Sample 3300030493

3300030493: Bioremediated contaminated groundwater from EPA Superfund site, New Mexico - Sample HSE6-23 (v2)

Overview

Basic Information
IMG/M Taxon OID	3300030493 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0095509 \| Gp0056905 \| Ga0310040
Sample Name	Bioremediated contaminated groundwater from EPA Superfund site, New Mexico - Sample HSE6-23 (v2)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	Y
Use Policy	Open

Dataset Contents
Total Genome Size	453618199
Sequencing Scaffolds	34
Novel Protein Genes	34
Associated Families	19

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Archaea	4
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → Methanothrix soehngenii	1
Not Available	10
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia	2
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	10
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula → unclassified Methanoregula → Methanoregula sp. PtaU1.Bin051	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Bioremediated Contaminated Groundwater Microbial Communities From North Railroad Avenue Plume (Nrap), New Mexico
Type	Engineered
Taxonomy	Engineered → Bioremediation → Tetrachloroethylene And Derivatives → Tetrachloroethylene → Unclassified → Bioremediated Contaminated Groundwater → Bioremediated Contaminated Groundwater Microbial Communities From North Railroad Avenue Plume (Nrap), New Mexico

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	Unclassified
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Subsurface (non-saline)

Location Information
Location	Espanola, New Mexico, United States
Coordinates	Lat. (^o)	35.9918	Long. (^o)	-106.0796	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

