3300020232: Deep-sea sediment microbial communities from the Mariana Trench, Pacific Ocean - CR05

Overview

Basic Information

• IMG/M Taxon OID: 3300020232
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0130461 | Gp0235166 | Ga0212226
• Sample Name: Deep-sea sediment microbial communities from the Mariana Trench, Pacific Ocean - CR05
• Sequencing Status: Permanent Draft
• Sequencing Center: JGI facility at Oak Ridge National Laboratory
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 187207005
• Sequencing Scaffolds: 28
• Novel Protein Genes: 28
• Associated Families: 21

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	2
All Organisms → cellular organisms → Bacteria → Proteobacteria	6
All Organisms → cellular organisms → Bacteria	7
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales → Woeseiaceae → environmental samples → uncultured Woeseiaceae bacterium	2
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Vibrionales → Vibrionaceae	1
All Organisms → cellular organisms → Bacteria → Nitrospirae	1
All Organisms → cellular organisms → Archaea	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia	1
Not Available	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Deep-Sea Sediment Microbial Communities From The Pacific Ocean Trenches
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Oceanic → Sediment → Sediment → Deep-Sea Sediment Microbial Communities From The Pacific Ocean Trenches

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): marine benthic biome → marine benthic feature → deep marine sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Sediment (saline)

Location Information

• Location: Mariana Trench, Pacific Ocean
• Coordinates
  • Lat. (^o): 11.54708
  • Long. (^o): 144.55847
  • Alt. (m): N/A
  • Depth (m): 7942

Associated Families

Family	Category	Number of Sequences	3D Structure?
F013096	Metagenome / Metatranscriptome	274	Y
F025141	Metagenome / Metatranscriptome	203	Y
F025751	Metagenome	200	Y
F034209	Metagenome / Metatranscriptome	175	Y
F035454	Metagenome	172	Y
F035771	Metagenome / Metatranscriptome	171	Y
F048324	Metagenome	148	Y
F062779	Metagenome	130	Y
F071263	Metagenome	122	Y
F074900	Metagenome	119	Y
F077325	Metagenome	117	Y
F078729	Metagenome / Metatranscriptome	116	Y
F087249	Metagenome / Metatranscriptome	110	Y
F087396	Metagenome / Metatranscriptome	110	Y
F092086	Metagenome	107	Y
F093891	Metagenome / Metatranscriptome	106	Y
F093897	Metagenome	106	Y
F093968	Metagenome	106	Y
F101197	Metagenome	102	Y
F102416	Metagenome	101	N
F105207	Metagenome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0212226_104420	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	9935
Ga0212226_105492	All Organisms → cellular organisms → Bacteria → Proteobacteria	1877
Ga0212226_107557	All Organisms → cellular organisms → Bacteria → Proteobacteria	4201
Ga0212226_108912	All Organisms → cellular organisms → Bacteria	1309
Ga0212226_109515	All Organisms → cellular organisms → Bacteria → Proteobacteria	1551
Ga0212226_113188	All Organisms → cellular organisms → Bacteria → Proteobacteria	2789
Ga0212226_120374	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales → Woeseiaceae → environmental samples → uncultured Woeseiaceae bacterium	1263
Ga0212226_122098	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus	1992
Ga0212226_122597	All Organisms → cellular organisms → Bacteria	3148
Ga0212226_123633	All Organisms → cellular organisms → Bacteria	3252
Ga0212226_129082	All Organisms → cellular organisms → Bacteria	2530
Ga0212226_129087	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	21374
Ga0212226_142675	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	6306
Ga0212226_142807	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Vibrionales → Vibrionaceae	1536
Ga0212226_143474	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus	22439
Ga0212226_146454	All Organisms → cellular organisms → Bacteria → Proteobacteria	1455
Ga0212226_148356	All Organisms → cellular organisms → Bacteria → Nitrospirae	1885
Ga0212226_150414	All Organisms → cellular organisms → Archaea	2077
Ga0212226_162362	All Organisms → cellular organisms → Bacteria → Proteobacteria	1371
Ga0212226_172147	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales	3966
Ga0212226_175590	All Organisms → cellular organisms → Bacteria	2045
Ga0212226_177074	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales → Woeseiaceae → environmental samples → uncultured Woeseiaceae bacterium	1326
Ga0212226_177345	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia	2664
Ga0212226_177572	Not Available	3162
Ga0212226_177581	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae	6136
Ga0212226_181061	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium	1158
Ga0212226_181495	All Organisms → cellular organisms → Bacteria	1916
Ga0212226_186441	All Organisms → cellular organisms → Bacteria	1159

