3300009304: Microbial communities from sediment of the River Tyne Estuary, UK ? Pasteurized_176d_2 SPAdes

Overview

Basic Information

• IMG/M Taxon OID: 3300009304
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118143 | Gp0131534 | Ga0116588
• Sample Name: Microbial communities from sediment of the River Tyne Estuary, UK ? Pasteurized_176d_2 SPAdes
• Sequencing Status: Permanent Draft
• Sequencing Center: University of Liverpool
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 359547264
• Sequencing Scaffolds: 33
• Novel Protein Genes: 36
• Associated Families: 34

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	2
All Organisms → Viruses → Predicted Viral	1
Not Available	17
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	4
All Organisms → cellular organisms → Archaea	2
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → unclassified Nitrososphaera → Nitrososphaera sp. AFS	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → unclassified Cytophagales → Cytophagales bacterium	1
All Organisms → Viruses	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula → Methanoregula boonei	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?
F002896	Metagenome / Metatranscriptome	522	N
F008247	Metagenome / Metatranscriptome	336	Y
F009657	Metagenome / Metatranscriptome	315	Y
F013592	Metagenome	270	Y
F025033	Metagenome	203	N
F026017	Metagenome / Metatranscriptome	199	Y
F029499	Metagenome / Metatranscriptome	188	Y
F030440	Metagenome / Metatranscriptome	185	N
F036103	Metagenome / Metatranscriptome	170	Y
F039273	Metagenome / Metatranscriptome	164	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0116588_1005533	All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	2975
Ga0116588_1008598	All Organisms → Viruses → Predicted Viral	2284
Ga0116588_1009995	Not Available	2096
Ga0116588_1011783	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	1918
Ga0116588_1012205	Not Available	1881
Ga0116588_1023244	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	1351
Ga0116588_1026463	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	1267
Ga0116588_1027218	Not Available	1249
Ga0116588_1033383	All Organisms → cellular organisms → Archaea	1132
Ga0116588_1037813	All Organisms → cellular organisms → Bacteria	1068

