3300007635: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R1_A_D1_MG

Overview

Basic Information

• IMG/M Taxon OID: 3300007635
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114514 | Gp0125918 | Ga0102925
• Sample Name: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R1_A_D1_MG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 689817367
• Sequencing Scaffolds: 22
• Novel Protein Genes: 25
• Associated Families: 20

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	13
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium LW23	1
All Organisms → Viruses → Predicted Viral	3
All Organisms → cellular organisms → Archaea → DPANN group → Candidatus Pacearchaeota → Candidatus Pacearchaeota archaeon	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Moraxellales → Moraxellaceae → Psychrobacter → unclassified Psychrobacter → Psychrobacter sp.	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	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 → 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)

Location Information

• Location: South San Francisco, USA
• Coordinates
  • Lat. (^o): 37.4969
  • Long. (^o): -122.1331
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000695	Metagenome	931	Y
F001506	Metagenome / Metatranscriptome	681	Y
F005874	Metagenome	387	Y
F007072	Metagenome	358	Y
F020197	Metagenome / Metatranscriptome	225	Y
F032166	Metagenome	180	Y
F035190	Metagenome / Metatranscriptome	172	Y
F036014	Metagenome / Metatranscriptome	171	Y
F038111	Metagenome	166	N
F050177	Metagenome	145	N
F052252	Metagenome / Metatranscriptome	143	Y
F056035	Metagenome / Metatranscriptome	138	Y
F059653	Metagenome / Metatranscriptome	133	Y
F075754	Metagenome	118	N
F086685	Metagenome	110	N
F097996	Metagenome	104	N
F100427	Metagenome	102	N
F100495	Metagenome	102	Y
F101126	Metagenome / Metatranscriptome	102	Y
F104555	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0102925_1000273	Not Available	27075
Ga0102925_1015174	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium LW23	3964
Ga0102925_1062290	All Organisms → Viruses → Predicted Viral	1749
Ga0102925_1075862	All Organisms → cellular organisms → Archaea → DPANN group → Candidatus Pacearchaeota → Candidatus Pacearchaeota archaeon	1551
Ga0102925_1087506	All Organisms → Viruses → Predicted Viral	1421
Ga0102925_1093877	All Organisms → Viruses → Predicted Viral	1360
Ga0102925_1104104	Not Available	1277
Ga0102925_1128850	Not Available	1116
Ga0102925_1142300	Not Available	1049
Ga0102925_1152026	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1006
Ga0102925_1157109	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Moraxellales → Moraxellaceae → Psychrobacter → unclassified Psychrobacter → Psychrobacter sp.	986
Ga0102925_1158951	Not Available	978
Ga0102925_1164470	Not Available	958
Ga0102925_1199063	Not Available	849
Ga0102925_1250613	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	735
Ga0102925_1305254	Not Available	651
Ga0102925_1324438	Not Available	627
Ga0102925_1351878	Not Available	597
Ga0102925_1395837	Not Available	555
Ga0102925_1461303	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	506
Ga0102925_1467259	Not Available	502
Ga0102925_1469342	Not Available	501