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0212226_104420	Ga0212226_1044202	F077325	MSRKGNWTETDEATIKAIVVNMINQKQMFRDLGETGELHDSFDVKNHREYVLGLFTGIVINLFANYWVSEHEAGLLPEDLAYLYHKIALFHDMIIEGLFE
Ga0212226_105492	Ga0212226_1054923	F093968	MTHRDGFPRLSARSAWRGDARHRKPCAPSKSIGPSESLGKPPFT
Ga0212226_107557	Ga0212226_1075574	F105207	MLLGKGHKFLENGRYQEALEKALKAKSLKLEEQFEWLCHSIEGKSRYHLGDKEKALPSLRRAQEILASKLEKEKESKPLRNIMNDITRYIEKIEHGDT
Ga0212226_108912	Ga0212226_1089122	F093891	LSMNCIGTKFLRFGIAGTALLAAVAVYCLARIYPPELLSPFQATDPLLAEQTALFGSAPSLFYIFAIGLFVGTFASSRASAKRHCLNWLGIALLLEISQHPIIAIPLASWLADTLFVSTWEIIGPYWNSGVFDPRDIIATVVGGLAALAILSYFSTGYGDEHL
Ga0212226_109515	Ga0212226_1095153	F074900	MAAKIVNLINPDEDETLCATVEEATETLAAMVEKFKSQGFRVDEQHLADDEYPQYAVYDRSDTWIGTYTINLQ
Ga0212226_113188	Ga0212226_1131883	F087249	MQDTDEPTTQGIRARMEAYITAASESTEIDSTDFGAIDEIATKFLDSLTPREMGFLMYDDPQPLSLQEVDSDIKEKYRAKYGTKNLKRGQFFRLKSGTITFFTHEHNLKFKVDN
Ga0212226_120374	Ga0212226_1203743	F025751	RPMDSDTKTWNRLYVLLAQDDWDQTVYIYRVDRSGRTIKPFLAKWAMHSDLIEHIRDDFGAGEYHLMIRQGKTMLFTGTIGIGPRPGEPWPDV
Ga0212226_122098	Ga0212226_1220981	F013096	MTVIEVVTGGDSAVGLSTLSHTNAVALYVPDASGIQDNAGLNDCPAVNEPVIHASETVTPLLSWTCTKYA
Ga0212226_122597	Ga0212226_1225972	F034209	MSVDLRELTDHDHSDECPVCRAQNIVQSALLPAASAWEANDELPRFSVALQGAAELLGVMLEEGISREDIESVLGRLLDDIELRTAEDKALGGPPMGSA
Ga0212226_123633	Ga0212226_1236331	F048324	MKKYIFAVLMLSLASACEPQPTSVADIDFETLEGMQAECAKRAASAAMESFSDDTEWTDLLSVEGAAEAVAAITDATQLELQSCITDIYLMGIEDGRVLERDVY
Ga0212226_129082	Ga0212226_1290822	F078729	MNETRQLLKIFGVAVTDFEAEAQKLEANAAQLTADGSKEEFAKLLKESSELCAELNTRWLEVTQRIFQRQNRLQHSCADAATRLGSTNLATEIESARMEAGE
Ga0212226_129087	Ga0212226_1290871	F102416	MGEVATTGEISMGENDWGMISKNPPMYESGVNNAAIEVTDTKNKLHKITFKKGGVLNLGREGDTLYLAWDDADTV
Ga0212226_142675	Ga0212226_1426758	F092086	MYNVTSRWEETKVNRYILLLLTAMVLSACSGADDVLENIGDVSVPDQLTGCVERNKDGETCDKAACVADDESDCKSWVKACEKFDHIADVRNGIDTCERKEVLPES
