3300013061: Enriched Miracle-Growth compost microbial communities from Emeryville, California, USA - RNA 3rd pass 30_C BE-Lig MG (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300013061
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191756 | Ga0164275
• Sample Name: Enriched Miracle-Growth compost microbial communities from Emeryville, California, USA - RNA 3rd pass 30_C BE-Lig MG (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 54774708
• Sequencing Scaffolds: 8
• Novel Protein Genes: 8
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1
All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	2
Not Available	3
All Organisms → cellular organisms → Eukaryota → Amoebozoa → Evosea → Variosea → Cavosteliida → Cavosteliaceae → Planoprotostelium → Planoprotostelium fungivorum	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): 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?
F001904	Metagenome / Metatranscriptome	619	Y
F003009	Metagenome / Metatranscriptome	513	Y
F004148	Metagenome / Metatranscriptome	450	Y
F008211	Metagenome / Metatranscriptome	337	Y
F019057	Metagenome / Metatranscriptome	232	Y
F033655	Metagenome / Metatranscriptome	176	Y
F063223	Metagenome / Metatranscriptome	129	Y
F071833	Metagenome / Metatranscriptome	121	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0164275_127894	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	601
Ga0164275_144199	All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii	919
Ga0164275_159478	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	575
Ga0164275_163822	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	2054
Ga0164275_164790	Not Available	990
Ga0164275_165874	Not Available	801
Ga0164275_165954	All Organisms → cellular organisms → Eukaryota → Amoebozoa → Evosea → Variosea → Cavosteliida → Cavosteliaceae → Planoprotostelium → Planoprotostelium fungivorum	603
Ga0164275_171024	Not Available	503

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0164275_127894	Ga0164275_1278941	F008211	MIILDGETSILRARGEPIIFRSQEETMEYAKIHDIQRWMIYGDRDGWWPIYTQDGPISAPPPPKERVDISLH*
Ga0164275_144199	Ga0164275_1441991	F001904	AAAETDFQAAVAEAAGDCHPECRWQCDDPVCPAVCHPVCERPKCQIHCEETECAKCKIHCDKPQCNVRCPKDLCEKKDCPKCETVCSPANCRTQCEAPNAVCTPMCEATKCDWKCKKPITCPKPKCELVCERPACDTRSKKDGTKAGCCSCADQANLAATIRAANSLVEESSEVSQMMPSFMEVMHTIKSASQEGKAEMCCKCAA*
Ga0164275_159478	Ga0164275_1594781	F033655	LSSTFNNDVGEVTHTDSLEHFLGVGGDGNSVDVDLRLFRDVVQSSFSFFFLDLEGDTSDGTSLDSLHQVSSETGDFISHSLGGEDGNITEDLLVEVEVASELAVVLFDQNLGGSLDGLSSDSALKSEEIRGRKKGRKGLPL*
Ga0164275_163822	Ga0164275_1638221	F003009	LAWYQRTYFNVNIGNLVKYFSILTVAFHDVHSLFGFFILLVVFSQLISGTMLSFSLVPESMMVPIVRDEEDLEDLYTDDFF
Ga0164275_164790	Ga0164275_1647901	F063223	ADLQAEAAKLLARAQALKEKRSEREAKAAAKKAENAKLGIFTEKKDAGYEDEITRLKRASARINRLQEQIETPHNEDSFEASIARKKYFLKIYAQLKAEISQLVEDYALRTGNSIFTMFGNGKIDPSIAAFLPPNSVAGILSKYTNPTQDRDDETPRDVISGRDAKRIQYSIDYFKAKQARARLPMPPKLAPTDEELAKQEQFNNPALNKILATQSGEFGQGRPAITTGAQAIGRSSVHIAVVNPADTQKARGMPFQVNLKTKRVKKH*
Ga0164275_165874	Ga0164275_1658741	F071833	NYNINNSFQLIMNFSSEFTQDPQQNINLVQILIKRKLIEPFEKLSRESVECYNLQKGTKEGNPEYATRVNKCLDAWQKHFESVEDHTNKYLSNLRAKEALHFSKLFHCSNAINEKDIEACRKEENHRFANELKETFSQL*
Ga0164275_165954	Ga0164275_1659541	F004148	LSFGNMGGNNVKGLYYMEIIFPMEDGRTVIPQEQLEKEFQKGTIVRPDPNRAKELDGDMDEYVDKVIQDIWRHYDPKGTGMMPTKVIKKFFKDSLDLCVLRKGLKKNQVVAPGVKMGEAMTQSIAKMTSNPQGATQKEFEDFVNCYDLEEALGAFLNIQEIGISHNVQLVDTNQFKEQAAAPKKVQYRDYSALEN*
Ga0164275_171024	Ga0164275_1710241	F019057	MLTVSQGANAIALSIGDGHELGFVDAGIPSGDADRTLYVNHLIHMALGTSDSADGQDYTRSTNDFGALPDAVFALNGSSTTIDFGTGLYSYLFAKYDGPNYGSEVWYIGDLTGLNTIPATGGGYGLSGWTLFGPGTTTTV