3300026110: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_A_D2_MG (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026110
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114514 | Gp0125925 | Ga0209945
• Sample Name: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_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: 263920637
• Sequencing Scaffolds: 30
• Novel Protein Genes: 32
• Associated Families: 22

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
Not Available	19
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Kirjokansivirales → Pyrstoviridae → Hatrivirus → Hatrivirus HATV3	1
All Organisms → Viruses → Predicted Viral	3
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → Haloferacales → Halorubraceae → Halonotius → Halonotius terrestris	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae bacterium	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): 37.4958
  • Long. (^o): -122.1331
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F005080	Metagenome	413	Y
F005874	Metagenome	387	Y
F009454	Metagenome	317	Y
F014681	Metagenome / Metatranscriptome	261	Y
F015039	Metagenome / Metatranscriptome	258	Y
F032166	Metagenome	180	Y
F038111	Metagenome	166	N
F043882	Metagenome	155	Y
F056354	Metagenome	137	N
F062489	Metagenome	130	Y
F065465	Metagenome	127	N
F066493	Metagenome	126	Y
F066711	Metagenome / Metatranscriptome	126	Y
F069440	Metagenome	124	Y
F073153	Metagenome	120	N
F075754	Metagenome	118	N
F079661	Metagenome	115	Y
F089905	Metagenome	108	N
F089940	Metagenome	108	Y
F094957	Metagenome	105	N
F097996	Metagenome	104	N
F098766	Metagenome	103	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209945_1000879	All Organisms → Viruses	10942
Ga0209945_1001252	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	9221
Ga0209945_1001829	Not Available	7586
Ga0209945_1002263	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria	6751
Ga0209945_1013345	Not Available	2329
Ga0209945_1015067	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Kirjokansivirales → Pyrstoviridae → Hatrivirus → Hatrivirus HATV3	2162
Ga0209945_1020068	All Organisms → Viruses → Predicted Viral	1813
Ga0209945_1022199	All Organisms → cellular organisms → Bacteria	1702
Ga0209945_1026266	All Organisms → Viruses → Predicted Viral	1530
Ga0209945_1027297	Not Available	1495
Ga0209945_1029936	Not Available	1411
Ga0209945_1032338	Not Available	1347
Ga0209945_1039899	All Organisms → Viruses → Predicted Viral	1178
Ga0209945_1044812	Not Available	1096
Ga0209945_1046868	Not Available	1065
Ga0209945_1051571	Not Available	1000
