open in IMG/M
Ga0209918_1020418	Not Available	1921	Open in IMG/M
Ga0209918_1024441	Not Available	1702	Open in IMG/M
Ga0209918_1030107	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → unclassified Nitrososphaeraceae → Nitrososphaeraceae archaeon	1487	Open in IMG/M
Ga0209918_1031769	Not Available	1438	Open in IMG/M
Ga0209918_1031977	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Ignavibacteriae → Ignavibacteria → unclassified Ignavibacteria → Ignavibacteria bacterium	1431	Open in IMG/M
Ga0209918_1033608	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → unclassified Nitrososphaeraceae → Nitrososphaeraceae archaeon	1386	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0209918_1000903

Not Available

17635

Open in IMG/M

Ga0209918_1001401

Not Available

12968

Open in IMG/M

Ga0209918_1009672

All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Candidatus Nitrosocosmicus

3190

Open in IMG/M

Ga0209918_1018764

Not Available

2029

Open in IMG/M

Ga0209918_1020418

Not Available

1921

Open in IMG/M

Ga0209918_1024441

Not Available

1702

1487

Not Available

1438

Open in IMG/M

Ga0209918_1031977

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

1431

Open in IMG/M

Ga0209918_1033608

1386

Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209918_1000903	Ga0209918_10009039	F029940	MNDKPENNVGKELFLDKIEKLSLQIEKLTSEISQMKHKLDKSNKINRSFGLKSLQKSEPLNFTKEVFGIGSPTKRYLLSIRAITEIWKNRKNDFLITIRQQDKETHKDLKALGIRIPIENIKQIRTLSREIISLLYVACELKNVEINEILREILLEINEEGLDMVREIKNIMVLKSHP
Ga0209918_1001401	Ga0209918_10014018	F029940	MSHEYDKNINKELFLNKFEKLFLKIEQLTEEVSKLKHKIDKENKINRSFGLKSLKNSSPLTFTKDIFGIGSPTKRYLLSIRAITELWKNRKNDYFLVIRQQEKETQQDLKALGIRIPIDDIKKLRTLSREILSLLYIGCELKGVEINEVLRDILLEINERGNTLVQEIKKKMIS
Ga0209918_1009672	Ga0209918_10096722	F022369	MSKHKLIELQKIIEEKIGSLKEEVEIGTNVKLNPLYIADRQDEIEFLQWTIRIIYSILNRGNDERQQLGVTKKRLEMLETIEFEKTLQERVQELNLKLKESNNLRESDILINEIDTLESILGSLSDLKYGDKVCAIEVAEADNNYQQANRLRKQLIKMQDLETEISAQCSLNWRNTIGSKCIKGEKFFI
Ga0209918_1018764	Ga0209918_10187641	F056354	MILSVFIALSITAVLITGLAIRGDIPELLGAAVGAIMSIVASINALDLFVITNSGNVKDIAPQTDIALILLVIVVINLIFIFDRAFSGGN
Ga0209918_1020418	Ga0209918_10204181	F086685	VSSSPDTSMIELTTIPLVVWVIGCITFVILGHELTHYIAWLPVATSIEYHFEDQYIEAEYPDTPFARKWAVVAGISPVIVATGLVLALIATGWDPTATWHHITASAAVVLYGVSGGKSDFEALLALIKTRGSLG
Ga0209918_1024441	Ga0209918_10244413	F015275	MKTRFGFIDPSAIMGVVVSLIILAVGVFAFFVTLNEITNVADTARTRSAVNNVSDTGNSVFNIIGIVLIIGAIMSIVGLVYNYIRM
Ga0209918_1030107	Ga0209918_10301071	F033186	MNKINNIIPWGLAISTLGVTIAGAFYGTTALGLASITGGALALVAALLARQQMEKKKLNPELAMELK
Ga0209918_1031769	Ga0209918_10317694	F050177	MARIPSDPPDDALTPRQLADRVDDVVNLSVEELEAFRASEYNEEYLEYNSERAQQGNEPLDDVIRLLETPPDQWRDVDDGFNEIAEARELLDFQRRTQAQIESQGLGSNTIAEYDDMTFREAASIRWGI
Ga0209918_1031977	Ga0209918_10319776	F042291	MPIYQSFNPKIKAWVKYHFGKNGVEFTDVKQKEPQKPFKGIPKKGKRK
Ga0209918_1033608	Ga0209918_10336081	F022369	LSTYWFMQKHKLIELEKIIDERIGSLKEEVEIATNVKLNSLYIADRRDEIEFLQWITRIIHPILNRGNDERRQQLGVTKKRLEMMETIEFENALQERVQELNLKLKESNNLRESDILINEIDTLESILGRLSDLKYGDKVRAIEVAEAENNYQQANRLRKQLIRIQDIESEINAQCSFAR
Ga0209918_1039173	Ga0209918_10391732	F001667	MAVMLVGATALATEDAFAGKKKYERSQATSQANACGNGFLSTNVGCQNTASQIQGDENVVSQAAQQTFPDSEFDHGHDGKDNRD
