3300005281: Thermophilic microbial communities from the Joint Bioenergy Institute, California, USA of rice/straw/compost enrichment - eDNA_2

Overview

Basic Information

• IMG/M Taxon OID: 3300005281
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063773 | Gp0052187 | Ga0065720
• Sample Name: Thermophilic microbial communities from the Joint Bioenergy Institute, California, USA of rice/straw/compost enrichment - eDNA_2
• Sequencing Status: Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 417494827
• Sequencing Scaffolds: 14
• Novel Protein Genes: 16
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	9
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia	1
Not Available	2
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea → Scuticociliatia → Philasterida → Pseudocohnilembidae → Pseudocohnilembus → Pseudocohnilembus persalinus	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Rice-Straw Enriched Compost Microbial Community From Berkeley
• Type: Engineered
• Taxonomy: Engineered → Solid Waste → Grass → Composting → Bioreactor → Rice-Straw Enriched Compost → Rice-Straw Enriched Compost Microbial Community From Berkeley

Alternative Ecosystem Assignments

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

Location Information

• Location: Davis, California, USA
• Coordinates
  • Lat. (^o): 38.5402727
  • Long. (^o): -121.7500776
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001564	Metagenome / Metatranscriptome	670	Y
F003125	Metagenome / Metatranscriptome	506	Y
F011110	Metagenome / Metatranscriptome	295	Y
F021039	Metagenome / Metatranscriptome	220	Y
F034478	Metagenome / Metatranscriptome	174	Y
F035426	Metagenome / Metatranscriptome	172	N
F046219	Metagenome	151	Y
F064527	Metagenome / Metatranscriptome	128	Y
F076964	Metagenome	117	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0065720_1003910	All Organisms → cellular organisms → Bacteria	16253
Ga0065720_1007415	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia	3726
Ga0065720_1007992	All Organisms → cellular organisms → Bacteria	2764
Ga0065720_1029712	All Organisms → cellular organisms → Bacteria	3570
Ga0065720_1030944	All Organisms → cellular organisms → Bacteria	3281
Ga0065720_1031435	Not Available	3179
Ga0065720_1033693	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea → Scuticociliatia → Philasterida → Pseudocohnilembidae → Pseudocohnilembus → Pseudocohnilembus persalinus	2743
Ga0065720_1037050	All Organisms → cellular organisms → Bacteria	2402
Ga0065720_1045441	All Organisms → cellular organisms → Bacteria	1807
Ga0065720_1051708	Not Available	1533
Ga0065720_1052492	All Organisms → cellular organisms → Bacteria	1494
Ga0065720_1057010	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales	1368
Ga0065720_1059015	All Organisms → cellular organisms → Bacteria	1304
Ga0065720_1084487	All Organisms → cellular organisms → Bacteria	884

