3300017646: Enriched Organic Plus compost microbial communities from Emeryville, California, USA - eDNA 5th pass 30_C BE-Lig OP (version 2)

Overview

Basic Information

• IMG/M Taxon OID: 3300017646
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191745 | Ga0182737
• Sample Name: Enriched Organic Plus compost microbial communities from Emeryville, California, USA - eDNA 5th pass 30_C BE-Lig OP (version 2)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 400832115
• Sequencing Scaffolds: 17
• Novel Protein Genes: 17
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria	3
All Organisms → cellular organisms → Bacteria	1
Not Available	8
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium cenepequi	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Oxalobacteraceae → unclassified Oxalobacteraceae → Oxalobacteraceae bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia 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 → 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?
F001230	Metagenome / Metatranscriptome	741	Y
F003648	Metagenome / Metatranscriptome	475	Y
F034190	Metagenome / Metatranscriptome	175	Y
F041209	Metagenome / Metatranscriptome	160	Y
F050234	Metagenome / Metatranscriptome	145	Y
F056624	Metagenome	137	Y
F067546	Metagenome	125	Y
F072103	Metagenome / Metatranscriptome	121	Y
F073391	Metagenome / Metatranscriptome	120	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0182737_1020918	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria	2417
Ga0182737_1021709	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria	2338
Ga0182737_1022164	All Organisms → cellular organisms → Bacteria	2295
Ga0182737_1027797	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria	1884
Ga0182737_1038788	Not Available	1423
Ga0182737_1040027	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1385
Ga0182737_1040557	Not Available	1371
Ga0182737_1045725	Not Available	1243
Ga0182737_1047901	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium cenepequi	1197
Ga0182737_1051367	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Oxalobacteraceae → unclassified Oxalobacteraceae → Oxalobacteraceae bacterium	1130
Ga0182737_1052182	Not Available	1116
Ga0182737_1053239	Not Available	1099
Ga0182737_1080755	Not Available	803
Ga0182737_1106300	Not Available	661
Ga0182737_1132558	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium	569
Ga0182737_1135844	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Chloroflexia → unclassified Chloroflexia → Chloroflexia bacterium	559
Ga0182737_1157076	Not Available	508

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0182737_1020918	Ga0182737_10209182	F041209	MQDRPCVPAQRARELTCCAVSSALCDEIASLRRKLQKNATARIVFLDETALRLSAAPTHTIVLPGEQAYVLASDTSSYAARYDMIAVCTGVETLLPKVFTPKERAGAQVRGVNSAMLHQFIDDTLAQAVEGLDRYPLTLVLDKATIHKNVDAIRQAFHDRGSQAIKDILLMPPNAAKRMSPLDNALFHDWKEACRKRCPVTKRTIEQVMADAWNKLPARLLHSHYKNCGLVRRTDPYFDCPDPAGHQHAR
Ga0182737_1021709	Ga0182737_10217092	F041209	VLATDTSSYASRYDMIAVCTGVETLLPKVFTPAERKGADVRGVNSAMLQQFIDDTLAQAVEGLDRYPLVLVLDKATIHKNVDAIRQASHDRGSQAIRDILIMPPNAAKRMSPLDNALFHDWKEECRKRCPVTKQTIEQVMADAWNKLPARLLHAHYKNCGLVRGQDPYFDCPDPAGHQHG
Ga0182737_1022164	Ga0182737_10221641	F001230	VGPQTTSEAVANAHVWFEHNSGWAPPDEGTMEEWLADGVCRAPDECLISPDGWCEHGLASWWLILEALDDPRP
Ga0182737_1027797	Ga0182737_10277972	F041209	MSCGLTLAAVSADLCEQIANLRRKLQRIGPARTLFLDETALRLNAAPNHTLALPGQQPLVLATDTSAYAARYDMIAVCSGVETLLPMVFTPAERRGADVRGINGAMLQQFIDNTLAQAVEGLDRYPLTLVLDRAPIHLNTQQLLQSFHDRSSESIKEILLLPPNAAKRMSPLDNALFHDWKERCRKRCPVTNHTIEGVMSDAWNQLPAALIHQHYKHCGLVRGQDPYFDCPDPDGHAHGS
Ga0182737_1038788	Ga0182737_10387881	F034190	NGDWCFINAVLGLMSPSATHPCPICIVSKNNLLSSSRYRTPADRHSIDHTHSPLLSIPPERIVPTLLHLFLGISNRIILDAFSELLGKERVETALKSITTVHSAGCGGAADLYDLNGQEISKWIKKECSATLLSAAAASSPIPAATSASHSILSRWLQQLHHCLLRSDVWTAADIDAWRSVVSDIHQHWRAETSIAAFPKLHMLHHSVDFAERHRFLGRASEAQIESFHASFNDLFHKQHRNQAGNTAERLRRCLADSSLRAVQSVLI
Ga0182737_1040027	Ga0182737_10400273	F050234	VIPPWPLLVLMLEFPVIMALLDCWQRPGEHFGEGAEDRRAWLRWLLVAVVTIPVLLGYGIVLGYYFAVVRRNSP
Ga0182737_1040557	Ga0182737_10405573	F072103	MTTILDTVENYEAQLLDLVKKTQAPVVGYVAKGVELVGDRLPSVSYPKALPTPIEVVESQVAFAKKLIDVNTAIVTSVLETVAPVAGYAKPKKVAKAKAA
Ga0182737_1045725	Ga0182737_10457251	F034190	LGVPHSAAGKQHFAALLVYEGGDSWLELQDCCAEGLTPFTGDSAAFPHIWAVLQHFIDTRGAFLNGDWCFLNAVLGLMAPSTTHPCPICIVGKNNLLSSSRYRTANDRHSIDRTHTPLLTIIPERIVPTPLHLFLGISNRIILDAYKELFGEAVVLQAVAAIKTVHSSGCGGASDLYDLNGPEISKFLKQNRSAAMLESPAAAVILPAAARASHSILSRWLEQLHCSLLHSRDWTPADIGAWCSVVDDIQQHWCAETSQAAFPKLHMLRHSLEFAERHRFLGRASEAQIESFHAQFNVLFHKQHRNQSSNTAERLRRSLADTALRAVQPLLSLPIEPTSASF
Ga0182737_1047901	Ga0182737_10479011	F003648	VWLPKERLMAMAASRCAVCSRAMVAALVEADPTDAALELRTFSCAECGHSRTYNVDAGDT
Ga0182737_1051367	Ga0182737_10513671	F034190	HSAAFPHIWAVLLHFIDTLVAFLNGDWCFLNAVLGLMSPSATYPCPICIVSKNNLLSSSRHRTPADRHSIDRTHAPLLTIPPERIVPTPLHLFLGISNRIILDAFSELLGKERVETALRSITTVHSAGCSGAADLHDLNGQEISKWIKRECSAGVLAAAASSASLPAATNASHSILSRWLQQLHHCLLHSDDWTAADIDAWRSVVSDIHCNWRAETSIAAFPKLHMLHHSVDFAERHRFLGRASEAQIESFHASFNALFHKQHRNQSRNIAERLRRSLADSALRAVQPLLQT
Ga0182737_1052182	Ga0182737_10521821	F034190	LGEAVVREAVQSIKSIHSAGCSGAADLHDLNGQEISKWIKKECSTSMLAAATASSPLPAATTASHSILSRWLQQLHHCLLRSGDWTAADIDAWRSVVSDIHSHWREETSIKLFPKLHMLHHAVDFAERHRFLGRASEAQIESYHASFNALFHKQHRNQSGNTAERLRRCLADSTLRAVQPFLQA
Ga0182737_1053239	Ga0182737_10532392	F034190	ICIVSKNNLLHSSRHRTAADKHSRAAGQQPLLTIPPERIVPTPLHLFLGISNRIILDAFSELLGKERVETALKSITTVHSAGCGGAADLHDLNGPEISKWIKKECSATLLAVAAASSAVPAATCASHSILSRWLQQLHHCLLHSDDWKAADIDAWRLVASDIHQHWQAETSIAAFPKLHMLHHAVEFAERHRFLGRASEAQIESFHAQFNTLFHDHHLNQGDNTTERLRRCLADASLRAVQPFLHQ
Ga0182737_1080755	Ga0182737_10807551	F034190	LMSPSATHPCPICIVSHKSLLSSSRYRTPADRHSLHPQQRPLLSIPPERIVPTPLHLFLGISNRIILEAFSELLGKDLVEAALKPVTTIHSAGCGGQSDLYDLNGPEISKWIKKERSANVLAAAASSSLPSATKATHSILSRWLQQLHSSLLHCRDWTGDDLESWRSVVDDIWQHWQAEAKTEPFPKLHMLRHSLEFAERHRFLGRASEAQIESFHAQFNTLFHKHHLNQGGNTAERLRRSLADASLRAVQTFLQP
Ga0182737_1106300	Ga0182737_11063001	F034190	VSHKNYLHAARYRTPADKNSRAAGQQALLSIPPERIVPTPLHLFLGISNRIILDAFSELLGKELVEETLKSVTTVHSAGSGGKGDLYDLNGPEIRKWLKKKCAATLRESAEKKGALTAEQKSTFTTLQRWLEKLHEHLLHKDDWEAEDIEAWRAAVDDIWKNWQAETSQDAFPKLHMLRHSLEFAERHRFLGRTSEAQIESFHAYFNALFHQQHRNQSGM
Ga0182737_1132558	Ga0182737_11325581	F067546	MTPVAARRAPLTVRTEGAAVVLELSDSLDPTTGRVLVDAVASAVATAPERVDIDLRAISTWTHDGAHALVECRELCRDLPEGLHYRTGRGPGRAALLAAYS
Ga0182737_1135844	Ga0182737_11358441	F073391	TFTTETNKAEIPVGVCDVTWTNPSGQDTSIKVNIEGERTTYIRGSLIKFPNGAGEIYVLKAQDGTVIWQDQIEQGDWVWVLPGIYTCDLLELVGDPVLISFTVQTLPGSATQVEIFTAP
Ga0182737_1157076	Ga0182737_11570761	F056624	MNPPQNHEKPRCNSCREDIRDRIATFDRRLLALEIIVRGEDGHNGMKSQLKTLCDRFDQFERKAIRWIAVGTSLPGIVVAVLAVLK