Sample 3300026099

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

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Sample 3300026099

3300026099: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_C_D1_MG (SPAdes)

Overview

Basic Information
IMG/M Taxon OID	3300026099 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114514 \| Gp0125957 \| Ga0209920
Sample Name	Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_C_D1_MG (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	106384757
Sequencing Scaffolds	22
Novel Protein Genes	23
Associated Families	17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfatitalea → Desulfatitalea tepidiphila	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium	2
Not Available	11
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → unclassified Desulfobacteraceae → Desulfobacteraceae bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfobacter → Desulfobacter postgatei	1

Ecosystem and Geography

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 → 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)

Location Information
Location	South San Francisco, USA
Coordinates	Lat. (^o)	37.4973	Long. (^o)	-122.1295	Alt. (m)	N/A	Depth (m)	0
Location on Map

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Associated Families

Family	Category	Number of Sequences	3D Structure?
F012457	Metagenome	280	Y
F026012	Metagenome / Metatranscriptome	199	Y
F042909	Metagenome	157	Y
F045765	Metagenome / Metatranscriptome	152	N
F047065	Metagenome / Metatranscriptome	150	Y
F054047	Metagenome / Metatranscriptome	140	Y
F070127	Metagenome / Metatranscriptome	123	Y
F070131	Metagenome / Metatranscriptome	123	Y
F077317	Metagenome / Metatranscriptome	117	Y
F078289	Metagenome / Metatranscriptome	116	N
F081352	Metagenome / Metatranscriptome	114	Y
F084253	Metagenome	112	Y
F087210	Metagenome / Metatranscriptome	110	Y
F087950	Metagenome / Metatranscriptome	110	Y
F090406	Metagenome	108	N
F099975	Metagenome / Metatranscriptome	103	Y
F103272	Metagenome	101	Y

