3300026120: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_C_D2_MG (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026120
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114514 | Gp0125929 | Ga0209948
• Sample Name: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_C_D2_MG (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 251629837
• Sequencing Scaffolds: 16
• Novel Protein Genes: 18
• Associated Families: 17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Predicted Viral	2
All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Salinivirgaceae → Salinivirga → Salinivirga cyanobacteriivorans	1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group	1
All Organisms → Viruses → unclassified viruses → Virus NIOZ-UU157	3
Not Available	8

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): 37.4965
  • Long. (^o): -122.133
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002407	Metagenome / Metatranscriptome	562	Y
F004370	Metagenome / Metatranscriptome	441	Y
F015210	Metagenome / Metatranscriptome	256	Y
F018106	Metagenome / Metatranscriptome	237	Y
F022114	Metagenome / Metatranscriptome	216	Y
F022460	Metagenome / Metatranscriptome	214	Y
F032166	Metagenome	180	Y
F035721	Metagenome / Metatranscriptome	171	Y
F038111	Metagenome	166	N
F038175	Metagenome / Metatranscriptome	166	N
F042291	Metagenome	158	Y
F056035	Metagenome / Metatranscriptome	138	Y
F062250	Metagenome	131	Y
F066493	Metagenome	126	Y
F078253	Metagenome	116	Y
F097996	Metagenome	104	N
F104555	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209948_1005539	All Organisms → Viruses → Predicted Viral	3312
Ga0209948_1009782	All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium	2450
Ga0209948_1015513	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Salinivirgaceae → Salinivirga → Salinivirga cyanobacteriivorans	1918
Ga0209948_1023344	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group	1537
Ga0209948_1034570	All Organisms → Viruses → unclassified viruses → Virus NIOZ-UU157	1231
Ga0209948_1034603	Not Available	1231
Ga0209948_1043627	All Organisms → Viruses → Predicted Viral	1076
Ga0209948_1057816	Not Available	910
Ga0209948_1070730	Not Available	802
Ga0209948_1072779	Not Available	787
Ga0209948_1083488	Not Available	722
Ga0209948_1088257	All Organisms → Viruses → unclassified viruses → Virus NIOZ-UU157	697
Ga0209948_1090766	Not Available	684
Ga0209948_1092683	Not Available	675
Ga0209948_1112796	All Organisms → Viruses → unclassified viruses → Virus NIOZ-UU157	593
Ga0209948_1120268	Not Available	568

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209948_1005539	Ga0209948_10055398	F097996	PFTADGKYWKKSEHFNWAERNLEMKDVASLYAQGFVYHNTELNKANKVGDRLSEMNAEDLRSVVTQLNAIVKDRTSSNQEFNNKKCKQSKIEDKQRGLIRRFLNHNPWITEDFYTIRDTILGD
