3300025526: Serpentinite rock and fluid subsurface biosphere microbial communities from McLaughlin Reserve, California, USA - CR12Mar_CSW14AB (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025526
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053062 | Gp0055497 | Ga0208492
• Sample Name: Serpentinite rock and fluid subsurface biosphere microbial communities from McLaughlin Reserve, California, USA - CR12Mar_CSW14AB (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 233383189
• Sequencing Scaffolds: 19
• Novel Protein Genes: 19
• Associated Families: 15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria	4
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomonadales → Hyphomonadaceae	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Phenylobacterium → Phenylobacterium zucineum	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	1
Not Available	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Phenylobacterium	1
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Candidatus Sulfobium → Candidatus Sulfobium mesophilum	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Serpentinite Rock And Fluid Microbial Communities From Tablelands Ophiolite (Newfoundland), Coast Range Ophiolite (California) And Ligurian Springs (Italy)
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Deep Subsurface → Unclassified → Unclassified → Serpentinite Rock And Fluid → Serpentinite Rock And Fluid Microbial Communities From Tablelands Ophiolite (Newfoundland), Coast Range Ophiolite (California) And Ligurian Springs (Italy)

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → planetary subsurface zone → rock
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Subsurface (non-saline)

Location Information

• Location: USA: California, McLaughlin Reserve
• Coordinates
  • Lat. (^o): 38.8739528
  • Long. (^o): -122.4391613
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003289	Metagenome / Metatranscriptome	495	Y
F007653	Metagenome / Metatranscriptome	347	Y
F009854	Metagenome / Metatranscriptome	312	Y
F019507	Metagenome / Metatranscriptome	229	Y
F026594	Metagenome / Metatranscriptome	197	Y
F030144	Metagenome / Metatranscriptome	186	Y
F054140	Metagenome / Metatranscriptome	140	Y
F056715	Metagenome / Metatranscriptome	137	Y
F061999	Metagenome / Metatranscriptome	131	Y
F069722	Metagenome / Metatranscriptome	123	Y
F069784	Metagenome	123	N
F080069	Metagenome / Metatranscriptome	115	Y
F082505	Metagenome / Metatranscriptome	113	Y
F082885	Metagenome	113	Y
F091422	Metagenome / Metatranscriptome	107	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0208492_1000057	All Organisms → cellular organisms → Bacteria → Proteobacteria	116063
Ga0208492_1000536	All Organisms → cellular organisms → Bacteria	31340
Ga0208492_1000736	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales	25363
Ga0208492_1000822	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomonadales → Hyphomonadaceae	23423
Ga0208492_1001689	All Organisms → cellular organisms → Bacteria → Proteobacteria	12731
Ga0208492_1002350	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomonadales → Hyphomonadaceae	9366
Ga0208492_1005078	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Phenylobacterium → Phenylobacterium zucineum	4723
Ga0208492_1007444	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	3443
Ga0208492_1009287	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2862
Ga0208492_1012457	All Organisms → cellular organisms → Bacteria → Proteobacteria	2293
Ga0208492_1014362	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	2062
Ga0208492_1015755	Not Available	1925
Ga0208492_1018735	Not Available	1701
Ga0208492_1023761	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	1419
Ga0208492_1033441	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Phenylobacterium	1097
Ga0208492_1036190	Not Available	1035
Ga0208492_1037497	All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Candidatus Sulfobium → Candidatus Sulfobium mesophilum	1008
Ga0208492_1041349	All Organisms → cellular organisms → Bacteria → Proteobacteria	935
Ga0208492_1044938	All Organisms → cellular organisms → Bacteria	879

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0208492_1000057	Ga0208492_100005726	F007653	MKRQIAAGLSILAVVAGVGWKLASHPETSVRLQDVKLIHRSERSNPGPSDALAGIRIRLSPSDFDDQIGAKRGYVPKIAVAAE
Ga0208492_1000536	Ga0208492_10005369	F026594	MTRTMFYLALVGSVGAAQADAIDTQDSGAIAAFQSGLTINTFESVTGRTAQTISSYTQGDTIDPNAFVFDQISGVQYSVGGAVGTNMPALFSLSGSLAGDAKSGTTVLGPVDFDFTTKFVSGAFIEVFFPVKVAKVGFWLNPSLGDVALIATDTNFAFSGLPETTLESATGTAGNFVGIERATADIGGFKIIGLGSAAFSVDDFSYGPPAPIPVPASVLLFGSALTGLGLLRRRGAQRPRRDK
Ga0208492_1000736	Ga0208492_10007365	F009854	MAESTTRNELFTALQSLSIAIPQMRGGQLMAAVGELCFDLHGRGLWEATDEEFREAIWQFQRNFEVAAMSSNR
Ga0208492_1000822	Ga0208492_10008222	F082505	MWPFADKSKKAVVVLHIDNEGHARGAWFRGNADVLIIDERDPSNRVYRMASETPDDELRRKIGRHPLARTLSDKPTAAPLPTLNLHWPVDGPQTA
Ga0208492_1001689	Ga0208492_100168914	F069784	MSKTANRQPLTVRLDPESKKLFSEEAEKCGLEAGVAARQILELYVQRLRESGDYIQTLADFSAALKTRTA
Ga0208492_1002350	Ga0208492_10023506	F080069	MKPRRTLRALAAIFGCTVALSGVMPAFARAQDDVTGDWLFDTSKFADNDCQISGRITFKPTAVKNTYTCVFESEQICGKLNGNLYIRVRQVCTAQRIGKQVAIKTKVDKILERRPVIPYPEDYYLADNFILQIAPNKAEMNGSHYDEQRQLKARFWRDVELIS
Ga0208492_1005078	Ga0208492_10050787	F019507	MNARQLVDIACEEDPRAPCLWMPSDLFPEFCDQIRQRPNIVGAVIYRNKTIRDGGPYSDITTRRP
Ga0208492_1007444	Ga0208492_10074441	F080069	MKPRRTLRALAAALGCTVALSGVMPAFARAQDDVTGDWLFDTSKFADNDCQISGRITFKPTAVKNTYTCVFESEQICGKLNGNLYIRVRQVCTAQRIGKQVAIKTKVDKILERRPVIPYPEDYYLADNFILQIAPNKAEMNGSHYDEQRQLKARFWRDVELIS
Ga0208492_1009287	Ga0208492_10092872	F091422	MLMSFDDARTRLQSLGGERLHPKYMSGASEEMMASVRLEHAVSEDDYAAVHALATAELGPGLASLEEIKRVDQLTGASIWVIRRKGEVTGFLAPLALSAAGVKALVDNTFDAANIRAEWVVRVGEPLAGFYCWCYAGKDQVSRGALVLGLRTLIDRHFETLPFFGRDSTEAGARIMAHLGFFPFDSTPHLYWRCCSLMQEIAA
Ga0208492_1012457	Ga0208492_10124571	F069784	MSKTANRQPLTVRLDPESKKLFAEEAEKCGLEAGVAARQILELYVQRLRESGDYIQTLADFSAALKTRTA
Ga0208492_1014362	Ga0208492_10143621	F003289	VXGNITIEANLQTNFNVGFTNMKSDILIHLTQXQYXXWFWFGLLXSFYYLLIIRIIRFRSLKFRPRLATTFRPHGKXGDLIVCIIPVSXCANIITNSNFILRMIEWQSESGLLTVRIRGKQWYWIYKFELKTFTDILTVPKNIGRNKXQISTPGDLQVAEDYLQILQLRSSNRXANDLXSELSKESYLSKDVHLVSSQEQLRFNFFKNYQTNYKFSESYENSLLVNNLIE
Ga0208492_1015755	Ga0208492_10157552	F082505	MWPFADKSKKAVVVLHIDSDGHARGAWFRGNADVLIIDERDPSNRVYRMASETPDDELRRKIGRHPLARTLSDKPTAAPLPTLNLHWPVDGPQTA
Ga0208492_1018735	Ga0208492_10187351	F061999	HSHFNRGILRSLEPKKLDVQMLHRNAPRLGEMLGEDDWFDKIDAHGRDYGRLAYMNRLHAFTEAKRREILGQAEPPTGQDLGALVS
Ga0208492_1023761	Ga0208492_10237612	F054140	MKTFFKNLIDKLTEAAMLEEGIRLETPATAVCDPFKETLEENLIEVAFAEAADYDDIHTAILREHRLHCAAA
Ga0208492_1033441	Ga0208492_10334412	F019507	MDARQLVDIACEEDPRAPCLWLPSDLFPEFCDAIRQRPNVVGAVIYRNKTIRDGGPYSDITTRRL
Ga0208492_1036190	Ga0208492_10361901	F082885	MRKRSMLVDRSFDRVVVASLIVPAVLVPSQAFAAQVGCFVTAMLLGLMFLVGLGITAIVKHLLAKYVWKVPKTPWLRFFSITWLEFLLGILVFALVRTNFWLTVAIYLPFAMLVNRALLSRVHQPAEETVPLLQRYGIFLLLPAALPLSIQAAGVLWNAITNFITFSDLQM
Ga0208492_1037497	Ga0208492_10374972	F030144	MCYYAHQIMDEYATKERPGHSIPDPVSTQKKGISAFLSHGPLHVDHPSLIHFSSTPLFRLESSPGKYSHLLKNKDTVQIGPIVNYFIGNSGHVAYLGGDVVKNLYLRGRKKYNVINILAILTTADIDKYSCIMNNIISANDGAFSLGLKYQVKKNRCEGCFKEIALARYIIEPRLEGPEKLLYFFRPASIELDLTTQERFSDAFGLEVRT
Ga0208492_1041349	Ga0208492_10413492	F069722	MRVRLTAELDPKANRERPDLKTGAAHEKALGHGSGAALQK
Ga0208492_1044938	Ga0208492_10449382	F056715	MQEFRRVRVAIDSLIDEIKESIKKKSFSETMEQLEQARGLIQELQQVSTTDQAVFVAKREATVASLTEIAGKLKKPVIKKRSAK