Sample 3300008249

3300008249: Methane-oxidizing microbial communities from mesocosms in the Hudson Canyon - EN10B Hudson Canyon

Overview

Basic Information
IMG/M Taxon OID	3300008249 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0118071 \| Gp0127828 \| Ga0105353
Sample Name	Methane-oxidizing microbial communities from mesocosms in the Hudson Canyon - EN10B Hudson Canyon
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	299018397
Sequencing Scaffolds	45
Novel Protein Genes	48
Associated Families	31

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Oceanospirillales → Oceanospirillaceae → unclassified Oceanospirillaceae → Oceanospirillaceae bacterium	1
Not Available	27
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → sulfur-oxidizing symbionts → Candidatus Ruthia → Candidatus Ruthia magnifica	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae	1
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Archaea	3
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	1

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	Hudson Canyon
Coordinates	Lat. (^o)	39.54	Long. (^o)	-72.4	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

Zoom:	Powered by OpenStreetMap^©

Associated Families

Family	Category	Number of Sequences	3D Structure?
F016531	Metagenome / Metatranscriptome	246	Y
F021319	Metagenome	219	N
F023452	Metagenome / Metatranscriptome	210	N
F030561	Metagenome / Metatranscriptome	185	N
F030885	Metagenome / Metatranscriptome	184	Y
F031535	Metagenome	182	N
F041826	Metagenome / Metatranscriptome	159	Y
F043988	Metagenome	155	Y
F047315	Metagenome / Metatranscriptome	150	N
F047906	Metagenome / Metatranscriptome	149	N
F055413	Metagenome	138	Y
F056065	Metagenome	138	Y
F059372	Metagenome / Metatranscriptome	134	Y
F061294	Metagenome / Metatranscriptome	132	Y
F062154	Metagenome / Metatranscriptome	131	N
F063198	Metagenome / Metatranscriptome	130	N
F065102	Metagenome / Metatranscriptome	128	Y
F066848	Metagenome / Metatranscriptome	126	N
F070217	Metagenome / Metatranscriptome	123	N
F076187	Metagenome	118	Y
F083802	Metagenome / Metatranscriptome	112	N
F084715	Metagenome / Metatranscriptome	112	Y
F084730	Metagenome / Metatranscriptome	112	Y
F085813	Metagenome	111	N
F087737	Metagenome / Metatranscriptome	110	Y
F098016	Metagenome / Metatranscriptome	104	N
F099440	Metagenome / Metatranscriptome	103	N
F099879	Metagenome / Metatranscriptome	103	N
F101329	Metagenome / Metatranscriptome	102	Y
F101886	Metagenome / Metatranscriptome	102	N