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0116588_1005533	Ga0116588_10055333	F044219	MAKAVTREFEIFIETVADTGADNTALDMMDYVDIADNQAFEIHEVSLVLDPTEAFPAADVEARFQLADANITTFVSHADRASLYVARQTFDSATLGMFHQESFSSITPLIVSKTLFLRNVCSTGTLDYTLRLKGRIVTPSAKDYMALVLTQTGNLA*
Ga0116588_1008598	Ga0116588_10085983	F013592	MRIDMLTPELVWLEEVLFEESAVPLRVLSQFHPLVRIPVIAYQAADIVATELAIRTIEAGGVGALDIFTPEIRRYEETALVGMGGMII*
Ga0116588_1009995	Ga0116588_10099954	F030440	YDIYTLIGCNLLSFGLFAYARVRLGKLEHALRDLDWEALAGLVGDVAVLKRTIQKLNMRLNGMETADPMAALAKLPQLQQNVTPMAAVKKRGG*
Ga0116588_1011783	Ga0116588_10117831	F103182	QSKSKTKTRRPPKKLQQCVKCGRVGDAMTKHSLTGEHKPPFVWLCRQPCHDEVHKFGLKMTKEEKAALKRQPQCTIQFPPEVDIANPYTKLIEPESLGGKFKQSFKRIDSKNEEQN*
Ga0116588_1012205	Ga0116588_10122053	F049307	MMLTPDEYMSLMRLISSERESEGSSLADRDETPSPPVKKRSRSARRADKMLSMAFKQANARYRKKDGSLRAGRTQADIARLAHKLRKKM*
Ga0116588_1012205	Ga0116588_10122054	F025033	VFLKMNRRIKRNRAVPIHITLAPGLLDEIDARLSHKMSRSNWIRGACEMKLDKDVTEVNDLTDKQLVNILRNRHSYDGPAEAILKSLLEVLSE*
Ga0116588_1023244	Ga0116588_10232441	F067249	LKPGVVPNLKSYLPDNVKIVIDVKNNSAGCKELKNGKREDPNKAQRLRFNELEALTNVKNYAVVVLSETLLPPKGPFKWRFKEEAIGKQNCKVFTLVARQVYPSGGLYLKANIEKMLQNAQMKKTEEFEKLIKYLQNI*
Ga0116588_1026463	Ga0116588_10264631	F060461	AKQFFRSEGSIGWGHLMRERKTLTKDEETVREARRTYRDGIKKAWDIYTQDNLMVKEAKKTLDSAIDEAYKLCLPEHGERMAQTEYEEATKLYFKTLYKVHRKFADTIGQIWSVFIKDMETFRSPI*
Ga0116588_1027218	Ga0116588_10272181	F080568	PDSAHWTTLSDAIVTAEKAALVNVNTIVQTIGYAAGSEVPVFTKTYSTAGTYAPGSGTQAPGDCAAVVRYATAARTSKNHPVYLFNYYHAPWMTPGTPDTLLAGNVTVLNTYAAIWIGAGFSDGATSYNRAGPNGATATGVLIEPLISHRDLPR*
Ga0116588_1033383	Ga0116588_10333831	F002896	MGKMNEDTILHFYRILENSLPESDISKINEEDIDAWSQSFKKVVRESREKSGKGVFVPFLMWKLGEISPVEASKYLVDRKQDECRVSYDHNNVEYILWVMALMFMSWSVTNLKRKTQNGHCQNIDHPHGDTNPRLCKEGTIFHQELYNECVKTFKDLLIHSDAQHH*
Ga0116588_1037813	Ga0116588_10378132	F047488	ETGIYLLDLILDSKINPILLSSFVGALSMFGGENMGKIEEIVIKGLDIQMIIVNKYDIVLIAILDKKVIREDIHAEAEKALDIFYSVYKDEIGDYVELSIFEPFKKALYTQIEDFYNKITENSDIGDFGFFTQAIAKLRNGSR*
Ga0116588_1037948	Ga0116588_10379482	F013592	MMRIDMSLAPELVWLEEVLFEDSVVPLTTLAKFHPLVRIPVIAYQAADIVATELATYTLQEGVVGALNLYTPEIRRYEETALVGMGGMRI*
Ga0116588_1051209	Ga0116588_10512091	F085444	GFSVYENITHKVAIQYPSRWNKNEILNNDFTAVVMFLVPIKPSFSSRENSEIMLQKIRDMVYNEVSTTVVITVKRIPVHKTSHTLQDITNDQIHLLDICFDNVSLLEHSYDRKMREIQTSKLIYTYTDPLENHINKKGMKIIFEEAHKEIILTYCSRNQDFDKFLSVVDRMVDTFRIVEQL*
Ga0116588_1057278	Ga0116588_10572781	F102380	MSSEVLLSNIIPFAGSGLVGYAIGFALKKILKWILIIVGFLCGMFFLGVELLQKYAYV
Ga0116588_1070987	Ga0116588_10709872	F029499	MNDYDAVVMGVLEPILVLSVMAVIAFLVRNNLCC*
Ga0116588_1070987	Ga0116588_10709873	F026017	VDMKKSLAIVLATIALTFGAMLSFTSVGVAAQTFGNLSGKSSGVSSVQIQAPLPSPPGPGPYRGNR*
Ga0116588_1072011	Ga0116588_10720112	F105258	FFNVFFSLVIDENSLTESGRRLMARMLTRPCTITPVDFTIPTVLREISENALLVIDNRKLEHLVTAVEAAVNGGYVKRFGVILLLDSSVAADNRELLRFNVRMRALWRAGIVVIKPWNVFLARTQRDNFRTCDIDLIAARIEQGMKKLPNMFNHPMARLVGVQRVSMGIPLPNRLDWLKLECHN*
