3300008222: Methane-oxidizing microbial communities from mesocosms in the Gulf of Mexico - GOM9D Gulf of Mexico

Overview

Basic Information

• IMG/M Taxon OID: 3300008222
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118071 | Gp0127831 | Ga0105356
• Sample Name: Methane-oxidizing microbial communities from mesocosms in the Gulf of Mexico - GOM9D Gulf of Mexico
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 1230878677
• Sequencing Scaffolds: 32
• Novel Protein Genes: 36
• Associated Families: 33

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1
Not Available	20
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	3
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Rhodothermaeota → unclassified Rhodothermota → Rhodothermaeota bacterium MED-G19	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Marine Group I → Marine Group I thaumarchaeote	4

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Methane-Oxidizing Microbial Communities From Mesocosms In The Gulf Of Mexico And Hudson Canyon, Usa
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Unclassified → Unclassified → Methane Seep Mesocosm → Methane-Oxidizing Microbial Communities From Mesocosms In The Gulf Of Mexico And Hudson Canyon, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): marine cold seep biome → mesocosm → sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Gulf of Mexico
• Coordinates
  • Lat. (^o): 27.37
  • Long. (^o): -90.57
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000245	Metagenome / Metatranscriptome	1468	Y
F002030	Metagenome	601	Y
F004642	Metagenome / Metatranscriptome	429	Y
F004768	Metagenome / Metatranscriptome	424	Y
F005685	Metagenome / Metatranscriptome	393	Y
F005832	Metagenome / Metatranscriptome	389	Y
F011337	Metagenome	292	Y
F012354	Metagenome	281	Y
F012465	Metagenome / Metatranscriptome	280	Y
F013095	Metagenome	274	Y
F020602	Metagenome / Metatranscriptome	223	N
F022673	Metagenome	213	Y
F029556	Metagenome / Metatranscriptome	188	Y
F030241	Metagenome / Metatranscriptome	186	Y
F031898	Metagenome	181	Y
F033080	Metagenome	178	Y
F035075	Metagenome / Metatranscriptome	173	Y
F035337	Metagenome	172	N
F043988	Metagenome	155	Y
F055413	Metagenome	138	Y
F058280	Metagenome / Metatranscriptome	135	Y
F066857	Metagenome / Metatranscriptome	126	N
F070548	Metagenome	123	Y
F072444	Metagenome	121	N
F076258	Metagenome	118	Y
F076497	Metagenome	118	Y
F078830	Metagenome	116	Y
F084347	Metagenome	112	N
F091608	Metagenome	107	N
F092360	Metagenome / Metatranscriptome	107	Y