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Associated Families

Family	Category	Number of Sequences	3D Structure?
F016481	Metagenome / Metatranscriptome	247	Y
F017253	Metagenome	242	Y
F025903	Metagenome	199	Y
F036294	Metagenome / Metatranscriptome	170	Y
F038519	Metagenome	165	Y
F041560	Metagenome	159	Y
F054136	Metagenome	140	Y
F059711	Metagenome	133	Y
F060548	Metagenome	132	Y
F069913	Metagenome / Metatranscriptome	123	Y
F071903	Metagenome	121	Y
F072819	Metagenome	121	N
F073009	Metagenome	120	Y
F083634	Metagenome	112	Y
F086459	Metagenome	110	Y
F089758	Metagenome	108	N
F094578	Metagenome / Metatranscriptome	106	Y
F094797	Metagenome	105	N
F106197	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0310040_1000074	All Organisms → cellular organisms → Bacteria	122704	Open in IMG/M
Ga0310040_1000454	All Organisms → cellular organisms → Archaea	38545	Open in IMG/M
Ga0310040_1000551	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → Methanothrix soehngenii	33823	Open in IMG/M
Ga0310040_1000915	Not Available	24039	Open in IMG/M
Ga0310040_1002131	All Organisms → cellular organisms → Archaea	12983	Open in IMG/M
Ga0310040_1005472	Not Available	6234	Open in IMG/M
Ga0310040_1005572	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia	6141	Open in IMG/M
Ga0310040_1008219	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	4598	Open in IMG/M
Ga0310040_1009042	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia	4300	Open in IMG/M
Ga0310040_1009498	All Organisms → cellular organisms → Archaea	4138	Open in IMG/M
Ga0310040_1011136	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	3692	Open in IMG/M
Ga0310040_1012477	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	3383	Open in IMG/M
Ga0310040_1015650	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula → unclassified Methanoregula → Methanoregula sp. PtaU1.Bin051	2864	Open in IMG/M
Ga0310040_1023130	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	2167	Open in IMG/M
Ga0310040_1024575	Not Available	2079	Open in IMG/M
Ga0310040_1029579	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	1828	Open in IMG/M
Ga0310040_1033438	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	1679	Open in IMG/M
Ga0310040_1034852	Not Available	1632	Open in IMG/M
Ga0310040_1034886	All Organisms → cellular organisms → Bacteria	1631	Open in IMG/M
Ga0310040_1038907	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	1517	Open in IMG/M
Ga0310040_1039512	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae	1503	Open in IMG/M
Ga0310040_1041344	Not Available	1459	Open in IMG/M
Ga0310040_1052850	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	1241	Open in IMG/M
Ga0310040_1061176	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	1125	Open in IMG/M
Ga0310040_1072475	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	1009	Open in IMG/M
Ga0310040_1087122	Not Available	895	Open in IMG/M