Ga0209945_1056579	Not Available	942
Ga0209945_1061241	All Organisms → Viruses	897
Ga0209945_1062566	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → Haloferacales → Halorubraceae → Halonotius → Halonotius terrestris	885
Ga0209945_1062907	Not Available	882
Ga0209945_1067750	Not Available	840
Ga0209945_1081933	Not Available	740
Ga0209945_1095013	Not Available	670
Ga0209945_1096028	Not Available	665
Ga0209945_1099764	Not Available	648
Ga0209945_1103342	Not Available	633
Ga0209945_1109583	Not Available	608
Ga0209945_1115823	Not Available	585
Ga0209945_1123412	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae bacterium	559
Ga0209945_1133572	Not Available	529

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209945_1000879	Ga0209945_10008793	F038111	MIPSKVAVANKPEYTIWLENYKNIATFIHADVYKYNKTIRQEFGKDLDLLADLHNSPLYVLTHKDNKKLKKFMSIYGLVLDHTPLCDDGIEREVYRLDRRQ
Ga0209945_1001252	Ga0209945_10012526	F038111	MIHRVPVVNRNDYTIWLENYKNIANFIHAEVYKYNKTTREAFGKDLDKLMDLHQNPLYVLVETDNNKLKKFMNIYGLTLDHKPLCDDGIEREVYRLDRRV
Ga0209945_1001829	Ga0209945_10018293	F089940	MKYIAVFLIVLGLGIISGAETHDWFPMFAAQIALGTATLFSGGLFATLIDTEED
Ga0209945_1002263	Ga0209945_100226310	F005874	MIPTDPPDDELTAEQLYERFDAAVNVTADELREFQDSLYNEAYIESNSEQAQPGDEPLEDAIQLLDTPADEWRDLDDGFNEVDEAEELLDFQRRTQGQIEAQGLGENYLTDARDMTKREAASIRWAIDPDTEREWL
Ga0209945_1013345	Ga0209945_10133451	F062489	MTGPDAIVIREEVTAGPTRRYVYHPLAAGGYERKTQLWRQATDGWHTTGTEVVESLAIDCPEGRR
Ga0209945_1015067	Ga0209945_10150675	F079661	MTNDTTTIEIGTELRDELRKERKPHESSYGDTIERLLGASSGGQLWTEQEIKDIVDRRVEELGGGRR
Ga0209945_1020068	Ga0209945_10200686	F015039	MAVDNTRRIYVTVALEILRDADEQDVVAECDYAFEHTDIVDTEIVGVKETEE
Ga0209945_1022199	Ga0209945_10221994	F089905	MRTVREIEQDIREAEEAQAETEFSSTSWDSLNAEITGLHRELKRATYHWDRLRLCGMMGVDTYTR
Ga0209945_1026266	Ga0209945_10262664	F079661	MSNTTIQIPESVRDELRDERLPHESNYGDTIERLLGDSTGGQLWTEQEIRDMAQQEIEQVTRR
Ga0209945_1027297	Ga0209945_10272971	F069440	YFQTVDLTELDENGKLMYSAKDLVANLSNMGKVVSGLDELEDIVKKQQQQESANRGGVVTNKYSH
Ga0209945_1029936	Ga0209945_10299362	F066711	VAKVIRTRWYSFIGDCYEYHGQDPSSRERTHSDVGWRLRSKNYRGVSTFKNLPLSESLEQRLCPLDERDSGIYILRDSIFPEGFYVGKGKKMHERIWKHGVKLTGTQRWNKAVETTVEFERYRKLREAKGLNTLEDVEIAFWFTDKIDELEDQILGAYTAKYNRTPFCNSAEEAMFEAFD
Ga0209945_1032338	Ga0209945_10323381	F089940	MKYVSAALIVLGLSISIGAEAHDWFPMFVAQIALGMTVSFSGVLFATQIDFDDDDN
Ga0209945_1039899	Ga0209945_10398993	F065465	MTEDITVVCECDVLDEARSMGYRRYADMPAADIVAAWPVHYTEHGSWDSHILPTLRCLAGYGDRGYGTYQERQDVALIQDGDEADMPADAIILDSSHLLDDIIVSWQDGAHTAVTDTLRQSDEYSLEDIQR
Ga0209945_1044812	Ga0209945_10448121	F073153	MSEQDLPVRDEIRRIDGNIEGILTRLGNQSETIARIDLLVEEMQDMQTELEHIEVRLNTLESRID
