3300025015: Contaminated groundwater microbial communities from Rifle, Colorado, USA - Rifle Groundwater A1 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025015
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053054 | Gp0054516 | Ga0209210
• Sample Name: Contaminated groundwater microbial communities from Rifle, Colorado, USA - Rifle Groundwater A1 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 396276413
• Sequencing Scaffolds: 13
• Novel Protein Genes: 18
• Associated Families: 17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	7
All Organisms → cellular organisms → Archaea	3
All Organisms → cellular organisms → Bacteria	1
Not Available	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → unclassified Clostridiaceae → Clostridiaceae bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

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

Alternative Ecosystem Assignments

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

Location Information

• Location: Rifle, Colorado, USA
• 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?
F031688	Metagenome / Metatranscriptome	182	Y
F031713	Metagenome	182	Y
F036462	Metagenome / Metatranscriptome	170	Y
F038776	Metagenome / Metatranscriptome	165	Y
F042051	Metagenome / Metatranscriptome	159	Y
F042607	Metagenome	158	Y
F065185	Metagenome	128	Y
F065251	Metagenome / Metatranscriptome	128	Y
F073120	Metagenome / Metatranscriptome	120	Y
F074102	Metagenome	120	Y
F080249	Metagenome / Metatranscriptome	115	Y
F087386	Metagenome / Metatranscriptome	110	Y
F091043	Metagenome	108	Y
F094469	Metagenome	106	Y
F094578	Metagenome / Metatranscriptome	106	Y
F100657	Metagenome / Metatranscriptome	102	Y
F103138	Metagenome	101	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209210_1002854	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	12200
Ga0209210_1002998	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	11825
Ga0209210_1003052	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	11661
Ga0209210_1003863	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	9891
Ga0209210_1006500	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	6748
Ga0209210_1006936	All Organisms → cellular organisms → Archaea	6412
Ga0209210_1022455	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	2566
Ga0209210_1030223	All Organisms → cellular organisms → Bacteria	2033
Ga0209210_1030449	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	2020
Ga0209210_1036037	All Organisms → cellular organisms → Archaea	1771
Ga0209210_1045483	All Organisms → cellular organisms → Archaea	1474
Ga0209210_1057578	Not Available	1227
Ga0209210_1108879	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → unclassified Clostridiaceae → Clostridiaceae bacterium	749