Ga0209948_1009782	Ga0209948_10097823	F042291	MPVYQAYNGRIKAWVKYHFVKDGRVEILNVKQREPKKPFKGVPKKGKKK
Ga0209948_1015513	Ga0209948_10155132	F015210	MAIKPKYRKSITIFDVDDSLVITKSKIKVYNPDTGFSTELTPQEFNTFKRRANDNMDFSDFRNAEILKSGKIIEWVFEILKRTLMKGKPVGVITARDNGDLIGEFLSHYGININPNFIFAVNDPALGFTGSISDKKKQAFEKFIDMGFTNFKFFDDDEKNIKIAKSIPKKYPGVKMKATLIKKKWIPT
Ga0209948_1023344	Ga0209948_10233441	F032166	DLDDGFNEVEEAEELLDFQRRTQGQIKSQGLGENYLTDERDMTKREAASIRWAIDPDTEREWL
Ga0209948_1034570	Ga0209948_10345702	F062250	MNIKSLTLKNTLIDEKTGESYFDLTAPSFKYVSEYGIKSIHYVSFDQAGRIDLVSDQYFGTTEYVDAICIINNIFNPFSVQEGDLLIIPNLKN
Ga0209948_1034603	Ga0209948_10346033	F038111	MIHRVPVVNRNNYTIWLENYKNIANFIHAEVYKYNKTTREAFGKDLDKLMDLHQNPLYVLVETDNNKLKKFMNIYGLTLDHKPLCDDGIEREVYRL
Ga0209948_1043615	Ga0209948_10436152	F035721	MSYVDCDDPNAKECLDSLIKEINDELTIACQVPFTVPKKEIARIVKRAKDYFYKIYEDSVEEMYIALPASAWDNDGFSGGINNKNDTLSKNNLQSNRGVVSMPHGVYSVNNVFEIGGFSGEDGGFGSRSFSAGDPDLSIDKFIYDDVYGAGIGSENLMYYVINEKFIDNARQALQP
Ga0209948_1043627	Ga0209948_10436271	F018106	MAKKLSETESKQTLGVAGDNTHNGQIRADEFLPELRGKRAI
Ga0209948_1053555	Ga0209948_10535552	F104555	MREDNPGNMTAFERLDWILGSPFGGEDLAALPVSDDQTIRQAIRRSIDANGIQATGEHWAAVLDTIGPVPQLYLDTVKVIFNQEVAECF
Ga0209948_1057816	Ga0209948_10578162	F066493	VSQSREWTDGVIDVADELVQEHSAEGAIERLQRRRQTSDDELQARCNEAIAWIRREVQSD
Ga0209948_1070730	Ga0209948_10707302	F038111	ENYKNIATFIHADVYKYNKTIRQEFGKDLDLLADLHNSPLYVLTHKDNKKLKKFMSIYGLVLDHTPLCDDGIEREVYRLDRRQ
Ga0209948_1072779	Ga0209948_10727791	F022114	YGRCIDVHRGGSLAVDSQQHFGTMTMNRGSMAKQVTEAPMKKRKGYMKGGSVKTGYKNGGTVKGYRKGGSVDQTQCSPRKRMAMGERDG
Ga0209948_1083488	Ga0209948_10834882	F038175	MKEVKRVGFFKLGKSIKFNEKSWNAIGGDCEPKQLITSIAKRNPKIEYWLLSPNDLGRFRAKETPVKSPLFGPAPETNSVPLNIKEFHSQMKDRKSIDETTDKIKSLNLDFIFFYTGPTSTVNIPNYINK
Ga0209948_1088257	Ga0209948_10882572	F022460	MPSLNKKDRRTGFPSRYEATYREGWDLKNVGYDYNNILLQRTMSNYMFRNPNLSTFLNNYLNPIMTFFLNRVKYLRIFYNYAVPKDYQKIN
Ga0209948_1090766	Ga0209948_10907662	F078253	METKKVFRIENPNDRDGMWYTKEGLLRKKIHILCPDGIAKDFPMPLNLQLHRKNGHIWQSAGKSVENMNQWFTASDAINLYNNGFKLFEFETTMFQELEMEILFCRDGVIKQREIPLESIWDIGGVLNAL
Ga0209948_1092683	Ga0209948_10926832	F056035	MWRFKRTKMSLLYKPKEEQTTTCKIKQEGGKIVLDFYSDGGKFGTDEMLDGYKLTPERLLQILQDRDDYSEDEL
Ga0209948_1112796	Ga0209948_11127961	F004370	MYKVRKINFGWYRRRHGILLENLPPLKKKLLIDHDHMKWLNSDVQAFEVIFKVEDHNDHERKTRKVFWNPFRETFTKIKQIEKDSNLVSWNCAICKEPIKSRMSFKRIENFVCNKCRESHNSKNKRIDQRIIDSTNKFIKHCKGLLRREQREFINYAKK
Ga0209948_1120268	Ga0209948_11202681	F002407	ERDAVKLVNVNTEDLLTAEIEKPIKVSFYNGSKVVEALTHFNGDISGSINYSELDGELMASDFIINDDDLEIKLACADPSLSFMEMSKDEMERAFGTEGSMFEFDLLTTHVDRMKSLFNLEKEEDTFTLYVSDKGIGIKGASYDADIVHSYEGDAEKGSHVVIYKKYLNLLDKENYRVVVCENKVVFKS