F103907	Metagenome / Metatranscriptome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0105353_1000911	All Organisms → cellular organisms → Bacteria	15686	Open in IMG/M
Ga0105353_1001075	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	14115	Open in IMG/M
Ga0105353_1005826	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Oceanospirillales → Oceanospirillaceae → unclassified Oceanospirillaceae → Oceanospirillaceae bacterium	4631	Open in IMG/M
Ga0105353_1007458	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	3888	Open in IMG/M
Ga0105353_1009768	All Organisms → cellular organisms → Bacteria	3236	Open in IMG/M
Ga0105353_1015607	Not Available	2368	Open in IMG/M
Ga0105353_1015787	All Organisms → cellular organisms → Bacteria	2349	Open in IMG/M
Ga0105353_1019742	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → sulfur-oxidizing symbionts → Candidatus Ruthia → Candidatus Ruthia magnifica	2029	Open in IMG/M
Ga0105353_1024990	Not Available	1740	Open in IMG/M
Ga0105353_1026986	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae	1650	Open in IMG/M
Ga0105353_1031293	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1498	Open in IMG/M
Ga0105353_1036122	All Organisms → cellular organisms → Bacteria	1361	Open in IMG/M
Ga0105353_1042402	All Organisms → Viruses → Predicted Viral	1224	Open in IMG/M
Ga0105353_1050615	Not Available	1089	Open in IMG/M
Ga0105353_1053577	All Organisms → cellular organisms → Archaea	1049	Open in IMG/M
Ga0105353_1057800	Not Available	999	Open in IMG/M
Ga0105353_1064455	Not Available	932	Open in IMG/M
Ga0105353_1065020	Not Available	927	Open in IMG/M
Ga0105353_1070205	Not Available	881	Open in IMG/M
Ga0105353_1074633	All Organisms → cellular organisms → Bacteria → Proteobacteria	847	Open in IMG/M
Ga0105353_1080149	Not Available	809	Open in IMG/M
Ga0105353_1087687	Not Available	763	Open in IMG/M
Ga0105353_1095112	Not Available	725	Open in IMG/M
Ga0105353_1097520	All Organisms → cellular organisms → Archaea	713	Open in IMG/M
Ga0105353_1101032	Not Available	697	Open in IMG/M
Ga0105353_1101260	Not Available	697	Open in IMG/M
Ga0105353_1107609	Not Available	670	Open in IMG/M
Ga0105353_1110353	Not Available	660	Open in IMG/M
Ga0105353_1115696	Not Available	640	Open in IMG/M
Ga0105353_1120658	All Organisms → cellular organisms → Bacteria → Proteobacteria	623	Open in IMG/M
Ga0105353_1124361	Not Available	612	Open in IMG/M
Ga0105353_1124616	Not Available	611	Open in IMG/M
Ga0105353_1125987	Not Available	607	Open in IMG/M
Ga0105353_1128088	Not Available	601	Open in IMG/M
