3300004550: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 111_LOW13 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300004550
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114290 | Gp0111227 | Ga0066563
• Sample Name: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 111_LOW13 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 46354259
• Sequencing Scaffolds: 13
• Novel Protein Genes: 15
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	8
All Organisms → cellular organisms → Eukaryota → Amoebozoa → Discosea → Flabellinia → Vannellidae → Vannella → Vannella robusta	2
All Organisms → cellular organisms → Eukaryota → Amoebozoa → Discosea	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → Streptomyces viridosporus	1
All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater lake biome → freshwater lake → lake sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Sediment (non-saline)

Location Information

• Location: USA: Lake Washington, Seattle, Washington
• Coordinates
  • Lat. (^o): 48.3807
  • Long. (^o): -122.1599
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000187	Metagenome / Metatranscriptome	1693	Y
F004916	Metagenome / Metatranscriptome	418	Y
F013276	Metagenome / Metatranscriptome	272	Y
F015326	Metagenome / Metatranscriptome	255	Y
F017100	Metagenome / Metatranscriptome	242	Y
F018507	Metagenome / Metatranscriptome	234	Y
F033285	Metagenome / Metatranscriptome	177	Y
F034481	Metagenome / Metatranscriptome	174	Y
F035599	Metagenome / Metatranscriptome	171	Y
F039919	Metagenome / Metatranscriptome	162	Y
F048724	Metagenome / Metatranscriptome	147	Y
F049318	Metagenome / Metatranscriptome	146	Y
F052341	Metagenome / Metatranscriptome	142	Y
F063223	Metagenome / Metatranscriptome	129	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0066563_126983	Not Available	906
Ga0066563_142810	All Organisms → cellular organisms → Eukaryota → Amoebozoa → Discosea → Flabellinia → Vannellidae → Vannella → Vannella robusta	518
Ga0066563_149105	Not Available	653
Ga0066563_154046	All Organisms → cellular organisms → Eukaryota → Amoebozoa → Discosea	548
Ga0066563_154094	Not Available	581
Ga0066563_160534	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → Streptomyces viridosporus	574
Ga0066563_161876	Not Available	703
Ga0066563_163019	Not Available	683
Ga0066563_167314	Not Available	1656
Ga0066563_169288	All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii	782
Ga0066563_170225	Not Available	705
Ga0066563_179043	All Organisms → cellular organisms → Eukaryota → Amoebozoa → Discosea → Flabellinia → Vannellidae → Vannella → Vannella robusta	505
Ga0066563_187111	Not Available	660

