3300009406: Microbial communities from sediment of the River Tyne Estuary, UK ? Pasteurized_176d_1 SPAdes

Overview

Basic Information

• IMG/M Taxon OID: 3300009406
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118143 | Gp0128401 | Ga0116587
• Sample Name: Microbial communities from sediment of the River Tyne Estuary, UK ? Pasteurized_176d_1 SPAdes
• Sequencing Status: Permanent Draft
• Sequencing Center: University of Liverpool
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 195220738
• Sequencing Scaffolds: 11
• Novel Protein Genes: 12
• Associated Families: 12

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → unclassified viruses → Virus sp.	2
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	2
Not Available	4
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Archaea	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	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?
F000754	Metagenome / Metatranscriptome	906	Y
F001416	Metagenome / Metatranscriptome	699	Y
F003678	Metagenome / Metatranscriptome	474	Y
F021727	Metagenome	217	Y
F025348	Metagenome / Metatranscriptome	202	N
F030486	Metagenome / Metatranscriptome	185	Y
F032176	Metagenome / Metatranscriptome	180	Y
F048675	Metagenome	148	Y
F060461	Metagenome	133	Y
F088780	Metagenome	109	Y
F096823	Metagenome	104	N
F103182	Metagenome	101	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0116587_1004075	All Organisms → Viruses → unclassified viruses → Virus sp.	2512
Ga0116587_1004981	All Organisms → Viruses → unclassified viruses → Virus sp.	2221
Ga0116587_1017852	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	1116
Ga0116587_1022566	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	997
Ga0116587_1040003	Not Available	767
Ga0116587_1047965	All Organisms → cellular organisms → Bacteria → Proteobacteria	709
Ga0116587_1061072	All Organisms → cellular organisms → Archaea	641
Ga0116587_1064513	Not Available	626
Ga0116587_1069070	Not Available	608
Ga0116587_1077564	Not Available	578
Ga0116587_1091138	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	538

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0116587_1004075	Ga0116587_10040751	F000754	MDFNVNNAEFSKNASVSALVTGEPFGWNGNYVMNDMVSQGAVRNRPVITFTNGTAATRTVDVAVFIGG*
Ga0116587_1004075	Ga0116587_10040755	F001416	MPLVKKRLSIAAGATSDQVLSGTTYEYVDPGTRIVVAAAVDTVGSATADTTMDFNVNNAEFSKNASVSALVTGEPFGWNGNYVMND
Ga0116587_1004981	Ga0116587_10049811	F003678	MDQFMLYAPLIFATIALFLCLYACVRVGQFINASKGLDWDAVANITGDLATTKKTIQTLNNRLNGMHSPKLADQELMLQLMQRQPNQQMNGGIQHNNKNLGG*
Ga0116587_1017852	Ga0116587_10178521	F103182	MDYKEETKDHTKMTKEEVFKDYGNVLSGVKSRSKIKTRRPPKKLKQCYKCGRVGDEMTKHSLTGEHKPPFIWLCRQPCHDEVHKFGIKMTQEEKAALKRQPPCSIQFPTENNIANPYTKLIEPESLYEQKFKQSFKRINSENKET*
Ga0116587_1022566	Ga0116587_10225661	F060461	MNAKQFFRIEVSIGWGHLIRERKTLTKDEETVREARRTYRDGIKKAWDIYTQDNLMVKEAKKTLDSAIDEAYKLCLPEHGERMAQTEYEEATKLYFKTLYKVHRKFADTIGQICSVFIKDMETFRS
Ga0116587_1040003	Ga0116587_10400031	F030486	PCMQHNVRRYVALVRQLADGGACFCTRGAIQGYAVICLLSRWQKP*
Ga0116587_1047965	Ga0116587_10479651	F048675	MTARFTATLLRKALEKHMDRNEVLFTEPYAAAQSLKNDWTRLASTYGCIMVVLSRETLMIRPHWFAKWLISLLGLDLCHKIPITNIRGVTERGKWFSYGKIELHFVTTDGKNQRILLYMKKYQEFIGTAKNAMDK*
Ga0116587_1061072	Ga0116587_10610721	F088780	MNLIKKFTRGLTVVAMAPLCGLENKERNRRLEERLK
Ga0116587_1064513	Ga0116587_10645131	F096823	MKKALTFLMMTIMMVAVTTTISQTHKVYAENKAKDLCSQYDGEWNNGKCKIKNDEDKTDYEDELCDDPKDTKKYPKICKNN*
Ga0116587_1069070	Ga0116587_10690701	F021727	MPNLDRWVNQNENMITKTINKFENHLLSIKTKRQKMIHPNSHPTYNERHEKSIEIIDWTLEKYTAAINIKKNQQVIIDNIIEELDNKRDITINKKKKALVKDEVSIYRLEEN
Ga0116587_1077564	Ga0116587_10775641	F025348	SVGSVSRKWVGGTSMGNKERLKGILERQAAAAERERVDEEAASAKAEKVRSVRVEVIQKWQEQRAHLETYIAQINKETSKNDVQLFVVENPRHAHTGVGMEVDKMEVAFRQRTPHDKKLVISVRANGEAYVSISTSSVSQAKQYMLNVLEVTNEQLEATVLDFLDANTPR*
Ga0116587_1091138	Ga0116587_10911381	F032176	ANVKGMGGAEGLDGTINVTAISETYPKGIGKAHDQGIFTMANGEMCILKGSDLMKMAAGSNPTAVGLWKFMTMSEKLNWMNDLIALVVFEAKDPMWMESTVTIYEWK*