3300013042: Enriched backyard soil microbial communities from Emeryville, California, USA - RNA 3rd pass 37_C BE-Lig BY (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300013042
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191749 | Ga0164268
• Sample Name: Enriched backyard soil microbial communities from Emeryville, California, USA - RNA 3rd pass 37_C BE-Lig BY (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 17601338
• Sequencing Scaffolds: 8
• Novel Protein Genes: 8
• Associated Families: 7

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	6
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata	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?
F003009	Metagenome / Metatranscriptome	513	Y
F005470	Metagenome / Metatranscriptome	399	Y
F012845	Metagenome / Metatranscriptome	276	Y
F024692	Metagenome / Metatranscriptome	204	Y
F028375	Metagenome / Metatranscriptome	191	Y
F069541	Metagenome / Metatranscriptome	123	Y
F071833	Metagenome / Metatranscriptome	121	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0164268_103439	Not Available	561
Ga0164268_104047	Not Available	562
Ga0164268_114364	Not Available	956
Ga0164268_122500	Not Available	671
Ga0164268_122962	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	1642
Ga0164268_126020	Not Available	885
Ga0164268_129587	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata	988
Ga0164268_129876	Not Available	706

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0164268_103439	Ga0164268_1034391	F012845	FWVWSFSFLASMKNHYLGLLLSFEETFLEGGLILKWKNTESWVNNFIAFCYEKGIGTRKNLAKAAQLYKKDIDQMPRVLYSRYRKVLVVKEKRAHGLQLSQEEENINVDEQAEDLKLKIEERLEDTTRMDCYLFYVYGKIYEKIDEDNDRAIEWYQKGVDVDTDSCLKNHLLCNEAWRLKCKKRLLK
Ga0164268_104047	Ga0164268_1040471	F071833	TFQKPLPMNFAFEGTQDPQQKINFAQVLIKRKLIEPFEKLSRENVECYNLEKDAKEGNGQYIERVNKCLDAWQRHFEHVEEKTNKYLVSLREKEAHHFSKLFHCTNAINEPEIQACRREENERFANELKETFSQL*
Ga0164268_114364	Ga0164268_1143641	F028375	LNKNFFIFIDPILNMMDISVTCEKWLASYPKFNWKSTFGFLQAPEVLKAIEFCDNGIACFVKGLQYEHDKDYHEALNCYENGAMQLDSLCLFRLHEIYSGDTNFGVEYNERQAMCHLAYSALLSQFETFDHKVTFWAKLEACWKKDAAHKDYLMELLNNPPADYLQSTGPLFAKLFTFYNNKETFIDLLPELKALSIDVTKNKFFAILNAIFDFMAYTYNSGFSKTDLEKYVETILDMLTNDILFENFFQNYVAHLRIIRAKKKFAFLFQRRLETDCFWVWSFSFLASMKNHYLGLLLSFEETFLEGGLILKWKNTES
Ga0164268_122500	Ga0164268_1225001	F069541	KAFTMNLAAECKIWLNTYPKFNWKHTFDFLLSGESTKAVGFTDYGIACFVKGLQAELVDKDYNEAFSWYENGAMQLDALCLFRLHEIYIGDNNFKIEYNEEQAIVHLAYSALLCQFEVFDQKVSFWQKFDAFWKKDSAKTSYIQKLLLDPPAHYLIPTGPLFSKLLAFYNNKNSFLDVLPELKELSIDTMKNKFFPIVNALFDFLAYTYNSGFSKIDLEKYVE
Ga0164268_122962	Ga0164268_1229622	F003009	LVWFQRNYFNLSILNLVKYFSTLTVAFHDIHSLFGFFIILVVMSQLVSGTMLSFSLVPEAMMVPIVRDEEDIEDLYTDDFF*
Ga0164268_126020	Ga0164268_1260202	F024692	RFSGGCFRYSLPEFDSMGLCNSKAVDDEAPGTSAAQKSGGGAVSEAKDAATNDFRETLRTVILLILNRLATALEYEQEGFSELATKLEMKNYMQLCAPQHFEAVIKETWDLDKTPPEKPDVPADHISFAQNKFIKLLEAAEKADWRDPSISPQELTDRIQEAVKATQKILRDSAIASNSSDLKIHLFFFAKCLEVVDGDIATHHELLYSNIEDMTEPK*
Ga0164268_129587	Ga0164268_1295871	F003009	TIFNLVRYFAVLSVSFHDVNSLFGFFILLTVFSQLVSGTMLSFSLIPEPMLVPIVRDEEDLEDLYTDDFF*
Ga0164268_129876	Ga0164268_1298761	F005470	MSSIKLRKEGQLITEFPPEMVARSRLLTKLVEEFNSTEVDLEPAPGKDFSPATINKVKEFLEKFDKGLTKMPKKPLLIFVTYNDWLDNNFDEKLREWLEEFLKPKSFYDLVELFNAAFYLQIDDLREICAARIAHSIILERKAPEDFLRDFGIVTQYQDFFTPEEEAKFIEKEFINKNDFEGVAAEDEEELNKE*