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0065720_1003910	Ga0065720_10039102	F001564	LCDPRLCPEAPDGGGRCDHCPLDRLDAAQSSETGLLIRRALDLRAALKLGVRVSLDEIRADEFYAMXIXEEERERLDQERINSHGR*
Ga0065720_1003910	Ga0065720_10039105	F011110	MNEFIWMSPPFGQGEPVQVEAKPEVLIPLMVAGYSQCEPPASREEVKEDVHG*
Ga0065720_1007415	Ga0065720_10074153	F003125	MDPFRILKQTWSVGDTIEVEAYRVERQVGLEYDSYRCVYLAHGHEWQIAGQIAKDDGKKYYLLECVA*
Ga0065720_1007992	Ga0065720_10079923	F001564	GGPRPKLLNGEWPERPSVRFLIHWALRREELCDPRLCPDAPEDGGRCDHCPLDKLDAAQSSETGLLIRRALDLRAALKLGVRVSLDEIRADEFYAMLILEEEKEQLDRERVNGDRR*
Ga0065720_1029712	Ga0065720_10297124	F001564	LCDPALCPDAPEGGRCDHCPLDRLDAAQSSEPGQLLRRALDLRAAFKLGVKLSLDEIAADEFQAMLIVEEEQARFDEERLNRHG*
Ga0065720_1030944	Ga0065720_10309444	F001564	VHWALRREELCDPRLCPDAPEDGGRCDHCPLDKLDAAQSSETGLLIRRALDLRAALKLGIRVSLDEIRADEFYTMLILEEERERLDQERINSHGR*
Ga0065720_1031435	Ga0065720_10314351	F034478	YGTYQEGKISFDHREEAEPVGNFLAGMRIDSISLWFLRTDNQNVALQGICTSYKKLNEDNFFESFESVDDKIKNSDRDYDIVHFDDGEYIREINVTVASANNKIGAIEFVTTNKGRKVLAYGSTNANAEDGKQSEPLPPGETKKFDFLKADGDNFPGYVVGFYGQHDENHITYLGVYVAPLTEINYYARRPYILTFKKMQQDKNLINQVAANLKVEREGERFKDANLEDTDGNSSKILLYFLDASLNHPELFKAVLEYL*
Ga0065720_1033693	Ga0065720_10336933	F034478	MDVEHGNLIQQDRPTIVRKVDLYGSPQEGKISFDHREEAEPVGNFLAGMRIDSISLWFLRTDNQNVALQGICTSYKKLNEDNFFESFESVDDKIKNSDRDYDIVHFDDGEYIREINVTVASANNKIGAIEFVTTNKGRKVLAYGSTNANAEDGKQSEPLPPGETKKFDFLKADGDNFPGYVVGFYGQHDENHITYLGVYVAPLTEINYYARRPYILTFKKMQQDKNLINQVAANLKVEREGERFKDANLEDTDGNSSKILLYFLDASLNHPELFKAVLEYL*
Ga0065720_1037050	Ga0065720_10370502	F046219	LLRRALDLRAALKLGVRIELDEIRADEFRALVVLEEERDSLDREQMNSHGR*
Ga0065720_1045441	Ga0065720_10454413	F076964	MSDSKVWLRPPWGEGEPKEVEATPAVLVPLLVAGWSQCAPPEPEVKEDVHD*
Ga0065720_1051708	Ga0065720_10517083	F021039	GETKKFDFLKADGDNFPGYVVGFYGQYDENHITYLGVYVAPLTEINYYARRPYILTFKKMQQDKNLINQVAKHLNVEREGERFKDANLEDTDGNSSKILLYFLDASLNHPELFKAVLEYL
Ga0065720_1052492	Ga0065720_10524922	F001564	LIHWALRRDELCDPGLCPDAPDDGGRCGHCPLDRLDAAQSSEVGILLRRALDLRAALKLGIRVGLDEIRADEFRALVVLEEERDALDHEQLGPKPKAAFQ*
Ga0065720_1057010	Ga0065720_10570102	F064527	MSTPRDPADRVRTLLLRADNVLKNEGDPADRARRAREALEEARAVAAGGGVDPRVAELIERRLAALEAGGPG*
Ga0065720_1059015	Ga0065720_10590152	F011110	MNEFVWMSPPFGQGEAVQVEAKPEVLVPLMVAGYSQCEPPASREEVKEDVHG*
Ga0065720_1084487	Ga0065720_10844871	F001564	LIHWAFRREELCDPGLCPDAPDDGGRCDHCPLDKLDAAQSSEAGLLLRRALDLRAALKMGVRIGLDEIRADEFQSLVVLEEERERLEQMRLADR*
Ga0065720_1139537	Ga0065720_11395371	F035426	MPLGRRWQQIDVNCFWVLEQDRESYNREVYLPDAYIEAIINVGAPLMLESGYGMLELPRAFVNPLQNKPLRIRAAGFCQMISMQLYPWVVKPILNIDPDPSTARVIALDADWQRFAEYLAQIVAHRGYGEAIACLQEYVCKTAYRHKHDLTF