3300026157: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R1_A_D2_MG (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026157
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114514 | Gp0125919 | Ga0209942
• Sample Name: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R1_A_D2_MG (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 369601454
• Sequencing Scaffolds: 13
• Novel Protein Genes: 15
• Associated Families: 11

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	8
All Organisms → cellular organisms → Archaea → DPANN group → Candidatus Pacearchaeota → Candidatus Pacearchaeota archaeon	1
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales → Ectothiorhodospiraceae → Spiribacter → Spiribacter salinus	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae → Chryseobacterium group → Chryseobacterium → unclassified Chryseobacterium → Chryseobacterium sp.	2

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?
F007072	Metagenome	358	Y
F018106	Metagenome / Metatranscriptome	237	Y
F023829	Metagenome / Metatranscriptome	208	Y
F034100	Metagenome / Metatranscriptome	175	Y
F038111	Metagenome	166	N
F042291	Metagenome	158	Y
F050177	Metagenome	145	N
F050310	Metagenome	145	Y
F088556	Metagenome	109	Y
F097996	Metagenome	104	N
F100495	Metagenome	102	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209942_1003978	Not Available	6999
Ga0209942_1016736	All Organisms → cellular organisms → Archaea → DPANN group → Candidatus Pacearchaeota → Candidatus Pacearchaeota archaeon	2742
Ga0209942_1055498	Not Available	1183
Ga0209942_1066665	All Organisms → Viruses → Predicted Viral	1039
Ga0209942_1071623	Not Available	986
Ga0209942_1073679	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales → Ectothiorhodospiraceae → Spiribacter → Spiribacter salinus	966
Ga0209942_1110558	Not Available	719
Ga0209942_1117803	Not Available	687
Ga0209942_1120632	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae → Chryseobacterium group → Chryseobacterium → unclassified Chryseobacterium → Chryseobacterium sp.	676
Ga0209942_1127504	Not Available	649
Ga0209942_1132822	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Weeksellaceae → Chryseobacterium group → Chryseobacterium → unclassified Chryseobacterium → Chryseobacterium sp.	631
Ga0209942_1138052	Not Available	614
Ga0209942_1145320	Not Available	591

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209942_1003978	Ga0209942_100397814	F050310	MANMQSFIIGIVLVGVTLVIGIFISSEIADQMDTGSAEANAANDLVTALSGGSAWITILVVVGFATIVLSMLTSGLGGSADVGPVY
Ga0209942_1016736	Ga0209942_10167363	F007072	MLERRSITEYNKEKRKGQISLGDAPSVVMIVGFVFLIMATIAYVSEQYGDALTENGSAANITDDLESELSDNTSIAGIVLTISLVGIVLSVLIGIFVSSRRGGM
Ga0209942_1016736	Ga0209942_10167367	F042291	MPIYQAYNKNIKAWVKYKFAKGKGFKPLNVKEREPKVPFKGIPKKGQRRKK
Ga0209942_1019851	Ga0209942_10198511	F088556	MYKKEIRKDLYTQAEYAKKIGKHRSWVNQQIKLGNIKTVTINGAILVKA
Ga0209942_1055498	Ga0209942_10554981	F050177	MVRIPSDPPDDELTPRQLYDRFEEVTNLTASELKAFRDSEYNQEYLEGNSDRAQRGNEPLDDVITLLETPPEQWRDVEDGFNEIAEAREMLDFQRRTQAQIKSQGLGSNTVAEYDDMTFREAASIRWGIDPDDEREWL
Ga0209942_1066665	Ga0209942_10666652	F018106	MASEKKLSKTEGMKTLGVAGQNVSNGNIRADEFLPELKGQRAIRKF
Ga0209942_1071623	Ga0209942_10716233	F050310	MQSFIIGIVLVGVTLVIGIFISAEIADQMDTGSAEANAANDLVTALSGGSAWITILVVVGFATIVLSMLTSGLGGRSSDVGPVY
Ga0209942_1073679	Ga0209942_10736792	F100495	MSYIVTIHATFDNKADADHIYDQAKSVATNASVARIGEPSERTSHCGVFDEQADGSLIKDRQWHIDRFGIVRETDPVPDDVIPDWIQPTGSQDAYPVNDVFGNVTRVQHNGQVWENTSAANTFEPGVFGWVQI
Ga0209942_1110558	Ga0209942_11105582	F097996	MAINKDGMHPRYLGWQVDWPVFIKMPFSADGKHWKKREHFNWAERDLEVKDVASLYAQGFIYHNTELAKESKVGDRLSEMNADDLKSLVTQLNAIVKERTTSSQEYNNKRCKQSKIEDKQRGLIRRFLNRNPWIADEFYRLRDTIIGD
Ga0209942_1117803	Ga0209942_11178032	F042291	MPTYQAFNKKIGAWVKYHFTKDGWKVKDVKQRKPKVKFKKISVKGKIK
Ga0209942_1120632	Ga0209942_11206321	F023829	MMNVSLQRSYRSKNGNVTFVYKVTGSEEAIEKYKEIQGDFYREDDEGNALWFTTRCIGDKGKLLITTNNKVVPDMSDFDQAASIAEQYGGNFGQAIANASARKILGGGVDDDEENEG
Ga0209942_1127504	Ga0209942_11275042	F038111	KVPVINRENYTIWLENYKNIANFIHADVYKYNKTTREEFGKDLDRLMDLHQNPLYVLTEKSNKKLKKFMSIYGLTLDHTPLCDDGIEREVYRLDRRV
Ga0209942_1132822	Ga0209942_11328221	F023829	MNVTLQRSYRSKNGNVTFVYAINGSEQDLEKYKEIQGDFYREDDNGKPLWFTTRCIGDRGKLIITTNNKVVPDMSDFDQAASIAEQYGGNFGQAIANASARKILGADADEDDEE
Ga0209942_1138052	Ga0209942_11380521	F097996	MAINRDGMHPRYLGWQVDWPIFVKVPFTADGKYWKKSEHFNWAERNLEMKDVASLYAQGFVYHNTELNKANKVGDRLSEMNAEDLKSLVTQLNVIVKDRTSSNQEFNNKKCKQSKIEDKQRGLIRRFLNHNPWITEDFYTIRDTILGE
Ga0209942_1145320	Ga0209942_11453201	F034100	MELVKIKQEFEAHPFLTVPIQEDLLYTLPFKDFDKDGYEVPSPLEHLHYLENWVPLNREIQFHIAPVKPWYEDSEESEYGLVLDHCMLLSRWAFAGEARENIKRAAQERPILNKLLTIQP