3300026251: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_B_D2_MG (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026251
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114514 | Gp0125927 | Ga0209947
• Sample Name: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_B_D2_MG (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 607470149
• Sequencing Scaffolds: 17
• Novel Protein Genes: 19
• Associated Families: 15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → Viruses → Predicted Viral	5
Not Available	6
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 → Viruses	2
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Eustigmatophyceae → Eustigmatales → Monodopsidaceae	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): 37.4961
  • Long. (^o): -122.1331
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F005874	Metagenome	387	Y
F007072	Metagenome	358	Y
F007787	Metagenome	345	N
F022114	Metagenome / Metatranscriptome	216	Y
F031471	Metagenome / Metatranscriptome	182	Y
F050177	Metagenome	145	N
F050310	Metagenome	145	Y
F056354	Metagenome	137	N
F062489	Metagenome	130	Y
F064415	Metagenome / Metatranscriptome	128	Y
F071990	Metagenome / Metatranscriptome	121	Y
F073153	Metagenome	120	N
F097996	Metagenome	104	N
F099972	Metagenome	103	Y
F100427	Metagenome	102	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209947_1020783	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	2998
Ga0209947_1032486	All Organisms → Viruses → Predicted Viral	2278
Ga0209947_1046054	All Organisms → Viruses → Predicted Viral	1827
Ga0209947_1062051	All Organisms → Viruses → Predicted Viral	1511
Ga0209947_1082567	All Organisms → Viruses → Predicted Viral	1257
Ga0209947_1090036	All Organisms → Viruses → Predicted Viral	1188
Ga0209947_1123129	Not Available	969
Ga0209947_1128966	All Organisms → cellular organisms → Archaea → DPANN group → Candidatus Pacearchaeota → Candidatus Pacearchaeota archaeon	940
Ga0209947_1128967	Not Available	940
Ga0209947_1137125	Not Available	903
Ga0209947_1168837	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	786
Ga0209947_1196707	Not Available	710
Ga0209947_1204318	Not Available	692
Ga0209947_1221954	All Organisms → Viruses	655
Ga0209947_1231767	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Eustigmatophyceae → Eustigmatales → Monodopsidaceae	636
Ga0209947_1284115	Not Available	554
Ga0209947_1321091	All Organisms → Viruses	509

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209947_1020783	Ga0209947_10207832	F064415	MSSLGHLAEPGQHELLTVQEASDYLRVGRTLGYQLADDYLRSGGTTGLPVIRLGEKCLRVPRWALVELATTGRVVRLCDAEAPTSGASVAH