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066563_126983	Ga0066563_1269831	F034481	LLSILSFVSFLVVLAAANHGANEVGEQVVNPADWHGSWTALNRYQGQTYTCPVGNTLYGIYSNAGFFYGTINDRTVEGVWFEGGRGDRNYYQGSFKLTISDDNQEFDGYFNRLTTGEEFRWHESRLGAPYPSNPTLEDCFAPDDSVENVLGSFYRSTETGALAGSTFICKDYWEQIYGSFHSPDGYIAGWSVDDATGFHGYRYDATGQSGAYILRALTRDRLKGFYWRGILATQNQSTTKYEAFNRSAFTAKLDQCEQVGPGFVERLHGPDYVPYYLVNSSSVVSFSYLTFLVVALTALL
Ga0066563_142810	Ga0066563_1428101	F013276	VRVMKVLLVLALFVTLSLCQIQLLSPSGRGFSEFYSHYAPCGQGSTQVGSAIQWEHGTIHQIEVQVIGAGGGGVLFDRYSCVLNGDDANNLGPVYSIEGALKVAIPDSDFQIYDLYVQAPGFHCVGQATMQLVYATYNGQEYYQCQDLTITNTPTGAASSVAVNVLLVIFVA
Ga0066563_149105	Ga0066563_1491051	F035599	DMSFPFSQPLFDVLCNLQKKGVSNQRLDVYFKFLGASSYLKTVAGTIVNDKDPGNVSMLESLISLSLPTQMTVESFQNYLGLFGMSYRIPNMNEFLPEALFVFEDLDASYFNNDGASKSSLSVAAGTGVNSGQFQVSLKVQTGDITVMRCIIAPNTQKILVSKHVGFIAQYDPDIQKGFINFHILARACKFAQK*
Ga0066563_154046	Ga0066563_1540461	F015326	MEKCYCDWGEHGGDWCMCLGFFSGNMECCEPCCGKPCNTNDGVYCCLSWFPGCCFAGPKCLAASQNQECAFVNHGVPFLLLLIFLIPIIGILGYVVLWAIETAIRFNLRKQHGIGDTSKWDICDCCGIWFIVPGPCFACQEIRGVPKDYWDWYKAFNDKKFPAETQLEPCYTLMCVE
Ga0066563_154094	Ga0066563_1540941	F033285	KLSLFVIFAVFVCIAAAELTKCPKVHASIQNSKVSASWEGFIPFDVISFEWGVESMKNGELQANNCKESPFFAGKTDVLDWTYVRKSTQVQSQYLELKAGEQYQVVLRITSRGGKQYWVASAPLVAPEVVPTETKTVSRKEKRNGACPTCTQNQPCANCPIDVANRVRAYQETVAQKLNKIYGPALFLLNADS
Ga0066563_160534	Ga0066563_1605341	F017100	VINGITAVGVRDNFLSLKWDPVEGANSYAIYKEVRDVWDMQTIAEACKETLGALRPGNKYLIRIIAIDSSGARVGVIGPAEFLTTGPLDSRQFPFNQDKLDKNWVEVLSNYAEPAAKADPYSGANVCPFGVSCTMIDNYAHCVEYNHPRPLKCPNGEGCMLTSNKLHGVQFSH*
Ga0066563_161876	Ga0066563_1618761	F039919	SATMKGEFLVLVIILSVFFSPALLQCPVQVDEIYNGCFCFFEWNDANRVGNWTFEENWLQLVEPPWVGFVSVAGDNTVHVEHDRRINELYVGPNRWDTTRLVIDEDLTIVYDDVPVISAVRGYRLTNGQIRLTIQGKGFGFVSSEIVVTATEVVDNFPEYDNSYGNQIVNVYNCEHVTLGYRDALIQCNVAPIDNQILANDFSVTVAANGYVSDPALMELYLQ*
Ga0066563_163019	Ga0066563_1630191	F052341	QIMFGGKARVIMMICMISFFLIQESIQVQCPKDNSQDRIYPGCNCFFEWNDANRVGNWTFEENWMQLNVPSYVGFISIAGDNTIHLDQEELVNEIYIGPNRWDTTRVILDQDLTVEYDDYPVISTLRGYRQPTGQIRLVIQGKGFGFVSEDLVVTATQVVDNFPDNNVDNQITQVFNCEYATLVYRDAQIECNIFTASLYPFALSVTVAANGYVSDPAYISTYLQ*
Ga0066563_167314	Ga0066563_1673142	F063223	MIQDARAAREEEKKKLAAENASLGMFSSSQDDNYEDEITQLKRVSARMNRLHEQIEAPHPGDSFEGSIARKKYFLKIYAELKNEVTQIVESYALRTGNSIFSMFGDGKIDPSIAAFLPPNSVAGILAKYTNPTLERDDETPRDVISGKDAKRIQYSIDYYNAKAGGTKLPMPPKFAPTDEEIAAERKHNDIRLNKVVATQEGEFGQNRPAVTMGDQAIGRSSVHVSIVNPTETQAARGVPVQVNLKAKRKLS*
Ga0066563_169288	Ga0066563_1692881	F004916	NNPSLAMKSTYVLLAFVAMIALSFVAASELEAPAACHPTCRWQCDDPQCPAQCHPVCERPKCQVHCEETPCAACKIHCDKPQCNVRCPKDLCESTDCPKCETVCAPAKCRTACTAPNAVCTPMCEETKCDWKCKKPTLCPRPKCELVCEKPACAYKKPAAVATANNTCCACNQANIQASMIQASENSEPTAETPSFLELTHHFKFQQQETGAAACCACKQ*
Ga0066563_170225	Ga0066563_1702251	F049318	SETARAARELDEVLARIDGREKRFAPEASIKPVELPPVDVTIVAAPDSAFKKFDLKSVTKVEDVISGIAYEIHEKAKALSGEADSVAMALARLGDAAREGNKTELLKASKEAALHLAALCKKFQELANSIPGNTPQERRIKDQLLKSAQGLRDMATQLKILCAVKAASIEDNKDNDGALNTIVRN*
Ga0066563_171724	Ga0066563_1717241	F000187	GKPSNPKMSDERRNRQKMIQGDVTGIPQKTLQDFASVFLYMCHPDGKGGDDLSVEKLSEAQLDKILRAINITVDDKKVSGKDMLREVGGKDVDFATYRDMMVARLKAQQPEAVVKCQFEKFDERQTGKIPLKEMETALRKGSRRPLTEAQLEKLLSIKDIIDQGNFV
Ga0066563_179043	Ga0066563_1790431	F018507	QEEMNFSAVLVLLLGLVAFVYTACVSPPSDLQVCVLPSTARVPQEYANTNADRQLQSYFFFLQSIKAVPTDDCALAYIDFACSQAYPRCAGDSASGLGLPVNTCYFQCSNFVEKCRGQLIGVERPDCGTFSVSPDCTAIAVALPANDTNGAATVSASIALISLLAVVL
Ga0066563_185351	Ga0066563_1853511	F000187	TTMSEDRRNRQKIIQGDVTGIPQKTLQDFASVFLYMCHPDGKGGDDLAVEKLSEAQLDKILRAISITVDDKKVAAKDMLREVGGKDVDFATYRDMMVARLKAQQPEAVVKCQFEKFDERQTGKIPLKEMETALRKGSRRPLTEAQLEKLLSIKDITDQGNFVYGKFMTEFYGEKKGATTDAV*
Ga0066563_187111	Ga0066563_1871111	F048724	RSWGVLVLVALIFSCYSSVNCGQCSVENPLEQYPGCFCFWEWNDANHVGNWTYPDYWMQLERPAIIGFVSISGDNTIHVENDSQINEVYVGPNRWDTTRLVVNPDVTLTILYDDVPVIASVRAERLVTGATKISIQGKGFGFVSESIVVNVFDSYDLIDGEQYIGSASSFNYNCEEVLLRYRDARIECYIDAYNLLPQTFYVTVSANGYVSDPAYLDNY