Ga0209945_1046868	Ga0209945_10468681	F038111	QHWRRPSPRKPASVLCIGLHYEAMIHRVPVVNKNNYTIWLENYRHIANFIHAEVYKYNKTTREEFGKDLDKLMDLHQNSLYVLTESDNKKLKKFMNIYGLTLDHKPLCDDGIEREVYRLDRRV
Ga0209945_1051571	Ga0209945_10515711	F014681	MNFPTNFLRSLKRDCKGMVDLSVVLMIGIAFVGLMVVAYIVWTIDDQLDATGSAANSLANITGGFDDAVNLLLIAVTITILAIAISALLMLRGRT
Ga0209945_1056579	Ga0209945_10565793	F075754	MKYQTDLRWHTPMNPWEPIHVRVDDSSEWYRTQVERGDYLRDTEEDAEMSHREHGLVAEGIVKAVFPGFEWWDTESFDLFRGQTRYDIISRNINRGEPRQNYLHHLPPKKEERAKPSTSYYAVVRKHPDYWLIGSINSVRFWYLCDRTRPEWWKEQTYEGGHLTYEHFKQIKTGVGISPPPAIEVFGQG
Ga0209945_1061241	Ga0209945_10612412	F079661	MTKTTIELPESTRDKLKAERKPHESNYGETIERLLGDTSGGSLWTEQEIRDMIEREIEQHARH
Ga0209945_1062566	Ga0209945_10625662	F098766	MSHPRCAICGYEAHGDDHVRVEVERVPPEKPPETYYFHTRCFDRTQAWERDL
Ga0209945_1062907	Ga0209945_10629071	F056354	MIVEVFIALSIVATLITGMAIRGDIPELLGAFVGAVMSIVAAINALDLFVITNSGNVKNLDPQVDIALILLLIFIVNIIFIFDRAFSPGE
Ga0209945_1067750	Ga0209945_10677502	F097996	MAINRDGMHPRYLGWQVDWPIFVKVPFTADGKYWKKSEHFNWAERNLEMKDVASLYAQGFVYHNTELNKANKVGDRLSEMNAEDLKSVVTQLNAIVKDRTSSNQEFNNKKCKQSKIEDKQRGLIRRFLNHNPWITEDFYTIRDTILGD
Ga0209945_1073982	Ga0209945_10739821	F094957	LDPYRDYAEVRRAVEVLGSPEILAKDGELTREEVEARTNTWLDAITELDAIEQELTA
Ga0209945_1081933	Ga0209945_10819331	F038111	MIHRAPVVNRDDYTIWLENYRNIANFIHAEVYKYNKTTREEFGKDLDKLMDLHQNPLYVLTESDNKKLKKFMNIYGLTLDHKPLCDDGIEREVYRLDRRV
Ga0209945_1095013	Ga0209945_10950131	F066493	MSQSREWTDGVIDVADELVQEYSAEGAIERLQRRRQTSDDELQARCNEAIAWIRREVQSD
Ga0209945_1096028	Ga0209945_10960282	F066493	MTEQREFDDGLIDVADELVSEHSADGAIDRLQRRRESTRSEDLEARCLEAIAYIRREVQDDT
Ga0209945_1099764	Ga0209945_10997641	F089905	MRTVREIEQDIREAESAQAETEFSSTMWDSLNAEIIGLHAELKRATYHWDRLK
Ga0209945_1103342	Ga0209945_11033421	F032166	EPLEDAIRLLETPADEYRDLDDGFNEVEEAEELLDFQRRTQGQIESQGLGENYLTEARDMTKREAASIRWGIDPDADREWL
Ga0209945_1107350	Ga0209945_11073502	F043882	MGTFYIEYPELAYVHVPRTGMAMKKIIAEWLKPNFLVTDNENWQIDHPHICTVKSYYPSALTFSVVRNPWQRVFSLYKKIRTEGYWLDWNNVSLLDLKPINEWVLEYCDPDIVFEFPRWFTRFTNQLDFINIEGICVDIICKAENLDRDFLSVKEYLGCNAPLPDITNYDH
Ga0209945_1109583	Ga0209945_11095833	F066493	MSQSREWTDGVIDVADELVQEHSAEGAIERLQRRRQTSDDELQARCNEAIAWIRREVQSD
Ga0209945_1115823	Ga0209945_11158231	F089905	IREAESAQAETEFSSTMWDSLNAEIIGLHAELKRATYHWDRLKLCGMMGVDTHPR
Ga0209945_1123412	Ga0209945_11234121	F009454	MPNFEEIEAAILEVQQPRSRFQLERFVIGQHKTEEMQFYQTCLELQDMIYKYQSAKLNVQKQELKIKRLRETGDELKELKAQELELGLKQTYTAMQGAEREMLALTEIFYSFPKRYTREEIEAAQPNYWDERLTGNAKAQLMGGSGVNPAHIEAMEQAGVLDKLIEEVQESKRE
Ga0209945_1133572	Ga0209945_11335721	F005080	MKADKMLMWTVQQNVLLILNSVPVTFVTDPELIRPSIPVMAHSLNQKVVTREAKARKSAAETTGNVQAKVER