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0209920_1000366	All Organisms → cellular organisms → Bacteria	5055	Open in IMG/M
Ga0209920_1004101	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfatitalea → Desulfatitalea tepidiphila	1862	Open in IMG/M
Ga0209920_1008757	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1330	Open in IMG/M
Ga0209920_1008770	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium	1329	Open in IMG/M
Ga0209920_1010386	Not Available	1223	Open in IMG/M
Ga0209920_1011337	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → unclassified Desulfobacteraceae → Desulfobacteraceae bacterium	1171	Open in IMG/M
Ga0209920_1013709	Not Available	1062	Open in IMG/M
Ga0209920_1013883	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	1055	Open in IMG/M
Ga0209920_1014454	Not Available	1033	Open in IMG/M
Ga0209920_1014553	Not Available	1030	Open in IMG/M
Ga0209920_1016237	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	972	Open in IMG/M
Ga0209920_1016851	Not Available	953	Open in IMG/M
Ga0209920_1021499	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	838	Open in IMG/M
Ga0209920_1021796	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium	832	Open in IMG/M
Ga0209920_1028850	Not Available	715	Open in IMG/M
Ga0209920_1039782	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfobacter → Desulfobacter postgatei	601	Open in IMG/M
Ga0209920_1040889	Not Available	592	Open in IMG/M
Ga0209920_1047674	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	545	Open in IMG/M
Ga0209920_1048249	Not Available	541	Open in IMG/M
Ga0209920_1049477	Not Available	534	Open in IMG/M
Ga0209920_1050528	Not Available	528	Open in IMG/M
Ga0209920_1053086	Not Available	514	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209920_1000366	Ga0209920_10003661	F084253	AAQGFAVRRTSVRRSRKPAENAEQDKKGHLWMDTNYD
Ga0209920_1004101	Ga0209920_10041012	F099975	LFKVKEIKELRVPSFGREQAIPQIDAEIGEKGHLWMETNYAY
Ga0209920_1008757	Ga0209920_10087571	F090406	MKCERNVLWLIVVLAGLAACSTTLTSVDKDGGNVYALPPTVVDQMLKDAMSTEISTGTLRRGSTPYPSYLGEVTWGSLDKDTITASARPAKGRKLDGTIIDGYVFEVSRKGTAPATGEPTVKRIFAKLQNDAELTGTGVAFVEFTD
Ga0209920_1008770	Ga0209920_10087702	F070127	MKEINFSISINLSLTLEEDKARINIKNVDLIPAVVSLPKRLNSWNRTASSKTAKKTVHDIILQTAKKYVIDTGQNKFTGAKLFNLSLLDHPGLKRNTFAAQVIAAAPTHPSHRHYPNQKDYFIYLGKGKYKLNQKYLDINEDQMMLPSDRVRDYVKRIYITPAKKNGKETLSIRAGDIHKELGFSRRI
Ga0209920_1010386	Ga0209920_10103862	F047065	MTDLLNKFSKAAKAVSTSKTRMWECVKQAYADHLSDISRDDLPEEIQIFYDSVKLRVTSVEPPGYIGNDEAIYIANDIMYLADVINSGLRKS
Ga0209920_1011337	Ga0209920_10113371	F084253	AVFVLIKAAQGFVVRRTSVRRSRKPAENAEQDKKGHLWMDTN
Ga0209920_1013709	Ga0209920_10137092	F042909	MVDLINFIGNLNLGTFIVIWTSTIFSVIFIFLLLFSVSQMNKETIKISKKVKILIEGLSEKKINV
Ga0209920_1013883	Ga0209920_10138832	F054047	AGWVEHSAIYRWVSFLNPTYDFPSVLGLSAKPNKMAEDRTIPFFSNNL
Ga0209920_1014454	Ga0209920_10144542	F047065	AAKVVSSSKTHMWECVNRAYVDHLSDISTDILPEEIQIFYDSIKLRITSVEVLGHIDNDEASYIANDIMYMADVISSGLRKP
Ga0209920_1014553	Ga0209920_10145531	F081352	MFLADVSLMIRLIRKISTITLACLLVLNLTAGAAVVVEHCPPLLGSSSPMDIDHCDGMLNFAFPMQGCCGECNDIFCDLIKNPLQDANAVNASPFQGSCYPFFLGTVDPIAESGTWVASS
Ga0209920_1016237	Ga0209920_10162371	F026012	SVQFKHFYYVRDDISYLLKSNPVERDFLLQALYSTVISLQNNLSINFFDMWVYEIYINKVSTHNKFMNQKSQNLEPDEYITIKLAYGSSVSQEKK
Ga0209920_1016851	Ga0209920_10168512	F070131	MTGKMLTKICIIGVLAFGFLLQVDLAGGDNEINNQKKTKINVPMEIEIFFSSTPMLNEYTVLNIEIRALIDTPNTLIEIEIPRDGFEIISGSTQFNEDLSSGSTTIYQIEVLPVALGQYKISASAISGETDYIFGKREELYVNIGEGFSELSKTSFTPEIANNRSGAIKIGNL
Ga0209920_1021499	Ga0209920_10214991	F054047	RGLFVGWVEHPDIFCWVSFLNPTYLPAIFLLSAKPNKMAEDRTIPHFFNPEL
Ga0209920_1021796	Ga0209920_10217961	F045765	MQYHSSKGENTTTIKIDDRLYDLLRKFCDKEGRRLKDFVEDALENAIYTEESIKVLNEEIISLKKKEAKYDYAFRRGFQKGFYISFCALHGQILLEPDDEAFEILKNDPYRISKGAQLDLFRSKEI
Ga0209920_1028850	Ga0209920_10288502	F077317	MEESLMKPADETIWYENNQPIQEFLESFRKPVNLEADHQAEELSWIEIMNNPTQI
Ga0209920_1039782	Ga0209920_10397821	F084253	AIFVWIKAAQGFSVRHTSCMPHRKPAENADPGKKGHLWMETN
Ga0209920_1040889	Ga0209920_10408891	F078289	RHEDIPKMRELGVSQEVIQYFISNQTSSVSSEDVIKMKQSGLKNDDIMSAIKSDLYRPEQKSTSMKEAELIAKLKESGMSDEAVLQFIQAVKSARRVDSDGNVTKQYTNESQRTQYPTEGATFPKPDNYGYDPINGRFLLLVNPQNQ
Ga0209920_1043682	Ga0209920_10436821	F087210	MRFLIAALAFAGAETALAHTPESGFLSNFGHQLTSLHHSPAAMLLGVAVLVLMLVAVRKLTTR
Ga0209920_1047674	Ga0209920_10476742	F087950	MGSGMVQCWINGPATSGIDDKIKMVNILLKTNIPSFHPSIIPFPGQI
Ga0209920_1048249	Ga0209920_10482491	F047065	MTDLINKFSRAAKAVSSSKSHTWECVKKAYADHLSDISTDRLPLDIQIFYDSVKLRVTSAEAFGHIDNDEASYIANDIRYMA
Ga0209920_1049477	Ga0209920_10494772	F012457	MMIKDLEMSKDLDRDALSAVRGGRNSIEQGGVYAPVANAGGGFSFGSPTTIVSAPVSAPTAILNDNDLHLDIANKSTSVLGSLGTFVWQ
Ga0209920_1050528	Ga0209920_10505281	F047065	MTDLLNKFSEAAKVVSSSKTPMWECIKQAYVDHLSDISTNNLPEEIQIFYDSVKLRVTLVDTLGHIDNDEASFIANDIMYMADVISSGLRKS
Ga0209920_1053086	Ga0209920_10530862	F103272	MSYMTDREKEIIKYQKQYLNLVNKITRLQLSGENPPEELLKTAQEIGRKGQIP

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