3300007907: Microbial communities from sediment of the River Tyne Estuary, UK ? Pasteurized_176d_3

Overview

Basic Information

• IMG/M Taxon OID: 3300007907
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118143 | Gp0131536 | Ga0111546
• Sample Name: Microbial communities from sediment of the River Tyne Estuary, UK ? Pasteurized_176d_3
• Sequencing Status: Permanent Draft
• Sequencing Center: University of Liverpool
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 41611655
• Sequencing Scaffolds: 19
• Novel Protein Genes: 23
• Associated Families: 17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	4
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	5
All Organisms → Viruses → Predicted Viral	2
All Organisms → Viruses → unclassified viruses → Virus sp.	2
All Organisms → Viruses	2
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Archaea	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylocystaceae → Methylocystis → unclassified Methylocystis → Methylocystis sp. MJC1	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae 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
F002192	Metagenome / Metatranscriptome	585	Y
F003678	Metagenome / Metatranscriptome	474	Y
F006143	Metagenome	380	Y
F009106	Metagenome / Metatranscriptome	323	Y
F013592	Metagenome	270	Y
F021528	Metagenome / Metatranscriptome	218	N
F024216	Metagenome / Metatranscriptome	207	Y
F025033	Metagenome	203	N
F043408	Metagenome	156	N
F051104	Metagenome / Metatranscriptome	144	Y
F059349	Metagenome / Metatranscriptome	134	Y
F088780	Metagenome	109	Y
F088833	Metagenome	109	N
F101860	Metagenome	102	N
F104571	Metagenome / Metatranscriptome	100	N
F106095	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0111546_101008	Not Available	2996
Ga0111546_101475	All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	2372
Ga0111546_101514	All Organisms → Viruses → Predicted Viral	2327
Ga0111546_101525	All Organisms → Viruses → unclassified viruses → Virus sp.	2317
Ga0111546_101528	All Organisms → Viruses → unclassified viruses → Virus sp.	2316
Ga0111546_101764	All Organisms → Viruses	2138
Ga0111546_101902	All Organisms → Viruses → Predicted Viral	2059
Ga0111546_102054	Not Available	1977
Ga0111546_102265	All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	1890
Ga0111546_102269	All Organisms → cellular organisms → Bacteria	1889
Ga0111546_102523	All Organisms → Viruses	1801
Ga0111546_102921	All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	1668
Ga0111546_103073	Not Available	1619
Ga0111546_104393	All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	1321
Ga0111546_104741	All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	1269
Ga0111546_105534	All Organisms → cellular organisms → Archaea	1166
Ga0111546_106888	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylocystaceae → Methylocystis → unclassified Methylocystis → Methylocystis sp. MJC1	1034
Ga0111546_107755	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	970
Ga0111546_122175	Not Available	514

