3300017652: Enriched Organic Plus compost microbial communities from Emeryville, California, USA - eDNA 3rd pass 30_C BE-Lig OP (version 2)

Overview

Basic Information

• IMG/M Taxon OID: 3300017652
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127392 | Gp0191733 | Ga0182746
• Sample Name: Enriched Organic Plus compost microbial communities from Emeryville, California, USA - eDNA 3rd 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: 575686356
• Sequencing Scaffolds: 17
• Novel Protein Genes: 18
• Associated Families: 13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria	2
Not Available	6
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium retamae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Hyphomicrobium → unclassified Hyphomicrobium → Hyphomicrobium sp. NDB2Meth4	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	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?
F001736	Metagenome / Metatranscriptome	644	Y
F010070	Metagenome / Metatranscriptome	308	Y
F013935	Metagenome / Metatranscriptome	267	Y
F019939	Metagenome / Metatranscriptome	226	Y
F031088	Metagenome / Metatranscriptome	183	Y
F034190	Metagenome / Metatranscriptome	175	Y
F036409	Metagenome / Metatranscriptome	170	N
F041209	Metagenome / Metatranscriptome	160	Y
F050234	Metagenome / Metatranscriptome	145	Y
F051903	Metagenome / Metatranscriptome	143	Y
F052044	Metagenome / Metatranscriptome	143	N
F060311	Metagenome / Metatranscriptome	133	Y
F090719	Metagenome / Metatranscriptome	108	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0182746_1006924	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	6303
Ga0182746_1035104	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis	2093
Ga0182746_1045803	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria	1755
Ga0182746_1064008	Not Available	1407
Ga0182746_1065634	Not Available	1383
Ga0182746_1082689	All Organisms → cellular organisms → Bacteria	1184
Ga0182746_1092469	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria	1097
Ga0182746_1092900	All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii	1093
Ga0182746_1102976	Not Available	1020
Ga0182746_1145090	Not Available	807
Ga0182746_1152133	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium retamae	782
Ga0182746_1153547	Not Available	777
Ga0182746_1160265	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	755
Ga0182746_1179534	Not Available	699
Ga0182746_1184010	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Hyphomicrobium → unclassified Hyphomicrobium → Hyphomicrobium sp. NDB2Meth4	687
Ga0182746_1233498	All Organisms → cellular organisms → Bacteria	584
Ga0182746_1240658	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	572

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0182746_1006924	Ga0182746_10069245	F060311	LIVARPAIGYIAAMLSRAQRIIIADHARLPWRFFGRLTAVQVGLRAGL
Ga0182746_1035104	Ga0182746_10351044	F001736	MPPPYRRPHHHERVANIERMKRAWEAEADALVTVREFNARIEGKRDVWFWPKIAAALTAKHPWVTIVCDSCGGLTDLDLRMKPRDPEASIRVVLRDVRCPRCNGHGRPRIAGLAQSPAR
Ga0182746_1045803	Ga0182746_10458032	F041209	MGREEASMRACAAHELTRSAVSAALCDQIAELRLKLQKCRTTHLLFLDETALRLSEAPTRTVTLPSEQPFVLATETASYASRYDMIACCVGDRVLLPKIYTPQERSDAGVKGINGAMLRQFIDDMLAQAVEGLDRYPLTLVLDRAPIHMNLDSLLQAFRDRSSESIREIILMPPNAAKRLSPLDNSLFHDWKEEVRKGCPATRTNVARLMNNAWMKMDPKPHYKHCGLTRSKDPYFDCPAPAIHRHAS
Ga0182746_1064008	Ga0182746_10640081	F034190	DRHSLHPQQRPLLSIPPERIVPTPLHLFLGISNRIILEAFGELLGKDLVEAALKPVTTVHSAGCGGAADLHDLNGPEISKWVKKQCSANMLAAAASSSSPSAATKATHSILSRWLEQLHSSLLHCRDWTGDELESWRSVVDDIWQHWRAEAKTEPFPKLHMLRHLLEFAKRHRFLGRASEAQIESFHASFNVFFHKHHLNQGGNTTERLRRSLADASLRAVQPLLCASSSAPSTAFQVF
Ga0182746_1065634	Ga0182746_10656341	F041209	MHVAYMHGFAHCSSTLCDQIADMRRKLQRCRTTHVMFLDETALRLSEAPTHTIVLPGEQAYVVATETSSYSKRYDMIACCVGDRVLLPKIFTPTERKGADVKGINRAMLLQFVDDVLAQAVEGLDRYPLTLVLDRASIHKNLDALRQAFHDRGSEPIKDILLMPPNAAKRMSPLDNAMFHDWKEECRRLCPATAKTIQRIMSDAWMKMKPKPHYKHCGLIRNTDVYFDCPAPAVHQHGN
Ga0182746_1082689	Ga0182746_10826891	F090719	MNELSPIDRMRAEAVTPDPIHPKVRELDVIDTDFHFSPPWATIRSYLQEPFRELLHHYPATSLEYNPEPANEKPGVGQDTHGTAGTALEVLAVLDRMGVGTVILN
Ga0182746_1092469	Ga0182746_10924691	F041209	ICLFCLPSCWRRQLFSQLFKQHTQQDSSTDRQCSCVTRHILFLDETALRLNAAPTQTVVLPGEQAYVLATDTSSYASRYDMIAVCTGVETLLPKVFTPAERKGADVRGVNSAMLQQFIDDTLAQAVEGLDRYPLVLVLDKATIHKNVDAIRQASHDRGSQAIRDILIMPPNAAKRMSPLDNALFHDWKEECRKRCPVTKQTIEQVMADAWNKLPARLLHAHYKNCGLVRGQDPYFDCPDPAGHQHGN
Ga0182746_1092900	Ga0182746_10929002	F010070	MQMKQRGQPHLCAGLNTQYHLTCIEVLESVLRADKAVVYWLTNGCMHMDSEGPEIVRPCPAINICSWVPNLFADSPSMVRDGVESLCPKDPKFLPTIPQEFRNLLATPDSSPADNAAVNGPVQPITQGV
Ga0182746_1102976	Ga0182746_11029761	F051903	FLDETHKREGDVQNYTIVLPGEPSYIQSANTSSYATRFDMIACCSGTTTLPPIIYSPQQRVRGVNTAMLLQYIRDILAQAAGALDTYPLLLLLDRSGIHNEEKILQELHDWGCQELTEVTKIPTASAKRLSPLDNSLFNVWRQRALSSGSLTLANIKQRMGDAWNSLTTADIRAQYRHCGLMRNQDVYFDCPNPAAHRHGR
Ga0182746_1145090	Ga0182746_11450901	F034190	WCFINAVLGLMSPSATHPCPICIVSKNNLLSSSRYRTPADRHSIDHTHSPLLSIPPERIVPTPLHLFLGISNRIILDAFSELLGKERVETALKSITTVHSAGCGGAADLYDLNGQEISKWIKKECSATLLSAAAASSPIPAATSASHSILSRWLQQLHHCLLRSDVWTAADIDAWRSVVSDIHQHWRAETSIAAFPKLHMLHHSVDFAERHRFLGRASEAQIESFHASFNDLFHKQHRNQAGNTAERLRRCLADSSLRAVQSVLI
Ga0182746_1152133	Ga0182746_11521332	F013935	LLHQLLGFLRIVPEIGVFGEVVQFGETCGCSIDVKDASSAARLTA
Ga0182746_1153547	Ga0182746_11535471	F051903	GEPPYIETSATSSYAPRYDMIACCSGTTALPPIIYSSKERGKGVTTEMLLAYIRDLLAQAAGALDVYPLLLVVDRSPIHSTERMQQEFRDWGCQEMTEVLLMPPSAAKRLSPLDNSLFNVWRQRVLQGGPLTKTNIKQRMSDAWAAITKADIQAQYRHCGLMRHQDVYFDCPAPALHKHA
Ga0182746_1160265	Ga0182746_11602652	F031088	MKLNVLAIALAATAFGAFGANAQTVIEERRDPAVVIEHDKPASSVTVEKREGLIGEKKTITKETTGSAGCDSKTVHREGIGGSTTVKKTNCD
Ga0182746_1179534	Ga0182746_11795341	F034190	LHSSRHRTAADKHSRAAGQQPLLTIPPERIVPTPLHLFLGISNRIILDAFSELLGKERVETALKSITTVHSAGCGGAADLHDLNGPEISKWIKKECSATLLAVAAASSAVPAATCASHSILSRWLQQLHHCLLHSDDWKAADIDAWRSVVSDIHCNWRAETSIAAFPKLHMLHHAVDFAERHRFLGRASEAQIESYHASFNTLFHKQHRNQSGNTAERLRRSLADSTLRAVQ
Ga0182746_1184010	Ga0182746_11840101	F052044	MADADRLGKIATIGQDLITTQLTMAMQTPSQALEGTWVLGYCFGIFDALAQQADLDDGAEVFSLVTLGFLGLFADPADPEAAAFIRRSLDRQDNPRFQEGAAAGGTDVFVWVADRTKAPNALFEHLGR
Ga0182746_1204323	Ga0182746_12043232	F019939	AFTSPADEQRIVSLVETAASADARAQALPTVFDSGREASRRFRHTDILAHRAGRARFTQVRANQPGQDTDATRAAYLRLYSTVYASFETLCAKRMPLAYLPYCNDMLKSYRFFAQGVNYGDRAEQICMNGNFCDSRSYIRRVTHNTYQREPGDA
Ga0182746_1233498	Ga0182746_12334981	F036409	DLTLGVVTVHDFGKFHTLLFVHYDPETKKWKGPVVEAPFNDWNIDGGCPNFDAAGNIMIWSAGYDRGPDVITGGESGAGGVYDLYWLPTSEVIDYYKKAAGIG
Ga0182746_1240658	Ga0182746_12406581	F050234	AVVIPPWPLLVLMLEFPVIMALLDCWQRPGEHFGEGAEDRRAWLRWLLVAVVTIPVLLGYGIVLGYYFAVVRRNSPAAPR