Ga0209947_1032486	Ga0209947_10324867	F099972	MPKANTGKRLLNLPQAAEYSAKSYERGLEEGRRQMQAEMLTALEALSAEAKEDMERKLNEKDN
Ga0209947_1046054	Ga0209947_10460545	F097996	MAINRDGMHPRYLGWQVDWPIFVKVPFTADGKYWKKSEHFNWAERNLEMKDVASLYAQGFVYHNTELNKANKVGDRLSEMNAEDLRSVVTQLNAIVKDRTSSNQEFNNKKCKQSKIEDKQRGLIRRFLNHNPWITEDFYTIRDTILGD
Ga0209947_1062051	Ga0209947_10620513	F022114	MTMNRGSMAKQVTEAPMKKRKGYMKGGSVKTGYKNGGTVKGYRKGGSVDQTQCSPRKRMAMGERDG
Ga0209947_1082567	Ga0209947_10825671	F097996	DWPVFVKMPFSADGKHWKKSEHFNWAERGIETKNAATLYAQGFIYHNTELAKANKVGDRLGEMSKDDLYSLVVQLNNIVKKQTTTTKEFNNKKCKQSKIEDKQRGLIRRFLNHNPWITEEYYEIRDHILGD
Ga0209947_1090036	Ga0209947_10900363	F005874	MRMRARKATMAMIPNMPPDDDLTPAELYDRVEDITNLTVEELQAFKGSDYNEIYNARKSDAAQRKDEPLDDVIRLLSTEPAEWRDVDDGFNEVDEAEELLNFQRRTQAQIASQGLGENYLTEEEDMTMREAASIRWGIDPDAQREWL
Ga0209947_1123129	Ga0209947_11231291	F073153	MSEQDMPIRDEIRRIDGNIEGILTRLGNQSETIARIDLLVEEMQDMQTELEHIEVRLNTLESRID
Ga0209947_1128966	Ga0209947_11289662	F007072	SLGDAPSVVMIVGFVFLIMATIAYVSEQYGDALTENGSAANITDDLESELSDNTSIAGIVLTISLVGIVLSVLIGIFVSSRRGGM
Ga0209947_1128967	Ga0209947_11289673	F050177	MARIPSDPPDDALTPRQLADRVDDVVNLSVEELEAFRASEYNEEYLEYNSERAQQGNEPLDDVIRLLETPPDEWRDVDDGFNEIAEARELLDFQRRTQAQIKSQGLGSNTIA
Ga0209947_1137125	Ga0209947_11371252	F064415	MSSLGDLAEPFEHQLLTLGEAAQVLRIGRSLGYQLAHEYLSSGGTSGLPVVRLGEKCLRVPRWALMELATTGRVVRLCDAEAPVGGASDAR
Ga0209947_1168837	Ga0209947_11688372	F007787	MGKTKELAVMLNAESFEEMQFAQDFTKKEAKAKGQELAKTILDNGNANPLEVMATLSRLTEVINTFSETLKKDLNIPDNETTLNGVHFKTRQGYPIYDYKQDGMINHYETLLKQRKDLIKQASKTGKPAVDPNNGEEIEGVPIKGYTKDSIVITF
Ga0209947_1196707	Ga0209947_11967071	F056354	VLITGMAIRGDIPELLGAFVGAVMSIVAAINALDLFVITNSGNVKNLDPQVDIALVLLLIFIVNIIFIFDRAFSPGE
Ga0209947_1204318	Ga0209947_12043182	F071990	MAEPTTRFRDIPLTTAAADIDTAAERLGSISGESTVSTGAGNELDFSTVDISGGAANSGVKMCLWDVTADGGNTTVETFKLWLSSNGFDQAGTVVKFQPLSGGDQGSPSLTENYVANATTSSYTWTNMPEDDEPGTINVYPSDEGTSMALSTTSDDVVMWASYVAVA
Ga0209947_1221954	Ga0209947_12219541	F062489	IIREDVRDGPTRRIVYHPLTTGGYERREQLWRLSIEGWHTTGTEIVEELAIDAPEGER
Ga0209947_1231767	Ga0209947_12317672	F031471	TVHPHGTQTMRLTGFQAIEFAEKEGLTLNKAADAIDDAATGLSVAEAEAIASDRPETIWIDVPEEVRHTRKNMEPER
Ga0209947_1273987	Ga0209947_12739872	F050310	SSEIADQMDTGSAEANAANDLVTALSGGSAWITILVVVGFAIIVISMLTTNLSQNREQSYAY
Ga0209947_1275988	Ga0209947_12759882	F100427	ATVGHELTHYIFWVPIATDIEWDVWGNELEIEHIATPWAMRWAIVASMAPLLVGTVVLMYWLSTQPAVTTHSAIMGIGLAVYTFAGGKADYGRLTDAVTTRLA
Ga0209947_1284115	Ga0209947_12841152	F056354	MILSVFIALSITAVVITGLAIRGDIPELLGAAVGAIMSIVAGINALDLFVITNSGNVKDIAPQTDIALILLVIFVINLIFIFDRAFSGGN
Ga0209947_1321091	Ga0209947_13210913	F022114	VPMANCKSKGMKMGGKVKAGYKMGGKVKAGSPKRKYAKGGKVDQSMCSPRKKMAMGYG