Ga0310040_1091461	Not Available	868	Open in IMG/M
Ga0310040_1104853	All Organisms → cellular organisms → Archaea	793	Open in IMG/M
Ga0310040_1109259	Not Available	772	Open in IMG/M
Ga0310040_1120112	Not Available	726	Open in IMG/M
Ga0310040_1151336	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanosarcinales → unclassified Methanosarcinales → Methanosarcinales archaeon	625	Open in IMG/M
Ga0310040_1156628	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	612	Open in IMG/M
Ga0310040_1178567	Not Available	563	Open in IMG/M
Ga0310040_1181574	All Organisms → cellular organisms → Bacteria	557	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0310040_1000074	Ga0310040_1000074140	F072819	MCRGIGVYIRRPGRTGGRASIRAGITTARGIVNVTLIHGEEMFQDQIKAQEVSFRIARLEGENAVSELVNWCRNNLDELTVQCFTHKRFMSVQALVDALCEVYRDLGVEGEKGNVSAFVLFLAGKHRDKIYASHVVELNDTHRQILRDKLGLDIEEIEPGLSKLDWRADAGI
Ga0310040_1000454	Ga0310040_100045410	F038519	MFAIEYGADDAYGPYTDEDLLKKTLGIIRQIAPNAEIIGRECNPFSDQIQAGLLPFRIHVDLVDGMPQLPAEISITWPPSEVEGIQVGNLEFREYFVWAESEKAALRKLATLNRAAPNYNQKAAAMCEE
Ga0310040_1000551	Ga0310040_100055112	F106197	VADVKSALACFLLLLLVTGTESASADTISGQIDSQNFPSGDWYRGSNQGGANVWIKNTGDVGHLFWVSYEVMDSRGRWYSAPPESVYADAGDNATYFVSPVWTIPDDAEIGSYQADFYLYGYYDSSTGELSDQLDQVDQPNAFSVVG
Ga0310040_1000915	Ga0310040_100091529	F094797	VSGSEDLVDLDDPGDLGPETFLPTPSEARALSRDKGFETIWKGGILTGCHLVLKLQISFNAKGRLLYNGKPYSRGIWGWRPPKFIRLQGREAKEEPNSRNSHPEIYLTTQNGVELKLDACPCGGELVKDNCECLYCRDCGTVYDHHR
Ga0310040_1002131	Ga0310040_100213112	F016481	MEESEMDCGKSVWEHISEDKKKAFMKAKLDFKIKKVQAKLDFLKELQKIFE
Ga0310040_1005472	Ga0310040_10054723	F089758	MVTIQEQLGYPGDFGKPFESEDCLRRAREFCKTGNLQKNSDDKVYGTPPGLVSLVDLSHEMHRACSTLAKVLEDAGWFQVLELPGYYFPPESKEGLE
Ga0310040_1005572	Ga0310040_10055727	F094797	VDLDDPGDPDPETFLPTPSEARALSRDKGFETIWKGGILTGCHLVLKLQISFNAKGRLLYNGKPYSRGIWGWRPPKFIRLQGREAKEEPNSRNSHPEIYLTTLNGEELKLDACPCGGELVKDSCECLYCRDCGTVYDHHR
Ga0310040_1008219	Ga0310040_10082198	F094797	VSGSEDLEDLVDPGELPDPETFFPTPAEAKALSKDKGFETIWKGGILTGCHLVLKLQISFNAKGRLLYNGKPYSRGIWGWRPPKFIRLQGREAKEEPNSRNSHPEIYLTTLNGEELKLDACPCGGELVKDSCECLYCRDCGTVYDHHR
Ga0310040_1009042	Ga0310040_10090422	F038519	VKKMRMFAIEYGAEDAYGPYTDEDLLQKTLGIIRQIAPNAEIIGRECNPFSDQIQAGLLPFRIHVDLVDGMPQLPADVTLTWPPSETEGIQFGNLECRVYFVWAESEKAALRKLATLNRASPNYNPKAAAMCEE
Ga0310040_1009498	Ga0310040_10094988	F060548	MKNPMMVPNRPKQHRVTDFVDMQAAMLVRNHAGEELCIEDLVDAAKRDMPNFEWNNDKIRHSVDRLEKRGKIASKYVIRRKRLCRVPYPI
Ga0310040_1011136	Ga0310040_10111361	F038519	MKMSAIDYAAGEDAAGPYTDEVLLQKTLEIIRQIDPNAEIISRECNPWSEQILAGLLPFRIHVDLLDGMPQLPAEVSITWPPSSIEGIQVGNLEFREYFVWAESEKAALRKLATLNKAVQSYSPKAAAAEEL
Ga0310040_1012477	Ga0310040_10124775	F060548	MGASMKEPGIIIVNRGKRNTSTDFVDMQVATLISDHVEKEPCIEDLVGLAETEMPNFAWTDDKIRNSVNRLEKRGRLMSKYVIRSKRLCRVPYPI
Ga0310040_1015650	Ga0310040_10156502	F083634	MADQIITLDRLKINGHVRRLARELRITVGHDADRLTLTNDEFGLLVFSPTLEEGIAGISDELSTLWEVYVAGNPANLTRDALRLRSHLESLVVAGASS
