3300020599: Enriched backyard soil microbial communities from Emeryville, California, USA - eDNA 5th pass 37_C BE-Lig BY (version 2)

Overview

Basic Information

• IMG/M Taxon OID: 3300020599
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191737 | Ga0180220
• Sample Name: Enriched backyard soil microbial communities from Emeryville, California, USA - eDNA 5th pass 37_C BE-Lig BY (version 2)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 340369701
• Sequencing Scaffolds: 14
• Novel Protein Genes: 14
• Associated Families: 11

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	6
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales	2
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Thermomicrobia → Thermomicrobiales → unclassified Thermomicrobiales → Thermomicrobiales bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: Emeryville, California
• Coordinates
  • Lat. (^o): 37.83
  • Long. (^o): -122.29
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F007999	Metagenome	341	Y
F011188	Metagenome / Metatranscriptome	294	Y
F029834	Metagenome	187	Y
F032031	Metagenome / Metatranscriptome	181	Y
F036417	Metagenome / Metatranscriptome	170	Y
F037930	Metagenome / Metatranscriptome	167	Y
F045843	Metagenome / Metatranscriptome	152	Y
F064527	Metagenome / Metatranscriptome	128	Y
F092498	Metagenome / Metatranscriptome	107	Y
F098955	Metagenome / Metatranscriptome	103	Y
F104646	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0180220_1000022	All Organisms → cellular organisms → Bacteria	395103
Ga0180220_1000099	All Organisms → cellular organisms → Bacteria	156678
Ga0180220_1000270	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales	69707
Ga0180220_1000361	All Organisms → cellular organisms → Bacteria	55812
Ga0180220_1000436	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales	47441
Ga0180220_1001359	All Organisms → cellular organisms → Bacteria	18338
Ga0180220_1002320	All Organisms → cellular organisms → Bacteria	12419
Ga0180220_1007944	All Organisms → cellular organisms → Bacteria	5062
Ga0180220_1010003	All Organisms → cellular organisms → Bacteria → Proteobacteria	4287
Ga0180220_1027545	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1931
Ga0180220_1046366	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Thermomicrobia → Thermomicrobiales → unclassified Thermomicrobiales → Thermomicrobiales bacterium	1218
Ga0180220_1074133	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia bacterium	807
Ga0180220_1091177	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia bacterium	676
Ga0180220_1125125	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	515

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0180220_1000022	Ga0180220_1000022226	F037930	MTTSFTSSGKPKRTIASIQVERRYANVIRLFLAGELPDFNHQRHVHVANILRHLPYGRELMHLGLQVMAYRHFVPDKYSAEITDRYWAQLDGTLPDPAAFDDLPGGASGRLH
Ga0180220_1000099	Ga0180220_100009953	F098955	MDSPPVPVFLAGPFPVIHSVTINREERDVDLDVALLIAGQPNILASTRFPLDDTWERIVTALESGDARLGVAGVPHEVDTITDGVRVYPSAYIGLECANGERLVLSHIRGLDADVDAESYAREVIDSLLQGMGPDELGECVDD
Ga0180220_1000270	Ga0180220_100027013	F029834	MKIPRSCRRSTAYHNVVASSVPWIRSQGRGTCPSSLAMRASTSWRWVAT
Ga0180220_1000361	Ga0180220_10003611	F036417	MVLYARRPLRCLIPTVLVRLLTDDGEIAFRARWKNSALELQRSILFRIRQGSPLWFEDEWGHWVSFRPERVSGAIVDGR
Ga0180220_1000436	Ga0180220_10004366	F064527	MSTTRDPADRVRTLLLRADNVLKNSTPPTLDPDDRARRARAALEEAREVAAGGGVDPRVVELIDRRLAALEAGGPG
Ga0180220_1001359	Ga0180220_100135912	F011188	VETYNIYMDELPTGEEYDGDEMVEVEFRVVPGSDDDGDPENNAVIAGLDLVDLINMRDALQQEIDNYALTALEAEASTSDG
Ga0180220_1002320	Ga0180220_10023206	F098955	MDPSAIPVFLAGPFPVIHSARIRPVEEEIELDVGLIIGGLPSILAATVFPLDDSWERVDAALASGDARLGVAGMLHEQESPTGEFEVFPSAYVGLECANGERLILAHIRSPDPDQEPEAFAREVIAALLNGQTPADLGELIDD
Ga0180220_1007944	Ga0180220_10079443	F036417	MGYYYSLVPFRSRIPTVVVRLATDEGEITFRARWSRAAVELQRRILYRLRHGKPLWFEDEWGHAVCFKPESVWGAVVDGRPGI
Ga0180220_1010003	Ga0180220_10100034	F045843	MCLADLLGTREVITAAATAEVPDDKPAICGTVTLHCLDGEETLRLSMPMLDALLLLNSLRAIEQEFALQGWAAQIGCSANAMEEMAAELQQFSEDMAVPSTALN
Ga0180220_1027545	Ga0180220_10275451	F092498	DAVAFARSLTQGAVMPGFDWSGWLVSITDEHGRQVDEVPIDAVG
Ga0180220_1046366	Ga0180220_10463661	F011188	LDTYNIYMDELPAGEEIDGEEMIEVEFRVVPGSDDENDPENNAVIAGLDLVDLINLRDALQQEIDNYALSALEAEANRLAEDMG
Ga0180220_1074133	Ga0180220_10741331	F007999	MENADRRMAARAAQARTNLVNALRECAELADAVEHFEGQDLLDTLDYLDSLRFVMAESGQLLAGVVRGQQS
Ga0180220_1091177	Ga0180220_10911771	F032031	MTYDPHDTASIPVGTTVIAADGSVLGKIREVHPHYLLAGVEGQHNDLEIPVHAIREFANGKLRVSINREAATSVDDVETAHRTTESPGDAT
Ga0180220_1125125	Ga0180220_11251251	F104646	MSQTPTSGPNPPCEVGRNHPRDRHRMKPLADFPGVWECSRHEMFARIVPQEEADNLKRGDTIEMHSGGEGVVVRHGDERLGGVLIYYRAR