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209210_1002854	Ga0209210_100285413	F065185	MKIQFEDKSYIECRKSDNPGKIIIIVSAKDQNNSQKKITNAVEISKEEFQKLISDI
Ga0209210_1002854	Ga0209210_100285419	F103138	YDADVKLESQQEQNRFLRNLLDQMGVPIHEIWTSDGLLSIEQKIKLRQTLTTYNIQVIDDLDGHMQVYVENQLVGEWHKCTYKLKRDLRELDPKKQLFIEMQVNCWSLFEESE
Ga0209210_1002998	Ga0209210_100299815	F042051	PFQYLVHKYKKDGEAGFGHKVSCSAVHGSCPLCDLGQDKAKARWLLGVISRKTNTYKILDVSFAVYSQIRKLARNTARWGDPTKYDIDIVVDKNGGATGYYSVQPISKEPLSAEDQVKKDAVDFDDLKRRVTPPTPAEVQKRLDKINGADGVAAAPVAPAVVAGKKAAPKQAPKTPTVSMADDEELDQSFPAYAGDEPSV
Ga0209210_1002998	Ga0209210_10029983	F094469	MNKTSLKKILEHPDRDEIISKLVIGISPKDVHDWLEAKYTNISEVKFVIAEKSIKSFHENYLDIYNLIQEDITKTKSAVVMSTEDQLELSIQNNPTYKSKMLELASEKIDVRKMVAHLCVVVETRFAQIFDEIQADPRNINTRVDRMFKEYGELLANLLDKYYKFTEQQPDQVVQHNVTLQVVDQHISVFHDVIKKVLSQMDLESSLYFMEVFNEEMCKLKMPSPDKEPSQEMRLADAKVLSETINKKINE
Ga0209210_1002998	Ga0209210_10029988	F038776	MSNFAIDYTGLETKILKKAYKLEDVQDQIERVAFDVVRFKDSDNGANLWQIQSSDDGDYIVSIYQDDESVEKTASDWQVSISKTAGDLQINYKGDPLVKIASSKLGIPRTELSQIERYLPSKLAENKKLVKALLNELTESAKKEVLNKYPELV
Ga0209210_1003052	Ga0209210_100305211	F031688	MKVYIVYVDGTETCKIKAGSTNAAEKKAQAKFPGKSISVAYTEV
Ga0209210_1003863	Ga0209210_10038639	F091043	VADNISKFFEEVLSDLTCQDDTKAYIISIFNKYISAQHDLSKNSVTLLFSQARHNHDFLTYQNLGDWIFFQNTLNGSYLRDASKDYYDTIARLSYNSCYKLINKKWKLFEELSDNFIILEDQTKSKFKSTKILFYRDNYIARDD
Ga0209210_1006500	Ga0209210_100650012	F031713	MSNTNLIIDLKAREDKDGKIFYVGKLKAPVAINCAKGAVFLVFISDHGGEQIQIALMNNKDDDE
Ga0209210_1006500	Ga0209210_100650016	F074102	MKKEKTTKQYYFSNKTHQEVVDQLNTDLPVNIKYNEDLVNRVYEKYPFINKAEISLIIKATFQSFRDLLVLGKILNFNKLFFDTKLFVFDYRKNGRIFASLKTKISTPPTMLKNND
Ga0209210_1006936	Ga0209210_10069361	F094578	MEKERPKGPLKRLKSMYFALHCWKCKKFELPMEEYKKLCEDNIQKIIDALEIKEMRFREFNNIIKNTNFCKFEKRDFSSCPICEKCGI
Ga0209210_1022455	Ga0209210_10224553	F036462	MSQQVKLGDLLGEDLEEEFVNFDFTEIQEVLENLNEIDAIDIAHAERLQQLSLRGADILTEYLGKVVKTVGFLETKVNSVRNKVSLDYKAPDGSKTTTDMKIWAGNASTEVEAVQIRLAKAKASKVVLEKKYDILIRSHHHYKDIASGLRRTILGYSPVNREKIPEGYE
Ga0209210_1022455	Ga0209210_10224555	F042607	MTIRVVDNKKVEMTDDEWNLYAKICKSYAIPPNRGEDMFIDLFETDDHGTIMFLKPPSKRSTSFEVFMFLMALQQQQHIRLMYAQVEDLCKQFKEKIGDK
Ga0209210_1030223	Ga0209210_10302231	F080249	MADDKKKVKEDRNLISFKEHYEVYYAVNQLKKQFPDETKADIKDALFDAAKQVKPSEGREKIMRLARKDLRD
Ga0209210_1030449	Ga0209210_10304494	F087386	MTKEKLFKQYSIDESHNVWQDNIDNWMSIEIYRIMHNGELPPQNDTSIKWITDFLDKVDDDMKWWVKNVMSRKDWGSLYLTAKRIVYRHQEQILKEREQK
Ga0209210_1036037	Ga0209210_10360371	F065251	MYLRNFIKGNKKYYYIAKAVRNGSKVIQKSVLYIGTADTLYEKLKNLKKK
Ga0209210_1045483	Ga0209210_10454832	F094578	MEDKKERPKWLLQRLKSMYFAMHCWKCKKFELPVEEYKQICEDNIQKIIDNLEVKEMTFKDLNNTIKNTSFCKFEKRDFSNSCPIKLRLKPEGFCD
Ga0209210_1057578	Ga0209210_10575783	F100657	MTQITISYTTSVSTPAGWRNETVTATVEVISPKRGRVLCVQDIGGNGNSGYGSRTGAKRQAYHVGGIAMREQGKIKNLSACCIL
Ga0209210_1108879	Ga0209210_11088792	F073120	MQLSVTEYAKRLGVTRSAVLLQIKKKRLAKGVTCKKIGNTYSLSVRGQKTNKKXLTAT