Ga0105353_1132138	Not Available	589	Open in IMG/M
Ga0105353_1132545	Not Available	588	Open in IMG/M
Ga0105353_1134176	Not Available	583	Open in IMG/M
Ga0105353_1139458	Not Available	569	Open in IMG/M
Ga0105353_1141836	Not Available	563	Open in IMG/M
Ga0105353_1145789	All Organisms → cellular organisms → Archaea	554	Open in IMG/M
Ga0105353_1150899	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	542	Open in IMG/M
Ga0105353_1153806	Not Available	535	Open in IMG/M
Ga0105353_1161721	Not Available	519	Open in IMG/M
Ga0105353_1163154	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	516	Open in IMG/M
Ga0105353_1166366	Not Available	510	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0105353_1000911	Ga0105353_10009116	F055413	MLKVTDLAINKELDSKTMTSVRGGFDPFAILIDGSTSLNNEVADVDQVFQLALSQTNAGEVTNNQAINGGNGIVYVPVDQNLSQSNWMDVSGIGNVSVS*
Ga0105353_1001075	Ga0105353_100107517	F103907	MYPMTKLATAVNSVTTFEMTPSVETYLQEQIDFLSQHACNQLGTIANYANIAAFQTVPTFDQMFGDDNGLALDSNQRELKYAAFTVANSPEMLVQQKASGNVYGAQDDSGVQQTVFSDTDRNKIQLSEFGYKVVTETAERFAKTMADVSLLNAHFGLVPTTSRTERYELFVATERHKKNQKREMQMRTEAKFTESKAHN
Ga0105353_1005826	Ga0105353_10058264	F061294	MQAIESFESRCVEYQTQSRITQDTIALTVYLQSHQVIYSQIDYMLPEHPPSVEMLAIMVKDVCQGDSFYTYVFEEITHRYIELVGDIGVSPQVIFYYVSNVIISLLVLRRNNSQLSTEILIKIIQRFNFRDTTLRAGIEVIAEEVLRRCFVSINESNSRSFA*
Ga0105353_1007458	Ga0105353_10074582	F055413	MLNIADLTTSKELDTKTMTSVRGGFDPFAIIDGSTSLNNKVADVDQIFMFDLAQNNAGQVTNNQAIQGGNGITYAPVTQHLDQYSDMTVRGIGRVSVS*
Ga0105353_1009768	Ga0105353_10097681	F066848	GIHMRFSTRSIHSLRHPQDDVYRAVSREVGPGFAMGSSDPVLRIVLKGARQIAADRRLSVDPVAQNAGPESELDLVT*
Ga0105353_1015607	Ga0105353_10156071	F047906	VQEERRLFRLRGIAIVALAAKFTQKRTVTKERTPDAIRVPVAHRPVVGLEVLAVRWHHAVTKVRAALRLNMLVVAKRVSRVEIKLAVTAKAGLVQTQRL
Ga0105353_1015787	Ga0105353_10157873	F099440	VQLIKLKNQVLNGVNLIDENGKKIMVCGLHNTGQEKYIENFSQWTCNLLASCIVYTD*
Ga0105353_1019742	Ga0105353_10197421	F084730	EPVFTVGYFSYLNCITSGVYLYDLGNRIYGYGTPKRALIFFNSFYK*
Ga0105353_1024990	Ga0105353_10249903	F056065	LSNATNGQYYYKDDEGQFNLERQLGWCNGCQSITAIEDFSDAAKVAGEIRSNLYSIRRDTGTVFANILNVLFKSRREWIDSTIVTINSYAKYIELAKARAGQERCLKCSSYVVVPYKPAKEGGDLDVRGFMYHGQHGTNVEHPSCGGMFYEKADNVRLHGMFEPRFYKPDGSFIES*
Ga0105353_1026986	Ga0105353_10269863	F021319	TINGTKISPPPTPKRLDIIPAKKLAPAEKTSNIRDVSKGFRSIFLFRKMYDADAKRTSANKILKISGERSEDMNAPSTVPGTAINPSFQPRESSMRFCLAYTAVDATELLNTANKLLLTASVGENPANVNTGTIIIPPPRPIIEPNRPATNPSGMSQILSINVLG*
Ga0105353_1031293	Ga0105353_10312931	F084730	ILDTVEPVFTVGYFSYLNRIIAGVYLYDAGNCIYGYGSPERTLIF*
Ga0105353_1036122	Ga0105353_10361223	F062154	QVMQSRRNAVNANGVKGLSVVNARQEQLVNSVASGVKGLSVVNARPERLVNRVVNGVRAPSVVNVRPEQAVSVDRSPVAVVVREDQVVLCGCSL*