Ga0209918_1044654	Ga0209918_10446541	F079748	MNTKYLVIVAAMAVMLVGASALSTTDNAFAGKKKYEKSQASSQANACGNGVLPLNVFCQNLLSQIQGDGNAVNVIGVQ
Ga0209918_1044904	Ga0209918_10449044	F042291	NPKIKAWVKYHFGKNGVEFTDVKQKEPQKPFKGIPKKGKRK
Ga0209918_1045567	Ga0209918_10455671	F001667	MQIKELRLVMLEMNSKYMVVVAAMAVMLIGATAFATDSAFAGGKKKYSQATSQANACGNGFLSTNVGCQNANSQIQGDENVVSQAAQQTFPDSEFDHG
Ga0209918_1048203	Ga0209918_10482033	F086649	MPNPAMDNLTKDSTDKQVQDAVSAEIELCMGQPAPPGAENKQKYCAGRAYGMARSKTGKELNYGT
Ga0209918_1057640	Ga0209918_10576401	F086685	MIDITTIPLVLWVLGCILFVILGHELTHYIAWLPVASSIEYHFEEQYIEAEYPDTPFARKWAVVAGISPVIVATGLLLALIATGWQPTATWHHITASVAVLLYGISGGKSD
Ga0209918_1062185	Ga0209918_10621851	F075754	MINYQAGIEWHIPMNRWEPIHARVDDTSEWYAAQVGRSEYLRDSEEDADMHHRKGGVVAEGLVKAIFAGMEWWDTHSFDTFLGGTRYDIISRGLNRGEPRQHYVHKIQAKKEERAKPSTHYYAVVRNHPDYWLIGHINSIRFWYLCDRSAPEFWDDEQFDGGFLSYEHF
Ga0209918_1064065	Ga0209918_10640651	F032166	LDDVIRLLSTPPEAWKDEDDGFNEVQEAEELLDFQRRTQAQIASQGLGMNFLGDDQDMTMREAASIRWGIDPDDEREWL
Ga0209918_1069146	Ga0209918_10691461	F057184	MSLLQPQAMMMTTLLFFIISSITMNTEVLAQNQSPVNQSHAGTIDLEIRGVSAFVPEGRNIYSITGEVFNNNTFPFNSVQVSATLYDKNDQVVGVGSGFTSPSGIPPGLKAPFKIDIFGTEIKGGIDAINNSTLQVAGDLQVQLFQ
Ga0209918_1070237	Ga0209918_10702372	F074420	MFLRLIVHYLFRRRKGVFMKTFIVIMATVILGVLIWGLILGPGENSLYSQASRLLDYGIEQLQTIP
Ga0209918_1072881	Ga0209918_10728812	F033343	CSKVLEGDSFMDLVEASMKEEGGQHVHGWENITLVEEKPVAVLKNKLVTV
Ga0209918_1074812	Ga0209918_10748121	F080661	MNSFERMWTALNLEKPDRMPIHTINLDGNVADKILGAPESSAFDVFDEMEEKFPDTWADKINSILNDIQISFFAKTIRAGHKIGFDGVGVQYIPFILESKEEMTDIFGKRHKVRNIDGNPYPDYYGGYIKDREAWEAYPKPDLKEEYKKAKKFWKGIKRKCRDIEDDICIVAQNALTSIFPPVWQGMGMANFARALKNDPKLIEERFRFTTDYT
Ga0209918_1083034	Ga0209918_10830341	F032166	EYLAANSERAQRGNEPLDDVIRLLETPPEEWRDVDDGFNEIAEARELLDFQRRTQAQIKSQGLGSNTIAEYDDMTFREAASIRWGIDPDDEREWL
Ga0209918_1086392	Ga0209918_10863924	F015411	MPRRGYGRKDGNQRGLKQGGRGINRTDKCRHPERKKGR
Ga0209918_1115254	Ga0209918_11152542	F005874	RKQTMAMIPNMPPDNDLTPAELYDRVEDITNLTVEELQAFKGSDYNEIYNARKSDAAQRKDEPLDDVIRLLSTEPAEWRDVDDGFNEVDEAEELLNFQRRTQAQIASQGLGENYLTEEEDMTMREAASIRWGIDPDEQREWL
Ga0209918_1122279	Ga0209918_11222791	F073153	MSEQDLPVRDEIRRIDGNIEGILTRLGNQSETIARIDLLVEEMQEMQTELEHIEVRLNTL
Ga0209918_1135788	Ga0209918_11357881	F096272	MEDLKKLHRKPKVSIAEINDFVLQHPKWAASIIRNAIGFEMYREFCLCCENFDKCYEKLGAIKRENSLGCICNEFLNQEHSEANRPRLRAYFKEVAVMLNL
Ga0209918_1136305	Ga0209918_11363051	F008189	NYWKPKVGQFKVKALTELEDTEPYVQKRSDGTEEVHPQAKIKILVNDEEKVWTFGKGKTPASTFGQIVELASRNNNILKDKEFTVVVKSDGVKNDYTIV
Ga0209918_1136953	Ga0209918_11369531	F001667	MNTKYLVIVAAMTVMLIGATALASTDSAFAGGKKKYEKSQALSQANACGNGKLPMNVFCSNSASQIQGDENSVGTATTQSSED
Ga0209918_1138535	Ga0209918_11385351	F032166	ETPPDEWRDVDDGFNEIAEARELLDFQRRTQAQIKSQGLGSNTIAEYDDMTFREAASIRWGIDPDDEREWL
Ga0209918_1142622	Ga0209918_11426221	F075754	MISYQAGIRWHTPVNPWEPIHARVDDTSEWYAAQVGRSEYLRDSEEDADMHHRKGGVVAEGLVKAIFPGMEWWDTHSFDTFLGGTRYDIISRGLNRGEPRQHYVHKIQAKKEERAKPSTHYYAVVRNHPDYWLIGHINSVRFWYLCDRSAPEFWDDEQFDGGFL

Showing 1 to 31 of 31 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

3300026184: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_restored_D_shore_MG (SPAdes)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences