3300009308: Microbial communities from sediment of the River Tyne Estuary, UK ? Pasteurized_686d_3 SPAdes

Overview

Basic Information

• IMG/M Taxon OID: 3300009308
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118143 | Gp0131539 | Ga0116593
• Sample Name: Microbial communities from sediment of the River Tyne Estuary, UK ? Pasteurized_686d_3 SPAdes
• Sequencing Status: Permanent Draft
• Sequencing Center: University of Liverpool
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 265860313
• Sequencing Scaffolds: 13
• Novel Protein Genes: 14
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	3
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	3
All Organisms → cellular organisms → Archaea	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → unclassified Cytophagales → Cytophagales bacterium	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Mediterranean phage uvDeep-CGR1-KM17-C101	1
All Organisms → cellular organisms → Bacteria → Thermotogae → Thermotogae → Thermotogales → Thermotogaceae → unclassified Thermotogaceae → Thermotogaceae bacterium	1
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → unclassified Nitrospiraceae → Nitrospiraceae bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Anaerobic Oil Degrading Microbial Communities From River Tyne Estuarine Sediment
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Sediment → Unclassified → Unclassified → Sediment → Anaerobic Oil Degrading Microbial Communities From River Tyne Estuarine Sediment

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): estuarine biome → estuary → sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Sediment (saline)

Location Information

• Location: United Kingdom
• Coordinates
  • Lat. (^o): 54.9632021
  • Long. (^o): -1.6348029
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000613	Metagenome / Metatranscriptome	985	Y
F006143	Metagenome	380	Y
F018557	Metagenome / Metatranscriptome	234	Y
F021528	Metagenome / Metatranscriptome	218	N
F024682	Metagenome / Metatranscriptome	205	Y
F036974	Metagenome	169	N
F042655	Metagenome	158	Y
F043481	Metagenome / Metatranscriptome	156	Y
F046098	Metagenome / Metatranscriptome	152	Y
F078674	Metagenome / Metatranscriptome	116	Y
F080201	Metagenome / Metatranscriptome	115	Y
F089113	Metagenome	109	Y
F091590	Metagenome	107	Y
F104571	Metagenome / Metatranscriptome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0116593_1002274	Not Available	6203
Ga0116593_1009501	All Organisms → Viruses → Predicted Viral	2355
Ga0116593_1035692	All Organisms → cellular organisms → Bacteria	1101
Ga0116593_1040012	Not Available	1035
Ga0116593_1064725	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	802
Ga0116593_1066348	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	792
Ga0116593_1067737	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	783
Ga0116593_1069503	All Organisms → cellular organisms → Archaea	773
Ga0116593_1086468	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → unclassified Cytophagales → Cytophagales bacterium	691
Ga0116593_1092705	Not Available	667
Ga0116593_1100950	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Mediterranean phage uvDeep-CGR1-KM17-C101	639
Ga0116593_1126094	All Organisms → cellular organisms → Bacteria → Thermotogae → Thermotogae → Thermotogales → Thermotogaceae → unclassified Thermotogaceae → Thermotogaceae bacterium	569
Ga0116593_1132065	All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → unclassified Nitrospiraceae → Nitrospiraceae bacterium	556

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0116593_1002274	Ga0116593_10022744	F006143	MQEENPIEEKKTPTTKFAEWLMARAEKKEAKETSLESLMKFNVFLSIATLVSVAGATVADYVLMAWLWI*
Ga0116593_1009501	Ga0116593_10095011	F104571	MIDTLKVFTDDFKISDNAGLFVQPATVNYETGETNEHNLFRKDNGKWVTGAKAYVNTGDYQLTIKPIISNGNRNGKVLLFLQTSLPKIIHGENFQALNNDETVQAIDAIAGDLQDRGVGVNLQDCKTSRIDVFRTAIADNPFSSYAPVFRLLSAKRSHTTDYGTTFTWANTQREICVYDKGTEMRNRGVKSSALPTNAIRFEYRLKTSRVCKNETGAGNVRQLVNNLDNLQDVYRQALENSIFSLDAKALATVTANELENGLRVYAKRYGGAFVNRFYRDFGAYALGRLTGVETVKSVLSSVLDDRYKLWRHSKLFDEYRMNFEMARGGLGDNTLKDFYLELK
Ga0116593_1024089	Ga0116593_10240891	F000613	MPLVKKRLSIAAGATSDQVLSGTTYEYVDPGTRIVVAAAVDTVGSATADTTMDFNVNNAEFSKNASVSALVTGEPFGWNGNYAMNDMVTTGQVRNRPVITFTNG
Ga0116593_1035692	Ga0116593_10356921	F021528	ELGTGSKVEYPLFQTPSHGNHYGSKAYLNADNWNLTLKPLAGGRATGAFLQLSVPKNYYGSNFYSVGEEGTKAVLSKVEGELKEKGVHTPLNEAYLSRVDTFKNIEPEEPFSSYYSLFSLLKARRAIQRGYGTTFLLSNSQQEFCVYDKLEEMRERKLETAGLPPTMRFEHRLLNKQKVQNIYGFGRVGEIFHGGYEVIREKQVESWKGSLFNFTAEELVLLGSKQLEQEMRRFKERSPSGWFSKFLKAYGAYYLASHAGKEVIVEALQNFEADRMKIWRAVQVFEEAERELMVLKQEEGSKKTLGSLYEELRRKVCLN*
Ga0116593_1040012	Ga0116593_10400121	F046098	MRIILILAAIVLLVVGILGLFPSIGWAAVPMWRAILEIVVGGLVLIIGIRTR*
Ga0116593_1064725	Ga0116593_10647251	F043481	MPLDIDLERGVRGFNIVRKECPNCNAELIFKIHKNEIHDVGGDGLFYPEENVVRCKVCMSTFKYKTKNTDETK*
Ga0116593_1066348	Ga0116593_10663481	F018557	MAEPKDGRPIFFPENLVTFGNLALFLWIVLDTVAFLLYDTNAGIAFFIVALIAIYGVLHFIGCLRPCYNCIKCTHGMGRLAALYFGKRILKDYKYSYKLPTAIIFTIFIGAFPASFALYSAIIDFTAIKVVVFAVLLAFTIFSGLTWRPKKRTLKAQTPITS*
Ga0116593_1067737	Ga0116593_10677371	F024682	MLLFSLTFGCGKKMTPEDELISKLKAEIGKSLPPMFSGMAENMLENNKAVIIKWLVDNKDLVKQIIDK*
Ga0116593_1069503	Ga0116593_10695032	F042655	MREFEVTIPQEYMNFINKEIKKPKRLNTELLELWLERELDIENPGSYGNLPTDEGHVTVQALPNGNYKLTISNVCFGMIKSHVQPEPHSRRKLTDEDILRCWLEIKIEEDETEHRIKVKELK*
Ga0116593_1086468	Ga0116593_10864681	F080201	LFCPNCKGIILYPEGLSGEKVCSICGLVIDETPVAQTFSQWAPEWHSNWNEEDSETTKEWLTYLRSVSCQLNLPNFPYREEAARIIRTKNRVLFRSQKLSKEKRITVAALIYLILKEYDKLRPIKEISEELSLDI
Ga0116593_1092705	Ga0116593_10927051	F078674	METLKKATENRKAPFEVEGKAGGRVISLRVTERMEQLLEEQAQEWDMSISDTLRGILNFYFLPPLLLEAWESKVEELVDLDTEQKGENRADLNVPTHAQRIEPVFCDSEEAEEYALFIGRLWDKNVKYWEILREEAQVAHRIAGEQLLQTAKALERIQAEMKKAKVEGWVEP*
Ga0116593_1100950	Ga0116593_11009502	F036974	MNDPFKLEFWDNFNDSLYFDYLMHQTMLKTYRITYKTYKGSDTSAPVSYAIKYVKGYNKEDAKAAFNLWKELIVKIELI*
Ga0116593_1126094	Ga0116593_11260942	F091590	MTDVSKAIYSGDWELFPCKGKVYIQDGKRPKIVLTDAEAVQVWQVLNAWIERNARVEVVGE*
Ga0116593_1132065	Ga0116593_11320651	F089113	MELLVIDFSKKHFDCGGRMFILKDSLSFARYREFQKFNLEFGYSASFHDTFKGLREAWELLNNVKLAEAAVVLHNIMYGVVGLEEKDDPSLRICALFIDEEGEDPTVFDEGKMREKIECWAKELDVSPFFQLAASLVPGWINAYKNVSRSGSEETVNEEPE