3300026133: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_B_D1_MG (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026133
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114514 | Gp0125955 | Ga0209940
• Sample Name: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_B_D1_MG (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 169963205
• Sequencing Scaffolds: 30
• Novel Protein Genes: 31
• Associated Families: 26

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1
Not Available	11
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium RBG_16_54_18	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfosarcina → unclassified Desulfosarcina → Desulfosarcina sp. BuS5	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales → unclassified Myxococcales → Myxococcales bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium PC51MH44	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	2
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobulbaceae → unclassified Desulfobulbaceae → Desulfobulbaceae bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	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): 37.4972
  • Long. (^o): -122.1293
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001488	Metagenome / Metatranscriptome	686	Y
F008719	Metagenome / Metatranscriptome	329	Y
F018371	Metagenome / Metatranscriptome	235	Y
F031503	Metagenome / Metatranscriptome	182	Y
F037736	Metagenome / Metatranscriptome	167	Y
F039700	Metagenome / Metatranscriptome	163	Y
F040630	Metagenome	161	Y
F042909	Metagenome	157	Y
F044506	Metagenome / Metatranscriptome	154	Y
F045765	Metagenome / Metatranscriptome	152	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209940_1003373	All Organisms → cellular organisms → Bacteria	2504
Ga0209940_1006637	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales	1868
Ga0209940_1012198	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1402
Ga0209940_1014679	Not Available	1283
Ga0209940_1015746	Not Available	1236
Ga0209940_1018616	Not Available	1138
Ga0209940_1019047	All Organisms → cellular organisms → Bacteria	1124
Ga0209940_1019260	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium	1117
Ga0209940_1021426	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium RBG_16_54_18	1060
Ga0209940_1023152	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfosarcina → unclassified Desulfosarcina → Desulfosarcina sp. BuS5	1018

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209940_1003373	Ga0209940_10033731	F084253	KAALVLAVRRTSVRRSRKPAENAEQDKKGHLWMETN
Ga0209940_1006637	Ga0209940_10066372	F081352	MFSANVSLMIRLIRKISAITLTCLLALNLAAGAVVVVEHCPSSMASSSPIDMSHCDGLLNFAFPIQGCCGKCGDIFCDLIKNPLQDANVVKPSPFQGSCYPFFLGTVDPIAESGAWIGLSEPKNLFFGTLAWSQIPLYIENLTLVI
Ga0209940_1012198	Ga0209940_10121981	F001488	LRQIKKQNVKEKQNMARLELTLNFPKSFQIKTFNVKSEKTLSPLAKLILQSVQFKHFYYVRDDISYLLKSNPVERDFLLQALYSTVISLQNNLSINFFDMWVYEIYINKVSTHNKFMNQKSQNLEPDEYITIKLAYGSSVSQEKK
Ga0209940_1014679	Ga0209940_10146791	F084254	ESMVIEIMAEVIRQSKRHPRADQVASALAMRGLPIAQKDVMTVFDQYDIEKKIVDTY
Ga0209940_1015746	Ga0209940_10157462	F044506	MQCWINGPATGGIDDKIKMVNILLKTNIPSFHPSIIPFPGQIQMPQKTSIFSVGSRNSETFN
Ga0209940_1018616	Ga0209940_10186161	F031503	MERQEMMELFKATADIQSPEGLAAYRAFAAALTTPILQKIELESIMRQLFAVERLGPGAQAVYPIAEDFEIPVWVLPGLGYVAQNFIEGIGEEVYVPTFTIDASADWKITYARDSRIDIPQRAAARAAKDLANYEEECGWRVIMPAATSAFSGKGLLGSRPAPIYEINPTGTGAGYLSKELINKMMVGFKRTGRTLTDLYVSPEDAADIRE
Ga0209940_1019047	Ga0209940_10190472	F042909	MVELLNFIGSLNLWTFIVIWTSTIFLVIFISLLLFCVSQMNKETIKISQKVKILIEGLSEKKINV