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0102925_1000273	Ga0102925_100027317	F101126	LDGYDNEEEMIEACEEFIYENLNFSASSVEITYLSDEDEKI*
Ga0102925_1015174	Ga0102925_10151744	F035190	MIKELYIRNPEDPNYKINVLDHSDPIESIISKIKMILGTRKGEVIGDFNFGLGIEDLIFETRINKLNLEENIRNQINTYIDESADYKIDPEVSFGRAKEGYDYCVIDIYIDNNKTYGILVK*
Ga0102925_1062290	Ga0102925_10622902	F097996	MAINRDGMHPRYLGWQVDWPIFVKVPFTADGKYWKKSEHFNWAERNLEMKDVASLYAQGFVYHNTELNKANKVGDRLSEMNAEDLKSLVTQLNVIVKDRTSSNQEFNNKKCKQSKIEDKQRGLIRRFLNHNPWIAEQFYEIRDTILGD*
Ga0102925_1075862	Ga0102925_10758621	F007072	MLNRENINSHNSKKGQISLGDAPQVVMIVGFVFLIMATIAYVSEQYGDALTENGSAANITDDLESELSDNTSIAGIVLTISLVGIVLSVLIGIFVSSRRGGM*
Ga0102925_1087506	Ga0102925_10875063	F036014	MAVFQSRDTRTFEAGGNISTGQFKFVALAADGQVD
Ga0102925_1093877	Ga0102925_10938774	F005874	MRMRARKATMAMIPNMPPDDDLTPAELYDRVEDITNLTVEELQAFKGSDYNEIYNARKSDAAQRKDEPLDDVIRLLSTEPAEWQDVDDGFNEVDEAEELLNFQRRTQAQIASQGLGENYLTEEEDMTMREAASIRWGIDPDAQREWL*
Ga0102925_1104104	Ga0102925_11041041	F086685	MIELTSIPLVLWAVGCAAFVIVGHELTHYLAWLPVATSIEYHFEEQYIEAEYPDTPFARKWAAVAGISPIIVATGLVVALIATGWDPAASWHHITASAAMVLYGVSGGKSDFQALLALIKTRGSLG
Ga0102925_1128850	Ga0102925_11288504	F005874	MAMIPNDPPDDELTPRQLYDRFEDAVNLDVDELRAFKASEYNEAYNSMKSEAAQPGDEPLDDVIRLSETPASMWRDVDDGFNEVEEARELLDFQRRTQAQIKSQGLGENYLTEARNMQKREAASIRW
Ga0102925_1142300	Ga0102925_11423002	F056035	MSLLYKPKEEQTITCEIKQEDGKIILDFYSDWGKFGTDEMFDGYKLTPERLLQILQDRDDYSEDEL*
Ga0102925_1152026	Ga0102925_11520261	F052252	MSNYNPNEFVNPQQIRSPYTGETSRPTFNHFTQDGKSYEQAVFSDPVTGHMIKKGIVSIKDAESGETIADYNTVHSFSSTVQSR*
Ga0102925_1157109	Ga0102925_11571091	F000695	LIYAENFRAEEFREWADDISPRLVTMLDILRHRIGSPIVIS
Ga0102925_1158951	Ga0102925_11589511	F050177	MVRIPSDPPDDELTPRQLYDRFEEVTNLTASELEAFRDSEYNEEYLEGNSDRAQRGNEPLDDVITLLETPPEQWRDVEDGFNEIAEAREMLDFQRRTQAQIKSQGLGSNTLPEYDDMTFREAASIRWGIDPD
Ga0102925_1164470	Ga0102925_11644703	F005874	MLSPEELYDRVEDTVNLSVDELFAFKRSEYNEEYNARKSDQAQAKDEPLDDVIRLLSTPPEAWKDEDDGFNEVQEAEELLDFQRRTQAQIASQGLGMNFLGDDRDMTMREAASIRWGIDPDDEREWL*
Ga0102925_1199063	Ga0102925_11990632	F075754	MAMSYQVGIEWHTPMNPWEPIHARVDDTSEWYAAQVGRSEYLRDSEEDADMHHRKGGVVAEGLVKAIFAGMEWWDTHSFDTFLGGTRYDIISRGLNRGEPRQHYVHKIQAKKEERAKPSTHYYAVVRNHPDYWLIGHINSIRFWYLCDRSAPEFWDDEQFDGGFLSYEHFEQLPLGQPISPPPGIEVFGQG*
Ga0102925_1235879	Ga0102925_12358792	F100427	MTEVPLLVWIPFWALIATIGHELTHYIFWVPIATDIEWDVWGNELEIEHIATPWAMRWAIVASMAPLLVGTVVLMYWLSTQPAVTTHSAIMGIGLAVYTFAGGKADYGRLTDAVTARLA*
Ga0102925_1250613	Ga0102925_12506131	F020197	LRTTAKHMRKSIDISIRKTFERLPEFTSDESKSQEVFITLSYLHKMRKQLDDFQAKHSEDFKGE*
Ga0102925_1305254	Ga0102925_13052542	F086685	SMIDITTIPLVLWVLGCILFVILGHELTHYIAWLPVASSIEYHFEEQYIEAEYPDTAFARKWAVVAGISPVIVATGLLLALIATGWQPTATWHHITASVAVLLYGISGGKSDFDALFNLVRTLRTTS*
Ga0102925_1324438	Ga0102925_13244383	F086685	MIDITTIPLVLWVLGCITFVILGHELTHYIAWLPVASSIEYHFEEQYIEAEYPDTPFARKWAVVAGISPVIVATGLLLALIATGWQPTATWHHITASVAVLLYGI
Ga0102925_1351878	Ga0102925_13518782	F032166	DEWRDLDDGFNEVEEAEELLDFQRRTQGQIEAQGLGENYLTDARDMTKREAASIRWAIDPDTEREWL*
Ga0102925_1395837	Ga0102925_13958371	F038111	SVPCGQFYYQNMIHRVPVVKKFEYTIWLENYKGIANFIHADVYKYNKTVREDFGKDLDKLMDLHVDPLYVLTETDNKKLKKFMSIYGLELDHRPDCDDGVAREVFRLTRRQ*
Ga0102925_1461303	Ga0102925_14613031	F001506	MNRILYENRCKCNEEFSITKKRKSNTRSEGKPLQYPKPSEITSKTFQIKYHEDLSTTAKFILNSFQNKYIYYAMDDILYSLKSNPVERDNLLAVLYSPVLSLQNNFSVNFFDIWIRDIYIDEMSKPNKFLKQNSENLEK
Ga0102925_1462249	Ga0102925_14622492	F100495	FVVLIHATFENKADADHIFNQSEAVATNASVALIGQVGERTSYCSVSEEQPDGSLVVDRQWNIDRFGIVRNTDPIPYEEIPPWIQPTGVQDAYPLLDERGNPTRVTDEGLVWENTSPNNTNKPGVFGWVQV*
Ga0102925_1467259	Ga0102925_14672592	F059653	LTNLEALQSQTEYSNDNLLEKILLDHGLTASASYAAGNSKDIDLCAASLYFTLAAHPEFRDGATSIKYNPTQLIAMARSILQKYGLNEPTVDGASIW*
Ga0102925_1469342	Ga0102925_14693421	F097996	MAIIKDGMHPRYLGFQCDWPVFVKIPFSADGKNWKKREHFNWAERDLERKDVASLYAQGLIYHNTELAKENKVGDRLSEMNTEELKSLVTQINAIVKDRTTSSQEYNNKRCKQSKIEDKQRGLIRRFLNRNPWVIEDFYRIRDHIIGD*
Ga0102925_1470834	Ga0102925_14708342	F104555	MSSRLDEIMEDPLGGEHLAALPVTDDQTIRQAIRRSIDANGIQATGEHWAAVLDTIGPVPQLYLDTVKVIFNQEVSDCF*