3300017553: Enriched Miracle-Growth compost microbial communities from Emeryville, California, USA - eDNA 3rd pass 30_C Kraft MG (version 2)

Overview

Basic Information

• IMG/M Taxon OID: 3300017553
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191735 | Ga0182744
• Sample Name: Enriched Miracle-Growth compost microbial communities from Emeryville, California, USA - eDNA 3rd pass 30_C Kraft MG (version 2)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 683141904
• Sequencing Scaffolds: 20
• Novel Protein Genes: 22
• Associated Families: 21

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	6
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria	1
All Organisms → cellular organisms → Bacteria	3
Not Available	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. FHR47	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?
F007999	Metagenome	341	Y
F009391	Metagenome / Metatranscriptome	318	Y
F011188	Metagenome / Metatranscriptome	294	Y
F011439	Metagenome / Metatranscriptome	291	Y
F015351	Metagenome / Metatranscriptome	255	N
F016724	Metagenome / Metatranscriptome	245	Y
F021114	Metagenome / Metatranscriptome	220	Y
F032379	Metagenome / Metatranscriptome	180	Y
F037757	Metagenome / Metatranscriptome	167	Y
F041209	Metagenome / Metatranscriptome	160	Y
F042653	Metagenome	158	Y
F050562	Metagenome	145	Y
F052264	Metagenome	143	Y
F058866	Metagenome / Metatranscriptome	134	Y
F061339	Metagenome / Metatranscriptome	132	Y
F074177	Metagenome	120	Y
F080377	Metagenome	115	Y
F092819	Metagenome / Metatranscriptome	107	Y
F096821	Metagenome	104	N
F099198	Metagenome	103	Y
F102878	Metagenome / Metatranscriptome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0182744_1000152	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	78667
Ga0182744_1000239	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	58233
Ga0182744_1042802	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	2112
Ga0182744_1081040	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	1371
Ga0182744_1108617	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria	1128
Ga0182744_1109160	All Organisms → cellular organisms → Bacteria	1125
Ga0182744_1111084	Not Available	1111
Ga0182744_1112260	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1103
Ga0182744_1133497	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	981
Ga0182744_1139483	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	952
Ga0182744_1153514	Not Available	892
Ga0182744_1153752	Not Available	892
Ga0182744_1154481	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	889
Ga0182744_1162438	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	859
Ga0182744_1170036	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	832
Ga0182744_1213615	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	714
Ga0182744_1214018	All Organisms → cellular organisms → Bacteria	713
Ga0182744_1241931	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → unclassified Pseudolabrys → Pseudolabrys sp. FHR47	656
Ga0182744_1249222	All Organisms → cellular organisms → Bacteria	643
Ga0182744_1326111	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium	537

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0182744_1000152	Ga0182744_100015221	F052264	MDYSKIYTRPPTKRMIQKLQECLEKERNNEKIPCLAEEMKSSLSGLYKRGLVETRMEKVNNKRLLCIYVTDIGKQFLKSLDDHSFPKTENN
Ga0182744_1000239	Ga0182744_100023956	F074177	MKNQVYQKRSLFSQFIGEFMKNLSALFESSDKKEFQRLKNFIAS
Ga0182744_1042802	Ga0182744_10428023	F058866	MSEPPSAQRERPPNYEDYQPPRTTAEGGLAMLVSGVFAAAAMGLLLLAVYSKFADVRAFGQISNLLTAATALLLLALYVLVWEITIRVIARSDD
Ga0182744_1081040	Ga0182744_10810402	F015351	MAVQIRKLTSEESAKLFPKRGQMDLTEYVVALGSLQPGDAGEVGLGGLSTRALKRRLGQAAKQLNYSLRWAREQSNSAVRFQVREARVPKPRGTGRRGRPRKNPV
Ga0182744_1108617	Ga0182744_11086172	F041209	MQEACRIAVRGVVARHKAAVSAGLCDQIADMRRKLQRIDKRRILFIDETALRFSAAPTHTIVLPGEQAYVLATETSAYAKRYDMIACCIGDRVLLPKIFTPKERAGAEVRGINRSMLLQFIDDVLAQAVEGLDRYPLTLVLDRAAIHKDVDAIRQAFRDRGSESIKNILLMPPNAAKRLSPLDNAMFHDWKEECRLHCPATAETIVRIMSDGWEKMKPGPHYLHCGLTRSKDPYFDCPEPHAHKHGS
Ga0182744_1109160	Ga0182744_11091603	F042653	MNEWILYIMTWASNLSGYPYPDTLPQVQFQSESWFSHRVCKDHVPCPVFGLYEDGEIVYLREDLTEAAKDHVAVHEFVHYLQRESGRFDLNSCLDSDKREQEAFRVQTRFVAEVQNGFARFGMNHLACGPAR
Ga0182744_1111084	Ga0182744_11110842	F037757	LQTTLRRHAPFWLSLVAGIALWEIAGRSTSAAFMVPFSETLVRLWQLVTGGSFIPAFIDS
Ga0182744_1112260	Ga0182744_11122602	F096821	ANGWRSSSGRPHCTARSTGVNGPGLPRALMKGVRLPSTI
Ga0182744_1133497	Ga0182744_11334973	F032379	MYDPAVQRALMTKLARWRSLPQGDLLDMLSAIDRLRYRPDALRDLEADHLVAIVMRGDEPVVTITEAGLAWLAGKPGQ
Ga0182744_1139483	Ga0182744_11394831	F009391	RVMARPGHLISVFNVQCVMCGRACGQLLGGSFIPREGVHRPTAGKNGESRCGECGGNLYLEPDDAVTPFMAAQIARRPVVLASAA
Ga0182744_1153514	Ga0182744_11535141	F007999	MENADRRMAARAAQARTNLVNALRECAQLADAVEHFEGQDLLDTLDYLDSLRFVMAESGQLLAGVVRGQQS
Ga0182744_1153752	Ga0182744_11537522	F011439	MAESNKNQTAAERARLKEALGATFSTHVCASSSCPTPQERIRMGELYPVVTLAPRKRTLFYHKACGPKVG
Ga0182744_1154481	Ga0182744_11544812	F080377	MRAKKSVLGLVDSGREVRRPPLVGMQFLHQPSMSAADFIA
Ga0182744_1162438	Ga0182744_11624381	F050562	MRLDTIEHRSVQSDERSIQSQSSNQGLMTPARRAALDALEREFQDLLHTARR
Ga0182744_1164426	Ga0182744_11644261	F016724	MRAKKSILGLVDTGREVRRPPLVGMQFLHQPAMGAADFVPPRASLQAKDLIGLLRRHFAARRRAAMLASTPSCRCVLRVLTPAGKPAVKITFQKGPAL
Ga0182744_1170036	Ga0182744_11700362	F011188	VTEDNTIHAQGGGELDTYNIYMDELPAGEEIDGEEMIEVEFRVVPGSDDENDPENNAVIAGLDLVDLINLRDALQQEIDNYALSALEAEANRLAGDMG
Ga0182744_1205988	Ga0182744_12059881	F016724	MRAKKSVLGLVDSSREVRRPPLVGMQFLHQPSMSAADFIAPRASLQAKDLIGLLRRHFAA
Ga0182744_1213615	Ga0182744_12136152	F061339	MPQVRVGQVWEQVSKHERGMRLEVVRATGHRWVMKPVGGGPSKKRGLREGLWTLSEEQIHATCQLLRDV
Ga0182744_1214018	Ga0182744_12140182	F021114	MRASILLWSTASGLILGLFLDATLIGVALLLSAVLPDVSARLHYRWLRVAVSVVLVAVPIVLGVLGYLEGQLKTV
Ga0182744_1241931	Ga0182744_12419312	F099198	MADAITALIGAIIMIGYILLIAGKLAALPLWICSLIGLALMVWAFWGD
Ga0182744_1249222	Ga0182744_12492222	F092819	MSAETVEVESRGAVAIVTINRPDASNTLNLQTAMDLLAAAMTCGRNSAV
Ga0182744_1326111	Ga0182744_13261111	F102878	DEPEHRDDDALVLTAADARAEARFVLADRLVLAHLAADVRGLLAEGQSLPTFPDPEQPAGLPALRIDAEAGFACTGFSIRGMPAIGIQASRNEPPLAFLVLDADQLAELLERAREMLGTG