Ga0105353_1042402	Ga0105353_10424022	F055413	MLKITDLVVNKELDTLDTKAMAGIRGGFDPFAILIDGSTSLRNKVADVDQVFQFAFAQNNAGAVTNNQAITGGNGITYAPVDQSLSQSNTLSVFDIGNTRVS*
Ga0105353_1050615	Ga0105353_10506152	F055413	MLNITDLTASKELDTKTMAGVHGGFDPFAILIDGSTSLRNKVADVDQVFQFAFAQNNAGAVTNNQAIQGGNGITYAPVDQSLSQENTLSVHGIGNTTVR*
Ga0105353_1053577	Ga0105353_10535774	F076187	TICPVGLVSVAITHFFEFTSTEKFFENFKISRSIKSFPKMPLIPDTDIFNASNLDTLFIKL*
Ga0105353_1057800	Ga0105353_10578004	F047315	TDYDAGRLVTLVETLGNQVESLNATTVTLSKRINELEKQLVKGKGFLAGAMLLSMGLGGVGTSFLAKWLGT*
Ga0105353_1064455	Ga0105353_10644552	F055413	MLKITDLSASKTLDHKAMTSVRGGFDPFAILVDGSTSLNNKVADVDQVFAFGFAQNNAAAVTNNQAITGGNGISYAPVNQTLNQGNTLSVFDIGNTQVS*
Ga0105353_1065020	Ga0105353_10650201	F055413	LIMLKVTDLTVNKELDSKTMTSVRGGFDPFAILIDGSTSLNNKVADVDQVFAFGLAQNNAGAVTNNQAINGGNGLAYAPVNQHLDQYSDMTVSGIGNVSVS*
Ga0105353_1065020	Ga0105353_10650202	F055413	MLNITDLAESKELDSKAMASVRGGFDPFAILDGSTSLNSKVADVNQLFAFDLAQNNAGAVTNNQAINGGNGIAYAPVTQTLTQGSSMSVYDIGNINVS*
Ga0105353_1070205	Ga0105353_10702052	F030885	MKKINLMKNLTDPSISIINSSFTKGVALPYSVQMILDDSDNHKAFRKMMSEKFYHKDISIRISKYINEASIHFRNEEDVAEFLLIAGE*
Ga0105353_1074633	Ga0105353_10746333	F030561	RPVDFNIGSITIKANRFRKKTTSRICKFSAAFLIKITMIEKKTIDKIFKIIALV*
Ga0105353_1080149	Ga0105353_10801491	F063198	VEITKLYIVRMRLEENSLISEDRLILNAPSKIRINRVKVVNIGATEARSSGDVYPNPLGPIRNPSIIRNNTSGMFVRRNNASDKKPK
Ga0105353_1087687	Ga0105353_10876872	F085813	IWILVTGIGALNYGLNAYQKGFRRLLKWDVIFLIILNTLMFVPLSLIVGLEFAN*
Ga0105353_1095112	Ga0105353_10951121	F083802	MKDAITITKTEIQKGKIGHSKWLKHKESRFNSLFPKRLEKVYSTIRSLSKLSNRNNYFYETSNIFTALSSIVFELRELAASYGLESSDIKIDIYSLSNQQKNLKLQTDDIKNNDAKDFASELLELIEQKIKTEEKLHSEINALKRELSFLRDKVESQQWSSTRNFT*
Ga0105353_1097520	Ga0105353_10975201	F076187	ICPVGLVSVAITHFFEFTSTEKFFENFKISRNIKSFPKIPLIPDTDIFNASNLDTLFIKL
Ga0105353_1098816	Ga0105353_10988162	F101329	PTVNNGAVTINIINKTNITSTKGVTLISLIGSLDERFNLKVITK*
Ga0105353_1101032	Ga0105353_11010322	F099879	MANRKFIIEEEDKKIEVTCTDNDQVVEVDFISEHNDMIRTSLQGIPLNFKHSHRNIYIANAHG
Ga0105353_1101260	Ga0105353_11012601	F070217	KISTMVLANRITNVSGFERTIIGDLLGDEMMETSAASMVISEGQAKEAMGAAFDPNCFSDSCAISIGKSFNLSNVITFGIINVRKIANPAQVDTLLAVKDSLITATIIMKNFNIGTGEIVSEMNFPFEGDADKLLMSARRMVWTAVGVEPPPGRFPEDLIDDKENLKKRILNFYYGTLLPWFQNNPEMAMGIGGIAIITGGWLIFGGGGDDGGFDGPPEFPDDPSSMVRL*
Ga0105353_1107609	Ga0105353_11076091	F055413	MLKITDLAENKELDRKTMSGVRGGFDPFAILIDGSTSLTNKVADVDQAFAFGLAQNNAGAVTNNQAINGGNGITYAAVNQTLTQDSTMSVYDIGNVYVS*
Ga0105353_1110353	Ga0105353_11103531	F055413	MLKITDLAEHKELDSKTMAGVRGGFNPFAILDGSTTLTSKVADANQLFAFDLAQNNAAAVTNNQAINGGNGITYAPVNQTLTQDSAMSVYDIGNIKVS*