F099438	Metagenome / Metatranscriptome	103	N
F101886	Metagenome / Metatranscriptome	102	N
F105357	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0105356_10044231	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales	3351
Ga0105356_10060087	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	2737
Ga0105356_10144345	Not Available	1487
Ga0105356_10154349	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	1418
Ga0105356_10160221	Not Available	1381
Ga0105356_10190296	All Organisms → Viruses → Predicted Viral	1223
Ga0105356_10199186	Not Available	1185
Ga0105356_10223670	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	1090
Ga0105356_10225139	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Rhodothermaeota → unclassified Rhodothermota → Rhodothermaeota bacterium MED-G19	1085
Ga0105356_10261407	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	975
Ga0105356_10287076	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Marine Group I → Marine Group I thaumarchaeote	911
Ga0105356_10297169	Not Available	889
Ga0105356_10318377	Not Available	846
Ga0105356_10328391	Not Available	827
Ga0105356_10343377	Not Available	801
Ga0105356_10399753	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Marine Group I → Marine Group I thaumarchaeote	719
Ga0105356_10431593	Not Available	681
Ga0105356_10450890	Not Available	661
Ga0105356_10483936	Not Available	629
Ga0105356_10487494	Not Available	625
Ga0105356_10491001	Not Available	622
Ga0105356_10494772	Not Available	619
Ga0105356_10503536	Not Available	611
Ga0105356_10508230	Not Available	607
Ga0105356_10549028	Not Available	576
Ga0105356_10565424	Not Available	564
Ga0105356_10580429	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	554
Ga0105356_10630586	Not Available	523
Ga0105356_10635710	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Marine Group I → Marine Group I thaumarchaeote	520
Ga0105356_10647552	Not Available	514
Ga0105356_10659614	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Marine Group I → Marine Group I thaumarchaeote	507
Ga0105356_10661674	Not Available	506

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0105356_10044231	Ga0105356_100442312	F091608	MKLSRKKRTPPLDLGKLQEVGSENRSSGKLTALAPYFLLLEEMKDKRSLNTPFISLEALARITTARIEGYEEDDVLGSYPDAWGRETISVPLPLLIALKDAWDSYRSADVGISLGESFGVEGKGQGKSKMKGRLEQRLKEHRIMNAVELAYLASGNTAEEVDAISLVLAIEQVAEVEELSAATVRKYYKKHSTYLRGELKSKGILKG*
Ga0105356_10060087	Ga0105356_100600871	F101886	MLKKIVIIGFCLFNVALFIQIGIEVAAVTPEQAMLEGMTQRIYASISTLDYIMAALWGAILYTILTAKKEHFLRASYLYLGFYLCDIHFSHYMSIEMNDPYFTPGAL
