3300013051: Enriched backyard soil microbial communities from Emeryville, California, USA - RNA 3rd pass 30_C BE-Lig BY (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300013051
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191755 | Ga0164274
• Sample Name: Enriched backyard soil microbial communities from Emeryville, California, USA - RNA 3rd pass 30_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: 36112040
• Sequencing Scaffolds: 19
• Novel Protein Genes: 20
• Associated Families: 15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	3
Not Available	11
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora	2
All Organisms → cellular organisms → Eukaryota → Amoebozoa → Evosea → Variosea → Cavosteliida → Cavosteliaceae → Planoprotostelium → Planoprotostelium fungivorum	1
All Organisms → cellular organisms → Eukaryota	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rickettsiales → unclassified Rickettsiales → Rickettsiales bacterium	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
F003289	Metagenome / Metatranscriptome	495	Y
F004148	Metagenome / Metatranscriptome	450	Y
F004248	Metagenome / Metatranscriptome	446	Y
F005470	Metagenome / Metatranscriptome	399	Y
F028375	Metagenome / Metatranscriptome	191	Y
F044934	Metagenome / Metatranscriptome	153	Y
F047414	Metagenome / Metatranscriptome	149	Y
F049342	Metagenome / Metatranscriptome	146	Y
F057919	Metagenome / Metatranscriptome	135	Y
F065812	Metagenome / Metatranscriptome	127	Y
F069541	Metagenome / Metatranscriptome	123	Y
F071833	Metagenome / Metatranscriptome	121	Y
F071840	Metagenome / Metatranscriptome	121	Y
F104185	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0164274_100588	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	4304
Ga0164274_100802	Not Available	872
Ga0164274_103623	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	1597
Ga0164274_104138	Not Available	807
Ga0164274_104953	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora	2922
Ga0164274_112589	Not Available	723
Ga0164274_114818	Not Available	1195
Ga0164274_116379	All Organisms → cellular organisms → Eukaryota → Amoebozoa → Evosea → Variosea → Cavosteliida → Cavosteliaceae → Planoprotostelium → Planoprotostelium fungivorum	681
Ga0164274_117930	All Organisms → cellular organisms → Eukaryota	842
Ga0164274_128463	Not Available	709
Ga0164274_129361	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	741
Ga0164274_140145	Not Available	646
Ga0164274_140795	Not Available	735
Ga0164274_145809	Not Available	728
Ga0164274_146064	Not Available	651
Ga0164274_150605	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rickettsiales → unclassified Rickettsiales → Rickettsiales bacterium	511
Ga0164274_150808	Not Available	701
Ga0164274_153770	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora	1297
Ga0164274_156777	Not Available	532

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0164274_100588	Ga0164274_1005881	F003289	M*GNIVTEVALQTNFGVGFNNMQSDVLIHLTQ*QY*W*F*FSFL*AFYYLVILRIIRFRTLKFRPRLATTYRPHGK*GDLIICLIPIS*CINIITNSSFILRMIE*QAETGLLTVRIRGKQWYWIYKFELKTFTDILTVPKNIGRNK*QISTPGDLQVADDYLHILQL
Ga0164274_100588	Ga0164274_1005887	F003009	YQRTYFNVNIGNLVKYFSILTVAFHDVHSLFGFFILLVVFSQLISGTMLSFSLVPESMMVPLVRDEEDLEDLYTDDFF*
Ga0164274_100802	Ga0164274_1008021	F047414	PFMKKESTAGLTLDTRMSPFFGKDLSPRMHRDSLMLSPLFSSNNQHGSFFSGFTPRYFSNVPHMQDNSKTFGPDDFLLRPSPTHMEIDVNARFEKAVENMKMELRNNPVQHLGDHGMDQQGLNLDIDLIDDSYLHAPLTKSPHLQFVGSQPTSKCSFKKFGEWTLSPNASFLPRKKF*
