3300025011: Groundwater microbial communities from Rifle, Colorado, USA - Groundwater D2 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025011
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053054 | Gp0054800 | Ga0209000
• Sample Name: Groundwater microbial communities from Rifle, Colorado, USA - Groundwater D2 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 252788029
• Sequencing Scaffolds: 28
• Novel Protein Genes: 28
• Associated Families: 7

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	5
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales	1
Not Available	9
All Organisms → Viruses → Predicted Viral	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales → Paenibacillaceae → Paenibacillus → Paenibacillus tianjinensis	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → unclassified Eubacteriales → Clostridiales bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales → Paenibacillaceae → Paenibacillus → Paenibacillus odorifer	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Rifle, Colorado, Usa
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Groundwater → Unclassified → Groundwater → Soil Microbial Communities From Rifle, Colorado, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Subsurface (non-saline)

Location Information

• Location: Rifle, Colorado, United States
• Coordinates
  • Lat. (^o): 39.53
  • Long. (^o): -107.78
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F048726	Metagenome / Metatranscriptome	147	Y
F050465	Metagenome	145	Y
F057792	Metagenome	135	Y
F071896	Metagenome / Metatranscriptome	121	N
F084915	Metagenome	111	Y
F091086	Metagenome	107	Y
F098345	Metagenome	103	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209000_1000594	All Organisms → cellular organisms → Bacteria	32333
Ga0209000_1000671	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	28747
Ga0209000_1001075	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	19208
Ga0209000_1001106	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	18951
Ga0209000_1001347	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	16036
Ga0209000_1003826	All Organisms → cellular organisms → Bacteria	7313
Ga0209000_1003872	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	7250
Ga0209000_1003873	All Organisms → cellular organisms → Bacteria	7250
Ga0209000_1004223	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	6807
Ga0209000_1005944	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales	5286
Ga0209000_1006309	Not Available	5035
Ga0209000_1009441	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	3705
Ga0209000_1019789	All Organisms → Viruses → Predicted Viral	2064
Ga0209000_1020769	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales → Paenibacillaceae → Paenibacillus → Paenibacillus tianjinensis	1985
Ga0209000_1021608	All Organisms → Viruses → Predicted Viral	1920
Ga0209000_1024473	Not Available	1733
Ga0209000_1025838	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → unclassified Eubacteriales → Clostridiales bacterium	1657
Ga0209000_1026513	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales → Paenibacillaceae → Paenibacillus → Paenibacillus odorifer	1622
Ga0209000_1035693	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	1266
Ga0209000_1035843	Not Available	1261
Ga0209000_1037113	Not Available	1225
Ga0209000_1042802	Not Available	1086
Ga0209000_1066753	Not Available	749
Ga0209000_1071059	Not Available	712
Ga0209000_1081125	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	639
Ga0209000_1083679	Not Available	621
Ga0209000_1091450	Not Available	565
Ga0209000_1099873	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium	500

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209000_1000594	Ga0209000_10005941	F048726	NFIGRSLTANQAEQNVELNMAFINLIVNDSASVVTLSFDIASTSASGNLMVLKAGEARENVAVPFGKLYYKAAADTSALRIEGLAKAEF
Ga0209000_1000671	Ga0209000_100067128	F091086	MLTRCKIMQDIINTIKLSNNPNEVKQILKPLKIKEVIKVAKCLDICIRGNENKTEIINNIILGIMK
Ga0209000_1001075	Ga0209000_100107526	F098345	MQKPKNIKNLSHSASILNSLYLGKEIVYTGTGHSLRPYRGEIINIAYYSDLEPVPYAEIKLKIWNSRTVTKIILLSDVVLVSSLKKTKTKKSKLAA
Ga0209000_1001106	Ga0209000_100110620	F071896	MAKTNKSNEFNTIDPDRKVRIINNSNSKIYWTQLNGRPINLMKIAAPASLPYVELENMAYTSDLIQTGDIYVPDKDVFDALGIISLKHEDIKLHSELKRMLANLDAEELKEEISKLPDGNKELLAELAIDEYSNLKGSVIDTIEDETKVKISLIKEDEKANKQNQEKNK
Ga0209000_1001347	Ga0209000_10013472	F048726	MATNFIGRSLVANILEQNVTLDMSFINLIVNDSTSTVTLSFDVASASAASNLMVLKAGESRKNIAVPFSKLYYKAVADTSYLRIEGLAM
Ga0209000_1003826	Ga0209000_100382611	F057792	MASTARENHIAQINSLLVKYGATLDKWGMYHIGKYKFDTRKVNLKITVNDFKIVSTSMSKLTLEEFEKRLKIYVARESESKXADTTNFSKK
Ga0209000_1003872	Ga0209000_10038721	F048726	FIMATNFIGRSLTANILEQNVELNMSFINLIVNDSANVITLAFDVTATTNIMTLKAGEVRKNIAVPFGKLYYKATADASALRIEGLAKAEF
Ga0209000_1003873	Ga0209000_10038737	F048726	MTNYVGRSLVANQAEQNVELNMAFINLIVNDSASVVTLSFDIASASAGGNLMVLKVGEARENVAVPFGKLYYKAAADTSALRIEGLAKAEF
Ga0209000_1004223	Ga0209000_10042236	F071896	MARKDIKLDNINYTIDPDVKVRIINNSNSRIHWIQLNGRPINLMKIAAPASLPYVELENMAYTSDLIQTGDIYVPDKKVFDSLGILNLKHEDIKLHSELKRMLANLEAEELKEEILKLPDGNKELLAELAISEYSNLKGSVIDTIEDETKVKISLIKEDEKANKENQDKNKTKX
Ga0209000_1005944	Ga0209000_10059447	F071896	MVTKKIQPIDADTKVRIINNSNSKIHWIQLNGRPITLLKIGTPSTLPFIELENMAYTSDLIQTGDIYVQDKNVYDQLGLNVKYEDIKLHTQLKLMLANLSSEELKEEIEKLPNGNKELLAELAVENYNDLKGSVVDTIEDGAKVKVTLIKEDEKANKQNQQKNDK
Ga0209000_1006309	Ga0209000_10063098	F084915	MKELKEWLINEINSINKDSHNESTYAWAKGFKKALLEVLDKINKIENEKSNTKKX
Ga0209000_1009441	Ga0209000_100944111	F057792	NEYNIKILKDVLIMTSAQRENHIAQINNLLMKYGATKDRWDMYHIGNYKFDTRQINLKIYSGKVKIRSTPMMKIELDSLEELLKIYTKESEK
Ga0209000_1019789	Ga0209000_10197891	F098345	KNKFMKEGIPMQKPKNMKNLTHSASRLNILYLGKEIVYTGEGRSLRPYRGEIINIAYYSDLDPVPYAEIKLKVWNNRTVTKIMKLSDVVLVSSLKKTKKSKIAA
Ga0209000_1020769	Ga0209000_10207693	F071896	MAKTTQSKNQTNEFNTIDPDRKVRIINNSNSKIYWTQLNGRPINLMKIAAPASLPYVELENMAYTSDLIQIGDIYVPDKDVFDALGIISLKHEDIKLHSELKRMLAILDAEELKEEITKLPDGNKELLAELAIGDFDNLRGSVINTIEEETKVKISLMKEDEKANKQNQEKNK
Ga0209000_1021608	Ga0209000_10216087	F057792	MASTARGLHISAINALLVKHGANLDRYGTYRIGDYKFDTRAVNLKIHHGKIKIKSTPMMKITLESLDKLLKIYAMKENESKXADTINFSKK
Ga0209000_1024473	Ga0209000_10244731	F098345	THSASKLNILYLGKEIVYTGLDHTLRPYRGEIINIAYYSNLNPVPYAEIKLKIWNNKTVYKILPLSEVVLIASRKSKSKKSIAA
Ga0209000_1025838	Ga0209000_10258381	F048726	ILEQNVTLDMSFINLIVNDSTSIVTLAFDVASASASGNLMVLKAGESRKNIAVPFGKLYYKAVADTSYIRIEGLAKAEF
Ga0209000_1026513	Ga0209000_10265131	F071896	MATKKTQPLDADTKVRIINNSNSKIHWIQLNGRPITLLKIGTPSTLPFIELENMAYTSDLIQTGDIYVQDKTVFDTLGLNVKYEDIKLHTQLKSMLANLSSEELKEEIEKLPNGNKELLAELAVENYNDLKGSVV
Ga0209000_1035693	Ga0209000_10356933	F057792	MTTKSNTRELHIASINNLLVKHGANLDKYGVYHIGDYKFDTRAVNLKIHHGKIKIKSTPMMKVTLESLDKLLKIYAMKESESKXADTINFFKR
Ga0209000_1035843	Ga0209000_10358432	F057792	MASTARENHIAQINSLLIKYNATLDRFGMYHIGKYKFDTRKVNLKITVNDLKILSTSMSKLTLEEFEKRLKIYVARENESK
Ga0209000_1037113	Ga0209000_10371131	F057792	TQRENHIAQINNLLMKYGATKDRWDMYHIGNYKFDTRAVNLKIYSGKVKIRSTPMMKIELESLEKLLKIYAKES
Ga0209000_1042802	Ga0209000_10428021	F057792	MASTAREKHIASINELLIKYGANLDKYGVYHIGNYKFDTRAINLKIFSGKVKIKSTPMMKITLESLEKSLKIYVKEVESXXIKQHQNTTAYPSIIQLKE
Ga0209000_1066753	Ga0209000_10667532	F071896	IINNSNSRIHWIQLNGRPINLMKIAAPATLPYIELENMAYTSDLIQTGDIYVPDKKVFDALGIINLKHEDIKLHSELKRMLANLEAEELKEEISKLPDGNKELLAELAIVDYDNLRGSVVNTIEDETKVKISLMKEDEKANKENQEKNKK
Ga0209000_1071059	Ga0209000_10710591	F098345	IKNLTHSASKLNILYLGKEIVYTGEGHSLKPYRGEIINIAYYTDLEPVPYAEIKLKIWNSRTVTKIMKLSDVVLVSSDKVKKAKNKKSKLAA
Ga0209000_1081125	Ga0209000_10811252	F057792	IMTSAQRENHIAQINNLLMKYGATKDRWDMYHIGNYKFDTRQVNLKIYSGKVKIRSTPMMKIELESLEKLLKIYSKEK
Ga0209000_1083679	Ga0209000_10836793	F084915	MKELKGWLINEINSINIDYYNESVYMWNKGFKKALLETLDAI
Ga0209000_1091450	Ga0209000_10914501	F098345	XKKVNQMQRPKNIKNLTHSASKLNILYLDKEIVYTGTNHSLRPYRGEIINIAYYSDLEPIPYAEIKLKIWNSRTVTKILPLSDIILVSSLKKTKTKKSKLVA
Ga0209000_1099873	Ga0209000_10998731	F050465	NVMNLDPFIVANATLFFLAVVLIVEYVIRRRKLGRDSAQNRQKQQQFAAYSAELKNLKTELARKSEIAEKLPQITKRLTEKLPSEAYPAIAVRSIKDFFHANKVGYFAPVEGSSDYTLVVGTGFPPDWPGKVRIHRSEGILGMALQNKVVVSRMDPHSSSGRRSSH