Ga0105356_10144345	Ga0105356_101443452	F105357	MNIDKVAVSTRLKRDEDRYLVLIDVDPTASTNDEFLKVFPKGYHGLFEFDNELDAKQCLIVVNKKLGLGKL*
Ga0105356_10154349	Ga0105356_101543491	F101886	KKMRRVMLRNIFITGFCIANITLFILIGIEVAAVTPEQAMLEGMTQRIYASISTIDYIMATLWGVILFTTLTANKEWFLRSAWLYLGFYLCDIHFGHYMGIEMGEPLWIVAPLILAAIQSAFLYWSRKHIDKLTMPIPSQKWHETQGTSL*
Ga0105356_10160221	Ga0105356_101602212	F066857	MCRLSCRRLDYLHDWQEKAKRVIDIFLITKGNVQFLDVFCIFQCQQNKGFSHFLDTDSKLTVYRDDVVRPSRKDNILLPVVFDKFSAMP*
Ga0105356_10190296	Ga0105356_101902961	F029556	MSMMKFDDSKIKEIRKRKEQGLPPPPEGDVVEQSKNAKGGSELIYQRVKERVPEDLWNYFQVILSRVREYEDKPKILWFQDTSRDPEV
Ga0105356_10199186	Ga0105356_101991862	F004642	MDKPAFSETIPNELRELGYVPPIIKSYDNNGINVWLNKSRKIYDVPFWQFTMDGIQWMVLDERHGSASQFYSHYKLARGHVICTGLGFGTREQWLASKPEVTKITVLEKFKEVIDYHKDIGTKWHDKIEIINCDANDYKGSCDFLSIDHYEYDDVLRILDSIKTVCNNITCESAWFWMLEPWIRLGYITDNTENPTIIPKKICYGGKENDILENYSKIKTYFEHVNLPNLNKEQLTKFIEMY*
Ga0105356_10223670	Ga0105356_102236704	F043988	MAVSICGFKAPFGLSTLFILSDMPVFCGFDHLLDSEAMEYGLEINY*
Ga0105356_10225139	Ga0105356_102251392	F099438	MTPVSSVFAQKAVDNREITVMAERDAKDDAEESGTFLWWCGGFLLTFVIPYVGGLPLALYGYYKGGEPDGVPAVRLMDLEKAYGKGNSEAISIYTAAYEKKYTEVARKSHGKAGLIGYGLGLLLAILAFAAIIAILTGASAEDDDFTNDAIDFHLGLMGLEKA*
Ga0105356_10261407	Ga0105356_102614072	F101886	MLKKFAIIGFCLFNVVLFILIGIEVAAVTPERAMLEGVTQRIYASISTLDYIMAALWGAILYTTLTAKSEHFLRASWLYLGFYLCDIHFSHYMSMEMNDPYFTPGALFLVVIQAWFLYWAKTRIDAANVAVSN*
Ga0105356_10287076	Ga0105356_102870762	F013095	MNKITPIIPIKLPMNSTVSLTSPTSGAQKIAIKKPVTIIGIPIPTVICFDAIFSIALKIVYEVYDEM*
Ga0105356_10297169	Ga0105356_102971693	F058280	MKTAIELDVFQEMKLEENTGEIVMRPMAEMMDAPLDFIDEEDEPEWTPLLKVLTETIIDPYTVPASTEVPNEK
Ga0105356_10318377	Ga0105356_103183771	F055413	MLNITDLAESKELDNKAMAGVRGGFNPFAILDGSTSLTSKVADVNQLFAFDLAQNNAGAVTNNQAINGGNGITYAPVDQTLTQASAMSVYDIGNVSVS*
Ga0105356_10328391	Ga0105356_103283911	F011337	PKPVRTTVFHLTDYNGLGKLKKMQGGKRSISAFFNIDDIVIQTGIKSEGGYVVEMDADVLVASQDDISSQPDKTGRRWVTLSSLMNKPTDPDPGLGGGAKLKSMEKDISGMLVDIVTKHSDITPLPNINKAWGYLGKSVGGKEKSLIIKDYIDGMEKIMKKNSKILGTLLTDYTKKRIQEPDPDSGDKPMWDELVVNNFKIQKIHVGPEFSPDFAELVKGEGGGRMYTFANKDDDIDGLPFELYQDVGDMVDYITRKVQSIKL*
Ga0105356_10343377	Ga0105356_103433771	F002030	IILSSVCLWLLIEQRKSWKFLIWFIPVLLFLVTSTYVTYTSILGFPKVATPEKGMYLKHYVDEPNWIYLWVLSKKNVPMSYQLVYTKKKHDSLEGVKGKAEEGKFMVLGEDTFQGAGDELDGDKGGERGGGYTIGGDVSFYEWDFTENMPQKNQEENR*
Ga0105356_10399753	Ga0105356_103997531	F092360	IEWHHVQMSNSNDYLGFVQGVGYEGDREADTRFGAFCDSADNAYVFASNWAGTWVSNTALSHSDLQGDDSETKASQPFRVNGFAMDPLGWATKNNKDATNTWIWSPSHHPDRLEDTSTNKKDPYPNITSGAADSNYLKAQGSMDDEDYFRTQADNSYWANNYPEDTT*
Ga0105356_10431593	Ga0105356_104315931	F072444	MERENNSFWEIAEIIDRELSILRKMRPVGPKEKALLKKMVEDKEKEHEKRTNSQP*
Ga0105356_10431593	Ga0105356_104315932	F022673	MKREQIVSHRVEIAEKIHEELLVSLELERKLLKKELTLQETMSERVEVRKDLMNCERKIKDLTEQLQKENDRSKVTKWNNQP*
Ga0105356_10431593	Ga0105356_104315933	F031898	MEQPALKDFQKEIEEMNDDDARLKIIKDWEKYRERKDLGIRNYPESCMERMLSDDQVHGI
Ga0105356_10450890	Ga0105356_104508901	F004768	MKTATIEILEEGETIFGSRTAGEYFVRRYEDGEEMGGGFFKTMEEAEARVREYQQSE*
Ga0105356_10483936	Ga0105356_104839361	F084347	MITFPKQKTVETNRTFRAWKTYHGMYLHFTGSYDYFKYFGNASWGTLLSMEKYFAKFEHKTGFSWQRGFFTSLGKKMTKEHDLIYYYLSQ
Ga0105356_10487494	Ga0105356_104874942	F035075	LICIDDNAISVKYVNKKNQRRLWVTLKNIEAVGKWALKKEELEKKIKK
Ga0105356_10491001	Ga0105356_104910012	F033080	MLEYVHRIAEKVANEPLEDELRNWIIGETEDGHMPLVRKPQHVIDEAKVDEAIMRRHDREQMEMYDDPVMNWSGHR*
Ga0105356_10494772	Ga0105356_104947722	F012354	MPLLTLPVCDIASSMIYPSAKTPKPIPIAKKAIVSRNSVGLPVFLNPIYEITPIIIPTEKPIKFRIISNKNSNVANLLAVLNKV*
Ga0105356_10503536	Ga0105356_105035361	F076497	PGVGFTLPMLLFPLAESGSALLDLSFTSRIVMEIDDIQNVRLEDDGGDLHYEDDCAILYEQQETTSVGYQYDMILLEESDTNPVYIATESSMTEEIDGIGEIDIISDGSYSLQLENIHGVHDKGLLIYENGGFTLEAGTDSEGVILFDGPTAEDGDRSLLEDGVEDKIEVFQPSVPASVRATHSLTNTGDTLNEGSFLTKAIG
Ga0105356_10508230	Ga0105356_105082302	F035337	MEYNLPVEIKWTDEEQATIDIICDACEKRYIILTNDISNLEQCSFCGHYLEVSTEDVHEFQEDSWD*
Ga0105356_10549028	Ga0105356_105490282	F076258	MDEYLGPVKTRSDKLFLKLVKKISKPDYTMHFMEDRHGRKAMFYNYKGVEIKKDDCVLLKATIAEHRRS
Ga0105356_10565424	Ga0105356_105654242	F030241	HVGRNKWMPVSNGFKNKTQAQKWAKSQDKVDSAASGEISGV*
Ga0105356_10580429	Ga0105356_105804292	F101886	MLKKIAIIGFCLFNVVLFILIGIEVAAVTPERAMLEGVTQRIYASISTLDYIMAILWGVILYTILTVKKEHFLRASYLYLGFYLCDIHFSHYMSMEMNDPYFTPGALALVAIQIGFLFWAKIRINTANLALS
Ga0105356_10630586	Ga0105356_106305861	F000245	MKTFREYSLDRKLDKYVSDEIKKRKLARHPVNATDDYKMKKGKPDFKFPSPTGDMMIHVWLRPMAKPASKDTKAFNYQLEDK*
Ga0105356_10630586	Ga0105356_106305862	F005685	MKKFNEYTSFEDKILGTLKRGPCDLMTLSHKLKEDIMPVSSMLEHLKVYDKVEMFKEKWQIKRTKKS*
Ga0105356_10635710	Ga0105356_106357101	F005832	MSKEGIWQDSKGMKDSEMVEKWTNVLHTVEDAVEQLKYQKIALMKKREDIVNSEETKNG*
Ga0105356_10635710	Ga0105356_106357102	F070548	MANWNSSELQTPEPIIKIGENAKNVINNLDILLKLVKAGADVAKLFLLLTNPGGAMIKLGANESIKLCNDFKEIGVFYLFINPNDEGYGGQTSR
Ga0105356_10647552	Ga0105356_106475522	F012465	MKTYKEFRKSIGFPLKERKVEEVIRQKEPLGEDVVDQLRSVVKKKKEADIKFKSGTSVPIDPESAKTILKTFDSLNSSNKKKMQDNMNKDTKSFLKILDFAFSNAK*
Ga0105356_10659614	Ga0105356_106596142	F078830	MIGREVVHKTNDLKNALKTISQIFRDGHTDVYLYGGKLGSWWK*
Ga0105356_10661674	Ga0105356_106616742	F020602	MGIKYISGFRGLDHAKQHLRRSVHLGSALTSGYTVLNPAEAFDQQACFVYLNGALLKEGTSGAGGDYVLSGSNTVTFNTAVATT