Ga0164274_103623	Ga0164274_1036232	F003009	LVWFQRNYFNLSILNLVKYFSTLTVAFHDIHSLFGFFIILVVMSQLVSGTMLSFSLVPEAMMVPIVRDEEDIEDLYTDDFFLNTRARC*
Ga0164274_104138	Ga0164274_1041381	F071833	QDPQQNINLVQILIKRKLIEPFEKLSRESVECYNLQKGTKEANGEYATRVNKCLDSWQKHFESVEDHTNKYLSNLRAKEALHFSKLFHCSNAINEKDIEVCRREENQRFANELKETFSQL
Ga0164274_104953	Ga0164274_1049537	F071840	MNDVYGLYTSYYILNSFEFLMVGLLLLFASIVCVNLSKFNRNIKLNNYYELLTLYDFFNDFVNFLFMRKQNLNNQTIATVSTRIFKKKINK*
Ga0164274_112589	Ga0164274_1125891	F028375	MNLAQECKVWLNTYPKFNWRHTFDFLLSNELTKAVEFSDYGVACFVKGLQAELVHKDYTEAFSWYENGAIQLDSLCLFRLHEIYIGDTNFKVEYNEEQAMIHLLYSALLSQFEVFDQKVSFWQKFDSFWKKEALKTTYLQKLILDPPAYYLVPTGPLFSKLFAFYNNKNSFLDVLPEIKELSIDTLKNKFFPIVNALFDFLAYTYNSGFSKLDLEKYVENILDMLTNDILFDNF
Ga0164274_114818	Ga0164274_1148181	F049342	WAKLEACWKKDAAHKDYLMELLNNPPADYLQSTGPLFAKLFTFYNNKETFIDLLPELKALSIDVTKNKFFAILNAIFDFMAYTYNSGFSKTDLEKYVETILDMLTNDILFENFFQNYVAHLRIIRAKKKFAFLFQRRLETDCFWVWSFSFLASMKNHYLGLLLSFEETFLEGGLILKWKNTESWVNNFIAFCYEKGIGTRKNLAKAAQLYKKDIDQMPRVLYSRYRKVLVVKEKRAHGLQLSQEEENINVDEQAEDLKLKIEERLEDTTRMDCYLFYVYGKIYEKIDEDNDRAIEWYQKGVDVDTDSCLKNHLLCNEAWRLKCKKRLLKLQARKGLQVSIVNKNRED*
Ga0164274_116379	Ga0164274_1163792	F004148	GGNNVKGLFWMETVFPSPDGRSIIPPEKLQKEYEKGTLRPPDPNAEKEVDGDMDEKVDKVIRDVFNNYDPKGTGQLPKKVMERFFKDSLDVYALRKGFKKGSEVLAPGIKMGQAMQQSLAKITANPQFCTFKEFEDFLNCYDLEEALGSFIGVQEIAIQDRVEFVDTSGLKADAAKPKAVVYRDYSALEN*
Ga0164274_117930	Ga0164274_1179301	F065812	MGDKLLLKLNNEYEDKENKYCEGKVKRTLKRGLKDLKSLRRKQ*
Ga0164274_128463	Ga0164274_1284631	F005470	VQMSSIKLRKEGQLITEFPPEMVARSRLLTKLVEEFNSTEVDLEPAPGKDFSPAIINKVKEFLEKFDKGLTKMPKKPLLIFVTYNDWLDNNFDEKLREWLEEFLKPKSFYDLVELFNAAFYLQIDDLREICAARIAHSIILERKAPEDFLRDFGIVTQYQDFFTPEEEAKFIEKEFINKNDFEGVAAEDEEELNKE*
Ga0164274_129361	Ga0164274_1293611	F003289	M*GNIVTEVALQTNFGVGFNNTKSDVLIHLTQ*QY*W*F*F*FLFAFYYLIILRIVRFRTLKFRPRLATTFRPHGK*GDLIICLIPIS*CANIITNSSLILRMIEWQAETGLLTIRIRGKQWY*IYKFELKTFTDILTVPKNIGNNKWIVSTPGDLQVSDDYLHILQLRSQNK*VHDF*NDLIQKFSKKKDFNLISPQEQLKYDFYETFNKIFLYKMYRSSTLNLQNFNLAFD
Ga0164274_140145	Ga0164274_1401451	F069541	NNKNPNFVVSQKAPDKIMSVSNEIKNWLETYPRLNWRLTFDFLLAPENSKAVEFSDYGVACFVKGFQKEFIDRDYNEALNWYETGAMQYDSLCLFKLHEIYIGDTHFKVPYNERQALCHLIYSALLSQFEIFDTKVSFWQKFEAFWKKESSKTAYIQELLISPSADYFVTTGGLFSKLFTFYATKNNFPDILPELQNLSIDILKTKFFSIINAMF
Ga0164274_140795	Ga0164274_1407951	F028375	LKAIEFCDNGIACFVKGLQYEHDKDYHEALNCYENGAMQLDSLCLFRLHEIYSGDTNFGVEYNERQAMCHLAYSALLSQFETFDHKVTFWAKLEAFWKKDAAHKDYLMELLNNPPADYLQSTGPLFAKLFTFYNNKETFIDLLPELKALSIDVTKNKFFAILNAIFDFMAYTYNSGFSKTDLEKYVETILDMLTNDILFENFFQNYVAHLRIIRAKKKFAFLFQRRLETDCFWVWSFSFLASMKN
Ga0164274_145809	Ga0164274_1458091	F005470	FNLLNTDMSVKVRKEGQVITEFPTDMVPRSRLLTKLVEEFNSTEVDLEPAPGKDFSPATINKVKEFLEKFEKGLHKMPKKPLLIFVTYNDWLDNNFDEKTREWLEEFLKPKSFYDLVELFNAAFYLQIDDLREICAARIAHSIILERKAPEDFLRDFGVVTQYQDFFTPEEELKFIEKEFINKNDYEGVAAEDDEELNKE*
Ga0164274_146064	Ga0164274_1460641	F071833	MNLSADYTQDPQQNINLVQILIKRKLIEPFEKLSKENVECYNLERGSLEGKPQYFERVNKCLDSWQRHFERVENSTNQYLSKLREKEASHFSKLFHCSNAINDPEIQACRREENERFANELKETFSQL*
Ga0164274_150605	Ga0164274_1506051	F057919	MFIHYLVFFILLVVFSQLISGTMLSFSLVPESMMVPLVRDEEDLE
Ga0164274_150808	Ga0164274_1508081	F004248	MTNIVSYGQYLDKKQIYDIVPYIDIKPEDLGTSDTYHEDKILQKFMSYKEDDRILIYKAALQLSIVGYGNKNYGFVRINDKDIIMLEDIFKRYNIKYMEKINAKYNDDDLSVRRLLRLFRFQIQDFIRTHNRPSFLWLKYAEKINKDFMYICFPGGEHLIETKEEAEFFLNTYGNLDNIINSKFRQRLQRIFIARNILQ
Ga0164274_153770	Ga0164274_1537702	F044934	MSTTISFTNLLITRRTLSMPGLRNRRVLLPFITISLFLTMRMLALVTPVLGAAMIMLLLDRH*
Ga0164274_156777	Ga0164274_1567771	F104185	ENVIKVWKYDEEKKKVEQYKTIKAKGSYPDCIVSNEDESQLLFTSRDSFLESYDFATEKTTQISLNPHIKKTNALVFLENMGKVSVSDYTSGNICFLN*