Ga0105353_1115696	Ga0105353_11156961	F098016	LPDEASADERLAQVSDDLPEPRLVLPLDDEEPDAPVLEDNAPVSLNGLSQHPADLGQHAAPSIELLLTRPDPAAAGSTVAQPILPGSQPVSPVPGWMSVADLQEPEDQLFLPEMPIGLPAELAEPVAAVFTNGASDAPLAEVPLPEPTSVSEIELVDADLDV*
Ga0105353_1120658	Ga0105353_11206582	F016531	LLVGMLLMLSGISGVSKLSQAAIGSGFDGSVVSNVNAPGRLILVGFIGSRVASELIRRGESTVIIKDHDRSLADDKTNGIKPGDVVN*
Ga0105353_1124361	Ga0105353_11243611	F055413	LIMLKVTDLTVNKELDSKTMTSVRGGFDPFAILIDGSTSLTNKVADVDQIYQLALSQTNAGEVTNNQAINGGNGIVYAPVDQNLSQANWMDVSGIGNVAVS*
Ga0105353_1124361	Ga0105353_11243612	F055413	MLNITDLADNKALDSKTMASVRGGFDPFAILIDGSTSLNNKVADVDQVFAFGLAQNNAGAVTNNQAINGGNGIAYAPVTQTLTQGSS
Ga0105353_1124616	Ga0105353_11246161	F041826	RNSPTALQTREMAIPDISACGMDSYVMDSKVILHQW*
Ga0105353_1125987	Ga0105353_11259872	F087737	LASVDREITHPSLLDNTTTGFLIIEGLNNLSHET*
Ga0105353_1128088	Ga0105353_11280883	F084715	PAAPEPKATKVMAIIASKVFRFGLEVKNPTAQVNTTRDITLGFISDINDLI*
Ga0105353_1132138	Ga0105353_11321382	F031535	NTNAYVPIASANQLRGLTNEVNHFQVPFKTFEFYSVNIE*
Ga0105353_1132545	Ga0105353_11325451	F055413	MLKVTDLTVNKELDSKTMTSVRGGFDPFAILIDGSTSLNNKVADVDQVFQLALSQTNAGEVTNNQAINGGNGIVYAPVDQNLSQSNWMDVSGLGNVSVS*
Ga0105353_1134176	Ga0105353_11341761	F055413	MLKVTDLAINKELDSKTMTSVRGGFDPFAILIDGSTSLTNKVADVDQVFAFGFEQNNAAAVTNNQAINGGNGLAYAPVTQNLDQYSDMN
Ga0105353_1139458	Ga0105353_11394582	F055413	MLKVTDLATNKELDSKTMISVRGGFDPFAILIDGSTSLNNKVADVDQAFAFGFAQNNAGQVTNNQAINGGNGITYAPVNQYLDQYSDMNVSGIGNVSVS*
Ga0105353_1141836	Ga0105353_11418361	F055413	PIMLNITDLTQSKELDSKTMACVRGGFDPFAILDASTSLNSKVADANQLFAFDLAQNNAAAVTNNQAINGGNGITYAPVNQTLTQDSTMSVYDIGNINVS*
Ga0105353_1145789	Ga0105353_11457892	F043988	ICNFLMAVSICGFKALFGLSTLFNLSDIPGFCGFDHLLESEPM*
Ga0105353_1150899	Ga0105353_11508991	F084730	VFTVGYFSYLNRIITGIYLYDPSNRLYGYGTPKGALIFLVVFICRSKK*
Ga0105353_1153806	Ga0105353_11538061	F065102	WGITTLPLAVILNLFFAELLVLSFGIIVRTYTNINIILQHQLLPIKAELP*
Ga0105353_1161721	Ga0105353_11617213	F059372	MSDEEVQGFIDYFGEDNIPNPDHYPMRVRWLMKWYKHIVERNRRENEEN*
Ga0105353_1163154	Ga0105353_11631542	F101886	MLKKSAIIGFCLFNVVLFILIGIEVAAVTPERAMLEGVTQRIYASISTLDYIMAALWGAILYTILTAKTEHFLRASWLYLGFYLCDIHFSHYMSMEMNDPYFTPGALSLVVIQAWFLYWAKT
Ga0105353_1166366	Ga0105353_11663661	F023452	WASGISVKQVNPAIIPIAPTKPLIKNNLVLFILIAAKPIDFIIGSMTIKAKRFLKKTTSRICKLSDAFLIKITMIEKRMIDEIFKMIALV*

Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300008249: Methane-oxidizing microbial communities from mesocosms in the Hudson Canyon - EN10B Hudson Canyon

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences