3300017651: Enriched Miracle-Growth compost microbial communities from Emeryville, California, USA - eDNA 5th pass 37_C BE-Lig MG (version 2)

Overview

Basic Information

• IMG/M Taxon OID: 3300017651
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191738 | Ga0182742
• Sample Name: Enriched Miracle-Growth compost microbial communities from Emeryville, California, USA - eDNA 5th pass 37_C BE-Lig MG (version 2)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 683463723
• Sequencing Scaffolds: 23
• Novel Protein Genes: 24
• Associated Families: 23

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia bacterium	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	4
All Organisms → cellular organisms → Bacteria → Terrabacteria group	1
Not Available	5
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter agaridevorans	1
All Organisms → cellular organisms → Eukaryota	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 → Compost → Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → anthropogenic environment → compost
• 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?
F001784	Metagenome / Metatranscriptome	635	Y
F005470	Metagenome / Metatranscriptome	399	Y
F006009	Metagenome / Metatranscriptome	384	Y
F007999	Metagenome	341	Y
F011188	Metagenome / Metatranscriptome	294	Y
F016219	Metagenome / Metatranscriptome	249	Y
F021612	Metagenome / Metatranscriptome	218	Y
F028371	Metagenome / Metatranscriptome	191	Y
F028447	Metagenome / Metatranscriptome	191	Y
F032031	Metagenome / Metatranscriptome	181	Y
F033655	Metagenome / Metatranscriptome	176	Y
F037930	Metagenome / Metatranscriptome	167	Y
F042887	Metagenome / Metatranscriptome	157	Y
F047414	Metagenome / Metatranscriptome	149	Y
F049342	Metagenome / Metatranscriptome	146	Y
F056036	Metagenome	138	Y
F069541	Metagenome / Metatranscriptome	123	Y
F072875	Metagenome / Metatranscriptome	121	Y
F080249	Metagenome / Metatranscriptome	115	Y
F086140	Metagenome / Metatranscriptome	111	Y
F086315	Metagenome / Metatranscriptome	111	Y
F092377	Metagenome	107	Y
F092683	Metagenome / Metatranscriptome	107	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0182742_1000102	All Organisms → cellular organisms → Bacteria → Proteobacteria	166689
Ga0182742_1000791	All Organisms → cellular organisms → Bacteria → Proteobacteria	45966
Ga0182742_1002396	All Organisms → cellular organisms → Bacteria → Proteobacteria	20804
Ga0182742_1026054	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	3200
Ga0182742_1028256	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia bacterium	3028
Ga0182742_1034769	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. Root1462	2626
Ga0182742_1038867	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	2430
Ga0182742_1048119	All Organisms → cellular organisms → Bacteria → Terrabacteria group	2089
Ga0182742_1092368	Not Available	1300
Ga0182742_1097397	Not Available	1250
Ga0182742_1098144	All Organisms → cellular organisms → Bacteria	1243
Ga0182742_1117041	Not Available	1086
Ga0182742_1125020	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	1032
Ga0182742_1125525	All Organisms → cellular organisms → Bacteria	1029
Ga0182742_1141734	Not Available	936
Ga0182742_1160731	All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium	848
Ga0182742_1183591	Not Available	763
Ga0182742_1206435	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	695
Ga0182742_1211868	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Nevskiales → Steroidobacteraceae → Steroidobacter → Steroidobacter agaridevorans	681
Ga0182742_1240999	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	616
Ga0182742_1254529	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	590
Ga0182742_1261385	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia bacterium	578
Ga0182742_1291337	All Organisms → cellular organisms → Eukaryota	532

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0182742_1000102	Ga0182742_1000102133	F086140	MATGTTQQVVEYLKAHPDIAKKAMEYVKTNPGDAKNALKDIASQRGWDLSQIDMSTLTKELSNIVPH
Ga0182742_1000533	Ga0182742_100053331	F092377	MNLQTLQAQLNQLERKRQQLEKRIKERASKQYAALPAKLGLKNIDDLIIQLLPYGSSSLRARLNQQGVLPGGKRRGRPPRKSRGTRYSAEVKAAVKRAVEAGDRTVAEISREFGPSVFSIKDWKKQWGLTRSRRKK
Ga0182742_1000791	Ga0182742_100079110	F001784	MGEVIHANFGTEREWEQTHEKTVDGLLAIGSLFGDDEALMRAKADCVYHILREIVEDVPSVQITTRMPDNLSEEQLAMLTESIRQAALKGIEVAMTHSVQVLMSSIYDLCTSKLKVRPS
Ga0182742_1002396	Ga0182742_10023968	F080249	MADDKKKTGNPDRNLIAFNQKYEFNYAVRQLQKQIPDTTRQEAKEALTKAARQVSPSEGREKVMRAARKILKD
Ga0182742_1026054	Ga0182742_10260544	F056036	VSARLKRELGAGVAVALLALGGAYWQAERTNAFEADTRTGETLRLVCPLH
Ga0182742_1028256	Ga0182742_10282563	F032031	MTYDPHDTASIPVGTTVIAADGSVLGKIREVHPHYLLAGIEGQHNDLEIPVHAIREFANGKLRVSINREAATSVDDVETAHRTTESPGDAT
Ga0182742_1034769	Ga0182742_10347692	F072875	MGARMTSPQPYLTVASILSGFCISVFMFRIQRELGVRDRHPDWPNWLAWADYLIVATIVLSIVFVILPLVTVPVPGPVAYSVAAGACAAASILLLAYPFAILDHYRIEIGRSRILRGESPQARHKGEPIERIIVMTAGATAAATFAAVVWLWNS
Ga0182742_1038867	Ga0182742_10388672	F037930	MTAETTAPAKPRLSREARQIERQYRNVITLFLAGRLGNFSHQRHVHIANILHHLPYGRELMHLGLQVMAYRNFVPDKYRAEITDRYWDQLDGTLPDPAVFNDVPGGADGRRQERGAHVSGLTD
Ga0182742_1048119	Ga0182742_10481192	F086315	MPGLRRRTLTVLLVTAAVTGVSAAGVLAGSQATEPKRGGGHHGKPVAGFPPNVDRVDLSGYEIETRYTLGRNTGNTFQQTYEATTVQGVPVEGPFVGMTFPPQDYVALAIAPKTLYIAWLDPETHAIVDAFVMNFATGVVFDFAPGSAEPESSGTVRILRAGATPLP
Ga0182742_1092368	Ga0182742_10923681	F049342	ALSIDVTKNKFFAILNAIFDFMAFTYNSGFSKTDLEKYVETILDMLTNDILFENFFQNYVAHLRIIRAKKKFAFLFQRRLETDCFWVWSFSFLASMKNHYLGLLLSFEETFLEGGLILKWKNTESWVNNFIAFCYEKGIGTRKNLAKAAQLYKKDIDQMPRVLYSRYRKVLVVKEKRAHGLQLSQEEENINVDEQAEDLKLKIEERLEDTTRMDCYLFYVYGKIYEKIDEDNDRAIEWYQKGVDVDTDSCLKNHLLCNEAWRLKCKKRLLKLQARKGLQVSIVNKNRED
Ga0182742_1097397	Ga0182742_10973971	F016219	MVAVTYGVRVPAAAAATPRKSLFARFMDALIESRMEPARREIRRHANLLPYTFDEAGNRVVPTRSGTLPFNAA
Ga0182742_1098144	Ga0182742_10981441	F007999	RQTHERAAKARQNLVNALRECGELADAVETFEGNELMEVLDYLDSLRFVMAESGQILQGVVRGSR
Ga0182742_1117041	Ga0182742_11170411	F069541	MMDISVTCEKWLASYPKFNWKSTFSFLQAPEVLKAIEFCDNGIACFVKGLQYEHDKDYHEALNCYENGAMQLDSLCLFRLHEIYSGDTNFGVEYIERQAMCHLAYSALLSQFETFDHKVTFWAKLEAFWKKDAAHKDYLMELLNNPPADYLQSTGPLFAKLFTFYN
Ga0182742_1125020	Ga0182742_11250201	F033655	LSDENSVDIDLGLFRDVVQSSFSFLFRCLDYLFGKYICYFFLDSEGDTSDGSSLDSLHQVGSESSNFISHSLGRKDGNITEDLLVEVEIVGKLSVVLFNQNLSGSLDSLSSNSSLKAEVREGE
Ga0182742_1125525	Ga0182742_11255251	F042887	VRGHPARVKSDSWREAIRDAVTAAYPQAPFTSPPEGTKFTVEMVFRMTPQDLARPACDLDNFAKPVIDTLFTSQNVSRLNGVLLPGVNDTWVFRLVLEKVGVKTSQEQGADITVTWHPSGTPDLRTS
Ga0182742_1141734	Ga0182742_11417341	F047414	LSSEKVKHYLITHSYIISDLSPRMHRDSLILSPLFSTNNHNGGFFGNFTPRYFSNVPHMPDNNKGFGPDDFLRPSPTHMDIDVNSRFDKAVDNLKMELRNNPAPLMNDHHGMDQQGLNLDIDLIDDSYLHAPLTKSPHIQFPGSQPNSKCSFKKFGEWTLSPNASFLPRKKF
Ga0182742_1160731	Ga0182742_11607312	F021612	MNFSGADRKRQLITVGVGTVLMLVMAGVLIAGFRLATQMNANVSALQTASALQTYPNTLVAQLTSLRDRLETRAYSGQALA
Ga0182742_1183591	Ga0182742_11835911	F005470	KEGQLITEFPPEMVARSRLLTKLVEEFNSTEVDLEPAPGKDFSPATINKVKEFLEKFDKGLTKMPKKPLLIFVTYNDWLDNNFDEKLREWLEEFLKPKSFYDLVELFNAAFYLQIDDLREICAARIAHSIILERKAPEDFLRDFGIVTQYQDFFTPEEEAKFIEKEFINKNDFEGVAAEDEEELNKE
Ga0182742_1206435	Ga0182742_12064351	F028447	APKPPPVERVDRFWTPDNPDGSGWADVDWASAIRGSKYHYQHGKPYAEAMAALPPFYRVVTRLESDELIPHENSYYIPREELGNFLSEMALAGGIEQIWHVEACADPPPESRVRPPV
Ga0182742_1211868	Ga0182742_12118682	F006009	MTNGERKALWRGVAAGTMVGLAIGGMIALVIATKPGLFAALLQ
Ga0182742_1240999	Ga0182742_12409991	F011188	EKISLGGVSVETYNIYMDELPTGEEFDGDEMVEVEFRVVPGSDDDGDPENNAVIAGLDLVDLINMRDALQQEIDNYALTALEVEASNLVEE
Ga0182742_1254529	Ga0182742_12545291	F011188	PTGEEFDGEEMIEVEFRVVPNREDDGDATSNAVIAGLDLVDLINLRDSLQQEIDNYALSALEVAASAAVNEDVG
Ga0182742_1261385	Ga0182742_12613851	F092683	LGWYDPDRKKPARAKLAEAVERYEEKFGRTARCCLTSPQDALDLAEPSRKFPGELAVEVQPRNYIARWTFYIGEEIVEPTRHDGVAEAA
Ga0182742_1291337	Ga0182742_12913371	F028371	FFLLLSLSDFDSVVSNVPLSEGSGVDLDDTALDQSIGSDEFVVCGVVDDLEDLGLSGDLFRRPGEVSSIELQGLVFVVTSSNTESSDSLLTDLGKSGGTTGFVLLLLFMDWHTTTGKSSLVS