Ga0209940_1019260	Ga0209940_10192602	F045765	VTYHSSKGENTTRIKIDDKLYDLLRKFCDKEGRRLKDFVEDALENAIYTDESIKILNAEIKSLKKKEAKYDYAFRRGFQKGFYISFCALHGQILLGPDDEEYEILKNDPFRISKGAQLDLFR
Ga0209940_1021426	Ga0209940_10214262	F070131	MMGKMLTKISIIGVLAFCFLMQVDLAGGDNRIYGQNKKKSNVPMEIELHFSSTPLLNEYTVLNVEIRSLKDAPNTLIDIKLPSDGFKLISGDTQLNEDLSSGSTTIYQIEVLPAALGQYKISASAISGETDYIFGKREELYVNIGEEFSELSKSSFIPEIADNRSEATKIGNISEPPAEVLSDQKPKEGQDILYFAAPGKGQIAVRGSWVYQDKTGNDRPLRDAMVEIWDADSSGDTLLDTTFTDNSGYYISDNISNSDEEGGGQDIYVKVYSTDNRSVRVTDF
Ga0209940_1023152	Ga0209940_10231521	F037736	VPYRVQLDGLQILWLLANPLRTHGIGESGSKTITGWLLMGAADANHIWWLNTNPFTGLLLHLNSYRIRHL
Ga0209940_1025712	Ga0209940_10257122	F078733	VSALTHKFGLEIDLTSPEARHPDHKHAFEAKILRKDGINHVEFSKEHPGIIVVEYDPSITTPDAIYLKVKRLNGNIKRKVFL
Ga0209940_1026934	Ga0209940_10269341	F072360	MLLSGMNRKLDILMVFSHKALCIAFTLLITLSLSAGGVLANSCQGGPDCINCATAVHPHIPGMDMEMVNQGCQSAEQNSSCGFKSSTSADDFYSMAAVVKSCTQPYFGIFTAASDESDQTHLFRKLISQFQYPDRGELTPIYLLNLSLLC
Ga0209940_1031322	Ga0209940_10313221	F056621	MNDKERFALAERVQKRVQEEHPHFQLIKRKDEIEKQLKK
Ga0209940_1032692	Ga0209940_10326922	F092076	MFTHKIDKLQGIIFARVSGTPTIVLMIDHIQNVLNDPDFDPKYNSIIVFEENTRIAGFPKDEIETIRHILDGYAQQRTGRNWAVVAPNERQEAFLKLNLELISPVKFNIRIFQSEEDALNWIKGR
Ga0209940_1035871	Ga0209940_10358713	F039700	MPLFEVAIIEKPTKKEMEEGVPEKLVFGPKAIIANDTQSAGIAAVMDEKIECNRQRMQVIVRPFA
Ga0209940_1041368	Ga0209940_10413681	F008719	PGVSNLGMTVESYAGDWLRVKQIAERIEVKMAYDMKVVGPDLGYFFEAVVA
Ga0209940_1043891	Ga0209940_10438912	F100426	MARNRIIYASQSVWCNGEVLYRVQSLGSTTTFTSEDIFELGHLDIIDVVDDVPAVAVTLNTNDFGDLRTLATLAQLAPAKKVMEATATDNNGNLVVVSGT
Ga0209940_1047273	Ga0209940_10472731	F047065	KAVSSSKTLMWECVKQAYADHLSDISRDDLPEEIQIFYDSVKLRVTSVEPPGYIGNDEAIYIANDIMYLADVINSGLRKS
Ga0209940_1048232	Ga0209940_10482322	F059980	HLMEEACSMGFSGGFEQGKPETALPELIRFIPGNVKRVNPQNRFCCG
Ga0209940_1052050	Ga0209940_10520502	F042909	MVELLTFIGSLNLGIFITLWTSTIILVIFISLLLVFVSQMNKETIKINKKVKILIDALSEKKTKLGEDDI
Ga0209940_1054417	Ga0209940_10544171	F099323	MLAVWHKFKAFLGHRLILEIAIVGSFIAFTINPGSLGDIMRACGAIFLFNVLIGNYRIGDVTEGHLVVLGIFLITLLINAFMPDEMIHPRSFRYFLALPGMILAIHCFSKRTKPDSRTLLFYCSIAVLAVTIQFVAYHTVERVVNSGGLESYGLSGNMHHFGSYAGLILPVLFYFSTQVKGWLRLLCVAGVIVAFYL
Ga0209940_1057952	Ga0209940_10579522	F018371	MAINNVIQPNRLTNMQEMEVHVNGPDGANRMFIYSGMAEVELTGGLPHPRWSLEVVCFDVGRSYDVENEEVINIVATSSLAGSRTDGVASFAGWQIFGAAGELDEESGRVRMNIAAGARDTQAFLEQISFQVTVLARVK
Ga0209940_1063033	Ga0209940_10630331	F045765	MQYHSSKGEHTTTIKIDERLYDLLRKFCDKEGRRLKDFVEDAIENAIYTEESIKILNEEIKSLKKKEAKYDYAFRRGFQKGFYISFCALHGQILLEPGDEAFEILKNDPFRISRGAQLDLFR
Ga0209940_1066177	Ga0209940_10661772	F042909	MVDLINFIGNLNLGTFIVIWTSTIFSVIFIILLLFSVSQMNKETIKISKKVKILIEGLSEKLALGNDDIIF
Ga0209940_1072349	Ga0209940_10723491	F059981	FKSQDIGAMEQPTIKCIFCGGIANIKEQDHLKIISCPKCKRETAAKTYQDLFDLWMGDIRDEEQ
Ga0209940_1073317	Ga0209940_10733171	F053305	MLKKSLSLVLIAVFALSLIAVATLSAAETQKITGTVMSVNAETGEVIVKDAAGETKTLMADPKAEGAVDIKMLKEGDSVNVESDSDGVIKSIQAE
Ga0209940_1076690	Ga0209940_10766901	F099324	MFKQIIFVIMLGWVLVLSGCAAVDKGHNIEGEDYRGGYPPRGGYTRTTQHKALVSEACNIEANNLAGDKDFMADDRARRVYFSQCMQRNGYNAAGNYVGIPPK
Ga0209940_1077780	Ga0209940_10777801	F047065	MTNLLNKFSEAAKVVSSSKTHMWECVYGAYVDHLSDISTDSLPEEIQIFYDSVKLRITSVEALGHIDNDEAGYIANDIMYMAD
Ga0209940_1082479	Ga0209940_10824791	F053306	MQGSVIMRTKLISTLSLALVLSACGQPEPISYESLAWVNNYYVEHPVASMSASAGGWLFRGAREFDSEIRVGFLVPGSMNPDPAKRQAVLNSLCPARSESIWQALPKNNK
Ga0209940_1083791	Ga0209940_10837911	F040630	LFGILNFGHCDLPFDLAQGGESFDSAQDRKPVERLVEPFGIWV
Ga0209940_1091068	Ga0209940_10910682	F040630	PNYNIQISNKIKRQLFGILNFGHCDLPFDLAQGGGESFDFAQDREPVERLGICVLLFEILYY