3300025111: Groundwater microbial communities from Rifle, Colorado - Rifle Oxygen_injection A3 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025111
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053054 | Gp0056923 | Ga0208968
• Sample Name: Groundwater microbial communities from Rifle, Colorado - Rifle Oxygen_injection A3 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 474671520
• Sequencing Scaffolds: 14
• Novel Protein Genes: 14
• Associated Families: 13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	3
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiaceae	1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Acidoferrales → Candidatus Acidoferrum → Candidatus Acidoferrum panamensis	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Urostylida → Pseudourostylidae → Pseudourostyla → Pseudourostyla cristata	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → unclassified Bacteroidales → Bacteroidales bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

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

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater biome → planetary subsurface zone → groundwater
• 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?
F000402	Metagenome / Metatranscriptome	1180	Y
F001583	Metagenome / Metatranscriptome	668	Y
F005505	Metagenome / Metatranscriptome	398	Y
F006861	Metagenome / Metatranscriptome	363	Y
F035129	Metagenome / Metatranscriptome	173	Y
F036991	Metagenome / Metatranscriptome	169	Y
F038735	Metagenome / Metatranscriptome	165	Y
F046519	Metagenome / Metatranscriptome	151	Y
F056711	Metagenome / Metatranscriptome	137	Y
F058725	Metagenome / Metatranscriptome	134	N
F074396	Metagenome / Metatranscriptome	119	Y
F079485	Metagenome	115	Y
F085179	Metagenome / Metatranscriptome	111	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0208968_1001875	Not Available	10958
Ga0208968_1010962	All Organisms → cellular organisms → Bacteria	3518
Ga0208968_1014019	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	2978
Ga0208968_1064359	All Organisms → cellular organisms → Bacteria	1156
Ga0208968_1101354	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiaceae	874
Ga0208968_1105258	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla	854
Ga0208968_1105727	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Acidoferrales → Candidatus Acidoferrum → Candidatus Acidoferrum panamensis	851
Ga0208968_1108868	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	835
Ga0208968_1170827	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans	631
Ga0208968_1175190	Not Available	621
Ga0208968_1195364	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Urostylida → Pseudourostylidae → Pseudourostyla → Pseudourostyla cristata	580
Ga0208968_1210682	Not Available	553
Ga0208968_1226528	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → unclassified Bacteroidales → Bacteroidales bacterium	529
Ga0208968_1234138	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Urostylida → Pseudourostylidae → Pseudourostyla → Pseudourostyla cristata	518

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0208968_1001875	Ga0208968_10018758	F074396	MSHFSVRVMYENGKPARDIGVMVYYDGFMAGSEEKRTHSDGWVEFHNRENKSGTIWVHGHKMGSHSLSNGKTYSFTI
Ga0208968_1010962	Ga0208968_10109625	F035129	MKKVFICLFICAMPSTGFAASLSESIAIEFQEHGKFTGIIGKAYVTEKAVEVVTFAEQNGVVIPFAFIDTILEKESKTEGVYNVKCRNQLGVLSTGTIDLHDRLNPKIILTTDKGITVTNISNVGRKMKKEFMPKVDLGK
Ga0208968_1014019	Ga0208968_10140191	F006861	MVAHSPLHRSQRAVFPHWALASGDDAKSHQGIGVT
Ga0208968_1064359	Ga0208968_10643593	F038735	MPKVLHWFVNSMLGYWILLLVFSMGIAASIYEVWLKDRM
Ga0208968_1101354	Ga0208968_11013542	F046519	VCGRHGMEEQCVTSGGLAQSLGGTGGSEPISASEMASGATPVVGRPRGT
Ga0208968_1105258	Ga0208968_11052582	F079485	MASPRHNADFANHLFPTDPLDVAIEWIKANLSPDDVFDDDAISQHARANLEIDDVYSESNILGYVAGTFNPGEVFDTHQLEAWAEDHGYVKE
Ga0208968_1105727	Ga0208968_11057271	F000402	MINRNHSTPPVAFNATEKGQVVSIFVEESHPLLQLKRALPWDAIEEVMVKWWRAAGKNVDGGPGCPWDVSLYLPVVVLALVKKKLTYRDMEEYLNENVAARIFISREADTSSFIRDHSNIARAVAALSAEGIEEVTELIIKEATRLGFADPQILSADTTAQELPIGYPNEPGILKGVAQRCGRALGRLKAKGVEGLQSALDQARTVIKSAKEHHLFAKKPEEKQAILSRMIEETEEL
Ga0208968_1108868	Ga0208968_11088683	F036991	MCFEKRQGENNXMLEASKLSGFIAHDLSGLIWSPMEVTDETDRVAAGDSEDAI
Ga0208968_1170827	Ga0208968_11708272	F058725	GVLTFVGTGEHQAVYWFLEAIDPRPGEGPWPPVGRLQRPRYRVSPIRFGTGFYYGIRIPYGGTVRWHSVNEVNSGLTLTDASKHATNIYLAPKRPPLIRYGMHYKFGEVKYGEGSGLYDRVTVKVVLD
Ga0208968_1175190	Ga0208968_11751901	F085179	MRIPNSNRRRLKFSRKTAILLLLAYFAMGAGLVDSSVLCIGEDGHLAIESAASCAFCASRVLLPVPPESLIPEGSTASGCGPCQDFSIASGREFPGIALPSPPGSVRSDFSLPSMEPAEGSRTMIAF
Ga0208968_1195364	Ga0208968_11953641	F005505	DAFLKEIQDAXYXTLFVFIYFXSHHFNASTVNYFFFERXNISELDEIRFYGVAPHXYFRPLMGLLVISPTHYEGLMXMALFFVLLTFLPIIYNXYNVYNKHVPTIPMQNSLLQTFAFIIFMMSLYCSASMLPCGRYYYEPEGGYVGNPXVKFSYQYIYLYMAXFIHHLDLIDHYIFQFFQTFIRKCLKLYKKN
Ga0208968_1210682	Ga0208968_12106821	F056711	KSPSQLQAGKKGIAGTEKKAAPKPRAKLFTGTIEDMDEAAGTLTLKGPKGEMSFQARKKVKEQLGELEIGDKVIVKHDGKTALSIVKPRTSKTALAWYRNEETETVREEFH
Ga0208968_1226528	Ga0208968_12265281	F074396	MSHFSVRVLYKNGEPAKDVGVMIDYGWLGGTDEKRTHSDGWVEFHNHGSKPGDIWVHGHNMGSHSLADGKTYSFTI
Ga0208968_1234138	Ga0208968_12341381	F001583	LGISLSATHLSDLTLTIIANIYXSVFNNIYKTYYIIFTNKHLNIDQMTRLMILHYFTPXYYLYLIQLHVLFCHESXDSDSGEAIYEDKSGSYISXFYDAFLKEIQDAXYXTLFVFIYFXSHHFNASTVNYFFFERXNISELDEIRFYGVAPHXYFRPLMGLLVISPTHYEGL