3300017644: Enriched backyard soil microbial communities from Emeryville, California, USA - eDNA 5th pass 37_C Kraft BY (version 2)

Overview

Basic Information

• IMG/M Taxon OID: 3300017644
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191740 | Ga0182740
• Sample Name: Enriched backyard soil microbial communities from Emeryville, California, USA - eDNA 5th pass 37_C Kraft BY (version 2)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 355932473
• Sequencing Scaffolds: 8
• Novel Protein Genes: 8
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	3
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → Capillimicrobiaceae → Capillimicrobium → Capillimicrobium parvum	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?
F017885	Metagenome / Metatranscriptome	238	Y
F020046	Metagenome / Metatranscriptome	226	Y
F034415	Metagenome / Metatranscriptome	175	Y
F038627	Metagenome / Metatranscriptome	165	Y
F046477	Metagenome / Metatranscriptome	151	Y
F053349	Metagenome	141	Y
F064527	Metagenome / Metatranscriptome	128	Y
F104871	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0182740_1000001	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1363100
Ga0182740_1000023	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	386616
Ga0182740_1002963	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	9958
Ga0182740_1008634	All Organisms → cellular organisms → Bacteria → Proteobacteria	4732
Ga0182740_1035775	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1591
Ga0182740_1050837	All Organisms → cellular organisms → Bacteria	1210
Ga0182740_1060302	All Organisms → cellular organisms → Bacteria → Proteobacteria	1057
Ga0182740_1127114	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → Capillimicrobiaceae → Capillimicrobium → Capillimicrobium parvum	586

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0182740_1000001	Ga0182740_1000001953	F034415	MSAAATHTGHKRLQHLVEHEAYRRIMAGEAPETLSEFARELQGWLQRNYPDAAPTTPDAIENQIRETWHRRHELIRGG
Ga0182740_1000023	Ga0182740_100002323	F017885	MSSTDMNEICFQCPSCGHDLKQSIGRLKQSQHMTCPGCGIGINIDTNRLAQVSEEIQKAIDKVPPEITIKFYRPIEQD
Ga0182740_1002963	Ga0182740_100296310	F104871	MPDREAHLRTLAERLMFSVEQTGDRFTLTRTADVSRPVREAGLTIDQAEELLETWKLRGPHGG
Ga0182740_1008634	Ga0182740_10086343	F038627	MIRFALVLAFAIGLYPARALPQTSQFKGWAAISQELSTRIAPAGEPLDLGEFLPADDMEDLLGTWSTFGTEHTFRNGVPNALNLMIWQVTLSGFANAVGESCEKDRLVFHPRFDAVLHKLCAWPAPAAKDEAVLLDFWLGIMGHNAGEDEYIAWREFFLTQYRDRKPAETIAAMTLAITMNPRFLLHR
Ga0182740_1035775	Ga0182740_10357751	F053349	MKNYEDGAYAMAALSASLVAFRLLLSKGLVSRDEAVRALLDEAVSRAIFAEAKLQDRTISEATAEMNRQSAEILKMFADGL
Ga0182740_1050837	Ga0182740_10508372	F020046	MLCCGHMTGPTDRPMRPELRLRDGHVVRSLADAIAVLREHEGRPGVDIRDEVLHRLERAQTEDERREATQAFLVWAKELELLSPGDIAKFRAG
Ga0182740_1060302	Ga0182740_10603023	F046477	MQVRDEQSVTPGVNKVAGRPHALAQRIAAFLRKRNAGYCETCLIARLLVASRAAMRAALEMDCFSVRVGVCPDCKTRKQVITCKAGSNVAA
Ga0182740_1127114	Ga0182740_11271142	F064527	ADRVRTLLLRADNVLKNEGDPEDRARRARAALEEARAVAAGGGVDPRVAELIERRLAALEAGGPG