Ga0116588_1074964	Ga0116588_10749641	F080201	LKCRKCEGAIVYPEGLSGEKICSKCGLVIDEAPTFKSYTQWNPEWYSNWNEQDSETLKEWLTTLRALSCQLNIPNFPYREEAARTIRTHNKVLFRSQKLTKNKRATLAALMHLILKEYDKMRPIKEISKELSLDNKLVMKQIWIIGKTLNGKKGQLKIQRKTALDYLHENSGKITQNTDLIHSAENTLKKIKRSSGNPIGLAAGAFYNACKEK
Ga0116588_1088028	Ga0116588_10880281	F009657	MKEYEILQDTGSCRKLVAEINRMAKEGWQVKPIGASVSVVYVLIEREISKPATM*
Ga0116588_1091477	Ga0116588_10914771	F105437	PTQLAKRINDLSEKLKPVASEGIRLDFESFTQPEKLILLKNFELQEKYGSMWPCEVITANKELIVKANEIAAKRVTELFLFAMPRAFMLDEVEQWFFKFHFNSFLERWIECQKNVKKWSQKNREDFLRDIKGNPKADKKNKPEVKFDGEENHN*
Ga0116588_1110584	Ga0116588_11105841	F106103	HFWHDIDDKIQDLIQLIRSRHTRFNGTPVEKVIVRLVDAYRASGQVADAIDKGWLK*
Ga0116588_1111523	Ga0116588_11115231	F085971	MDKMLIRLEQSFIESAEKLNDRFSEQDMEEVSEAIEANYEKIRLIMLEQEKSKDKSKPTLLELGNIGSRFFGFNIYYNDDVDDVPISIRELIPTISPVRLDLMATTKTTKSADPNSTYLKAAQVYDDGSIKAK
Ga0116588_1118346	Ga0116588_11183461	F039273	MLENLGIGRSLRGKRDLRGKKVVFVDDGSNPYRTMCFTIAAKLVKKRGAEVETIAPGPDEVPHAKVVEGTPQPKSRIQRPLNRH*
Ga0116588_1130803	Ga0116588_11308031	F077757	MDHNSCNPTILLITGILVSSIFSLIDSYSQDSEMSVIVKLINADKFLAQTWDVNAQLRDKSTDSEISQDQTTFTVSENQTVQLIIPLSNSTKDLNRYSIFVDASSTIDDIDVFGTIDSLRKENNQITLNLTDAR*
Ga0116588_1137777	Ga0116588_11377772	F058780	MFNNFNGVNASNDILPKQFLNYIDYELSCFEKITNKKFFFNLLKNDKLELNVYESKEDNNKSKYQIIYRANNLYQFIKRLLMIREYLI
Ga0116588_1138507	Ga0116588_11385071	F008247	MITMATKKTSMFTLTERVSISAATTDTFATIDLGSYVDVGDRQALQVHSVDFIFQGTTAGEAIWSTFGGAAQASIQVTDLNRGGLVFSNDRALVASGILNFDNDAYLQNATDLYPDNYGKGSDDGRFVVNDQLYITGL
Ga0116588_1139140	Ga0116588_11391401	F040945	IYQTRKPIVRQQYSEVQDIDQISYRSLTHNTRIGDRYIPIVARIIPGIALPLLMGRDFRDDHAESPAQQKQVNELNHPRIYFFKREKTSKPRLTLKQLERIHRDGNHPDFTEMTQECTRLGHKVDKAVELKVSRVIQECQLCLNKNRLFSHGQGQKYNTSFNTDIMVRRERVIEDDYYTHLFTVECIDTGYTVAKYINQ
Ga0116588_1144690	Ga0116588_11446902	F083429	GKAFKKKTSGGKFRKGTMIQYKYVNGRRVGAVKARK*
Ga0116588_1149764	Ga0116588_11497641	F068505	MKAILKIRNRGKRGYDISSIPNKKLEKMNQYRKKRWKIENGFLLL
Ga0116588_1153054	Ga0116588_11530542	F036103	MEKRKMKLQKNQIRILGVASCLIGAFLMAFGEQIIVVYHTEVARVIGILGIGLITTGNKTSLVGKKKEVL*
Ga0116588_1162335	Ga0116588_11623351	F059923	RKKKMRKDTSEIDFVSDIDEFIRLAKRWNTFHKRLLNTLARLPEDVYQFTLQKISFHAGQSQTIQVKEIKKPYMIILKRTDSESLIAHEIAHAYLNYTKTKNNSNDQEAEADELRKKWGFKKKQLCQTFPKGCLNCFNPHCSESKSRNFR*
Ga0116588_1174562	Ga0116588_11745621	F102380	MSSEPLLSSIIPFAGSGLLGYAMGFALKKILKWMLIIVGFLAGMFF
Ga0116588_1178798	Ga0116588_11787982	F102576	MNDLLMLEKYFPGGTLEGGIELANRLDWGLIVKMAGDSYVVSSGDAPIIRMDHKDAVQSFLYGLGLAYAVLPEHLFKSLEKALKEL*
Ga0116588_1179992	Ga0116588_11799922	F039704	TDMFIAVLLKRFRNDGPVVTKAALRKTKTTVRRLKSMCDMYDSLRPTATRRKAPMRRASTTLISNK*
Ga0116588_1182617	Ga0116588_11826171	F089951	MMMHEHGMQPGMQQKDSVMMEMWENLTEDQKKTLMKRMLDSKIMMKEGMIQHFQFKIETMKMTKTMLDQC*
Ga0116588_1186701	Ga0116588_11867011	F083187	GNLIQPMIPEFVKGNEHEKPNRGQAALKILAEHIAQQLKERGFCVVFEGDLERCWPSGGMSQAERERKIRDFAESQGSTVEILEAGFATRAIFQKSEPGIDAASITVSGPEMSSQ*