Ga0212226_142807	Ga0212226_1428073	F071263	MDRIRDLCDLARDVNESLESLIRFGASGELTIYVSAHGWSARSKDGTEDTLWDPVFLLAEDLHQSLNAEVTRVTQVRRQSDDEVVTLDEPVDVARGVHFVTQEEAERFSRKHALTLKSSSETPSYLNRNHDFYSTELATAVKAWMALFADGSFEPEGKTIRQRIELWLTAQRLGLKEHAEQRIASLVNPDTAKGGGAARTPNK
Ga0212226_143474	Ga0212226_14347418	F093897	MGIAIIGLVVGFVLLYDIQQEKEVQNVWIQKIPTQCNDVWGKEFNEFYEINPELRDATKEESKEFVEGIIKNHYEKQGIGILDLSLELNVYEEVRCEACNCLGWDRLSIKIPENELELISESEGWEPKG
Ga0212226_146454	Ga0212226_1464543	F062779	MIPAERKPTLQRIIWNSFTAANIMPLITDSEMDDFDAAILNAGFDVDDFHVVDLEDEPTAKEQHPITGTVTVHRISTDHAITYRAGHGSTWVADFLVDFYTGEYGRP
Ga0212226_148356	Ga0212226_1483562	F035771	MMTGMVDGNVEKSRQRRSRPFAVLTYYEYAPRVKRAAALLDGLF
Ga0212226_150414	Ga0212226_1504142	F025141	MIQCEYCPKGFIETVNGLAEKTFHELLHEPRVVNK
Ga0212226_162362	Ga0212226_1623622	F035454	MSKSARQTDRVDVIGKAIAKADGGRFASDRARYRRLAVAAIRPLAKPTEAMVDAAHEAVWFDAYWAINSRRDFIWAVKAMIGEATRGVPD
Ga0212226_172147	Ga0212226_17214710	F093968	MTRRAGLPRFSALSVRRGDAGHREGCATPSASLGKPPV
Ga0212226_175590	Ga0212226_1755903	F035771	MKKELPQGNVEKSRQRRSRPFALLTYYEYAPRAKRAAALLDELF
Ga0212226_177074	Ga0212226_1770742	F025751	MDSDTKTWNRLYVLLAQDDWDQTVYIYRVDSSGRTIKPFLAKWAMHSDLIAHIRDDFGAGEYHLMIRQGKTMLFTGTIGIECPLRR
Ga0212226_177345	Ga0212226_1773453	F087396	VDESPSVDTSPAMWEHLTLHLDGFVLDERALVNSPILPYVRMVASLIERRTISREELIAALRNSMRQRSIGRLPRREYVLRYLNQHPP
Ga0212226_177572	Ga0212226_1775725	F101197	MVPITFARGTARAVVLASLATVASCQGVVSRSRVLEFLETVQSPFDFHDRTWLGIPVALLAHFFVSASFAGVLARLWRPRAAGVLLAILILSKEAVDLTIIALYQPVTWDYASGSVVDVLVSVAGAYLGLWVGTRGRQRLIEHD
Ga0212226_177581	Ga0212226_1775811	F093968	MTHRDGFPRFSVRSACRGDARHRKPRATPSESLGEPPFRSGG
Ga0212226_181061	Ga0212226_1810612	F034209	MSVDLKELIDHDHSDECPVCRAQDIVQSALLPAASAWEANDELPRFSVALQGAAELLGVMLEEGISREDIESALGQLLDDIELRIAEDKALGGPTMGSA
Ga0212226_181495	Ga0212226_1814951	F092086	MTASTESGHSIFGTADRLENGVTPSLMYNTASRLEKAKVNKYILFLLTAMVLTACSGADDVLENIGDVSVPDQLTGCVKRNEDGETCDKAACVADVESDCKSWVKACEKFGHVADVRIGIDTCERKEVSPDS
Ga0212226_186441	Ga0212226_1864413	F025751	MDSETRKWERFFRILEQDDWEQTVYVYQVESSGRKITPFLAKWGMHAGLLDSLRDEFGSGEYHLMIRQGKTMLFTGTIGVEGPLRR