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0111546_101008	Ga0111546_1010088	F006143	MSDEENPIEEKKTPTTKFAEWLMARAEKKEAKETSLESLMKFNVFLSIATLVSVAGAT
Ga0111546_101475	Ga0111546_1014753	F101860	MNDDVEKTLADPKHPIWKVMLGLVAVLSALWMNGSV*
Ga0111546_101514	Ga0111546_1015142	F104571	MIDTLKVFTDDFKISDNAGLFVQPATVNYETGETNEHNLFRKDNGKWVTGAKAYVNTGDYQLTIKPIISNGNRNGKVLLFLQTSLPKIIHGENFQALNNDETVQAIDAIAGDLQDRGVGVNLQDCKTSRIDVFRTAIADNPFSSYAPVFRLLSAKRSHTTDYGTTFTWANTQREICVYDKGTEMRNRGVKSSALPTNAIRFEYRLKTSRVCKNETGAGNVRQLVNNLDNLQDVYRQALENSIFSLDAKALATVTANELENGLRVYAKRYGGAFVNRFYRDFGAYALGRLTGVETVKSVLSSVLDDRYKLWRHSKLFDEYRMNFEMARGGLGDNTLKDFYLELKEKILPDNRCETGDLMTV
Ga0111546_101525	Ga0111546_1015252	F000613	MPLVKKRLSIAAGATSDQVLAGSTYEYVDPGTRLVVAAAVDTVGSATADTTMDFNVNNAEFSKNASVSAIVTGEPFGWNGNYVMNDMVTTGQVRNRPVITFTNGTSATRTVDVAVFIGG*
Ga0111546_101525	Ga0111546_1015253	F106095	MSFLSNLIKKAAPVVATVAPGTPIGEAARVVTVAQQQQERKYQKKLAIDAQAARQREINNMEFRDTDALNRTIYGNTGGTLPTVRQGFGSSFGTFLGDVGQNILNPLSGLFSQVRPFISQQSVGQPALSTRSTIGGQESQQSGVTQGFMGGFGNLAGQASRFLRTPGGQIGTGLLTGIGASMLSGGNGGMRITRKMKSQYRAVLNLAQGDYDQAAAMIGVSTDQFIAVLLKRFRNDGPVVTKAALRKTKTTVRRLKSMCDMYDSLRPTATRRKAPMRRASTTLISNK*
Ga0111546_101525	Ga0111546_1015254	F003678	MDQFMLYAPLIIASIALFLCLYACVRVGQFINASKGLDWDAVANITGDLATTKKTIQTLNNRLNGMHSPKLADQELMMQLMQRQPNQQMNGSIKNVGG*
Ga0111546_101528	Ga0111546_1015281	F059349	VVNMGQEFTIKSETVEAKINQLLPSQGGYGAGVDISASTMIVPIIDLTETASGSVLREDLQRSVSKTGSTFQARNSTASLS
Ga0111546_101528	Ga0111546_1015284	F002192	MYQFLLYSSIFVALLSFFMCLYACARVGGFINSTKGLDWDAIANITGDLATTKKTLQTLNNRLNGMHSPKQDEAHLMMQLLQSQNAKPNGTIKNVGG*
Ga0111546_101764	Ga0111546_1017643	F006143	VIIMEEELEQKKTPTTKFAEWLMARAEKKEEKETSLESLMKFNVFLSIATLVTVAGATVADYILMAWTWI*
Ga0111546_101902	Ga0111546_1019026	F006143	MTEEQNPIEEKKTPTTKFAEWLMARAEKKEAKETSLESLMKFNVFLSIATLVSVAGAT
Ga0111546_102054	Ga0111546_1020542	F009106	MKRTLRDAFDRWKDALIEQDKQITRAARHRAHARVTSMEDLIAETPADDIEGVGIKLALYVYMSGVDPETADSAVEQVLSAYKDCVRVLGRDPLAEVRSLMPACQEGV*
Ga0111546_102265	Ga0111546_1022653	F025033	MRGGIGMNRRIKRNRAVPIHITLAPGLLDEIDARLSHKMSRSNWIRGACEMKLDKDVTEVNELTDKQLVNILRNRHNYDGPAEAILKSLLEVLSE*
Ga0111546_102269	Ga0111546_1022691	F051104	LFELRIAEAIEEEAVLSQNLIEEGFNHAFKAGELLQEVKSMLSSEEELEQWLQENCSKVEKGVASSCLRLFNGETVKVEATLKREENHKR
Ga0111546_102269	Ga0111546_1022692	F021528	MIDTLKLMLNEYQITDDSEIRVQPASYELGTGSKVEYPLFQTPSHGSFYGSKAYLNAENWNLTLKPLPGGRATGAFLQLSVPKNYYGSNFYSVGEQGTQAVLSKVEGELKEKGVHTPLIEADMSRVDTFKNIEPEEPFSSYYTLFSLLKARRAIQRGYGTTFLLSNSQQEFCVYDKLEEMRERNIETGGLPPTMRFEHRLLNKQKIQNVYGMSKVGELFKGGYEVVKEKQVESWKASLFNFTTEEFVLLGSKQLEQEMKKFKEKFPTGWFSRFLKAYGAYYLASHAGKEVVIEALKNAEAERTMIWRAVQIFEEAERELLVLKQEEGSKKTLGALYEELRRKVCLN*
Ga0111546_102523	Ga0111546_1025234	F025033	MNRRIKRNRAVPIHITLAPSLLDEIDSRLSHKMSRSNWIRGACEMKLDKDVTEVSDLTSKQLVNILRNRIDYDGPAESILKSLLEVLSE*
Ga0111546_102921	Ga0111546_1029212	F101860	MNDDVEKTLADPKHPIYKICLGLIALLSALWINSN*
Ga0111546_103073	Ga0111546_1030733	F043408	MKVRKEVSLTVETAQIANKMNNFSQWVRIGLRQYQHGEDVASETMRRMRWAKAAHMLASTLLEHALEIDPDYKGDVQTIIAKAMNQTTLEEFE*
Ga0111546_104393	Ga0111546_1043932	F025033	MDLDMRDLLLWHSFGRGGTMNRRIKRNRAVPIHITLAPTLLDEIDAQLSHKMSRSNWIRGACEMKLDKDVTEVNDLTDKQLVNILRNRHSYDGPAEAILKSLLEVLSE*
Ga0111546_104741	Ga0111546_1047413	F025033	MNRRIKRNRSVPIHITLPPALLDDIDAQLSHKMSRSNWIRGACDLKLGKDVTEVADLTDIQLVNVLRNRFNYEGPGEAILKSLLEIL
Ga0111546_105534	Ga0111546_1055342	F088780	MNLIKKFTWGLTVVAMAPLCGLENKERNRRLEDRLKRIENRDLA*
Ga0111546_106888	Ga0111546_1068882	F024216	MAEKTFPATVHVYFDNVNSESYQTFLAYCDRLEYKYDVEMGKSIDVRRSMKPRIVTGEPRIITDEME*
Ga0111546_107755	Ga0111546_1077552	F013592	MLIDMALAPELIWLEEVLFEDSVIPLSTLAKFHPIIRIPVIAYQAADIVGTELAIRTIEAGGVGALDIFTPEIRRYEDTALVGLGGRII*
Ga0111546_122175	Ga0111546_1221751	F088833	LESLMKFNVFLSIATLVSVAGATVADYVLMAWLWV*