Ga0310040_1023130	Ga0310040_10231304	F094797	MDPGDLPDSETFLPTPSEARALSKDKGFETIWKGGILTGCHLVLKLQISFNAKGRLLYNGRPYSRGIWGWRPPKFIRLQGREAKEEPNSRNSHPEIYLTTLNGVELKLDACPCGGELVKDSCECLYCRDCGTVYDHHQ
Ga0310040_1024575	Ga0310040_10245752	F073009	MLSILISDQPLDLSDDFSVSLNLKSPLFNDVGDYSYPFKVPTTARNKAILGWKNRIASSSRIYDTYEGSFRWNGIVLFKGQVRIKSAGEKTFEGILYINKGNFNYEVKDLMMNRVDLGLKEFASDQDAINYFNWSLTHFYPDVDFSMPKISNTDFFDPVATNPELMAYNYIFPDGWLHKTTSDGTQRTILVPFLYLKYVLNKLA
Ga0310040_1029579	Ga0310040_10295793	F069913	VFKLFIFVLKLKAMTLEEYNLLEQELINSGLDNKSFLTSRGIKLHKYYYWKRKSRDLKEDPLQTEGQFLPIDVHTGGLIKASKRGKGIKQPFITHGEIEIELRTPSGAELRIRGIMDSLMVSTIIASTGGRRNV
Ga0310040_1033438	Ga0310040_10334383	F060548	MSPTPGIIVNRPKRSAATDFVDLQVSTLVTDHADEEPCIEDLVRLAKKDMPKFDWTDDKIRHSVNRLEKRGRLTSKYVIRRKRLCRVPYPI
Ga0310040_1034852	Ga0310040_10348521	F054136	MIENKAQLLADLAYVGSKVQAKTNVYLFSGAAFLWHGLKDATKDIDICCSYEEADRIVTELRMFGGMESVTGINDIHFLRMIFKSFALQIFIKEIWMGDEYQLLEAAHCDTLTFGGITFLIPDVKTLITIKDR
Ga0310040_1034886	Ga0310040_10348862	F017253	HNVGSYTQVRIAGDFLSSRKAAWAERCPPKTTAAALDG
Ga0310040_1038907	Ga0310040_10389071	F038519	MLESLKENSASNLGPRSPIKMYGIATDLGDDWAGPYVDQELLKKTLAIIQKVDPGAEIVSKETDPFSEQVLAGLLPFRIHVDLVDGMPQLPADVQITWPPGEMEGIQSGNLECREYFVWAESEKAALRKLATLNKATPQPSNSKAVTAEAF
Ga0310040_1039512	Ga0310040_10395122	F036294	SDEAIVGVKPAADEDAVTYPRVKLLASDKDVGAEGRNM
Ga0310040_1041344	Ga0310040_10413441	F041560	FEVKDIFLNRVDLGMMSFASDQQAVDYFNWSLTHFYPEVDFSMPEISNPTFYDPPATNPELMAHNYIFPDGWLRKYTTDGQCRTILTPFLYLKFVLNKLAEIFGYRLQDEFFTSSIELSRLVVYNSVSLSEVLFGLQKLYYCRLVPNVKVSEFITGLEKWFNCSFHVDTRQRVIRIVGNKEVLLRSDIVEFSRNILSLIQEIPEQITGFRFLLGPDAGDMAYQAQLDAEKGITEMIKGAVQHFSDIPTYPFTWLGDIYYIVDTNTWWQLAVNPYTFLIEWQQLPAGPMLTDKFFYKWGDEKNKFETIFSSLPDKYISVNCGNLGADYQKITPRLFWVGMAGGWGTPVRLRGFANNSNFSLRYPGPNGLFNLYWKDWVNWIMETRKSVKIEKQMDFIELKNLEFTKRYRINGINYLISEISVTLNKASIKSAQLKCFTAP
Ga0310040_1052850	Ga0310040_10528503	F089758	MVKIPAQPGYPGDFGKPFESDDCLRIARELCKKGNLLKNSDDKVYGTPPGLVSIVDLSHEMHRACSTLAKVLEDAGGFQVL
Ga0310040_1061176	Ga0310040_10611764	F094797	VSSSEDLEDIMDPGCLPGPETFLPTPSEARALSRDKGFETIWKGGILTGCHLVLKLQISFNAKGRLLYNGKPYSRGIWDWRPPKFIRLQGREAKEEPNSRNSHPEIYLTTQNGEELKLDACPCGGELVKDSCECLYCRDCGEVYSHY
Ga0310040_1072475	Ga0310040_10724751	F038519	MKMFAVDYAVGEDAAGPYTDEDLLQKTLAIIRQIDPDADIISRECNPFSDQILAGLLPFKIHVDLLDGIPQLPADVQITWPPGEMEGIQFGNLECREYFVWAESEKAALRKLATLNKAAPNYNPKAAAM
Ga0310040_1087122	Ga0310040_10871222	F071903	MNRTEQAAAKREAKLQEALGHLEYFKRTALALDQAMKVMAKDLQVCKKNELIWEKRIEKLQEKA
Ga0310040_1091461	Ga0310040_10914612	F060548	STVTNRPKQHRVTDFVDMQVATLMRNHAGEELCIEDLVDAARRDMPNFDWNNSKIRNSVTRLEKKGLVGSKHEIRSKKLCRVPHLI
Ga0310040_1104853	Ga0310040_11048533	F094578	WLLQRLKSMYFAVHCWKCKKFELPVEEYKKICEDNIQKIIDNLEIKEMKFREFNEIIKNSTFCKFEKRDFSNNCPICRKFGIWG
Ga0310040_1109259	Ga0310040_11092594	F060548	MSTVTNRPKQRRVTDFVDMQVATLIRNHAGEELCIEDLVAVALKEMPGFEWKDDKIRHSVNRLEKRGKRA
Ga0310040_1120112	Ga0310040_11201122	F025903	MIDITESPNFISFAGNPVIYEACSDNYLISLGSRASFELLVTGIDTSMGHSFKLQFAGKTLVFQTAGFTGFDGLLFEVGYLGQTFNDFANNIYQCFLENYDIQKYFNVTLDGPGTSSRNIHLQAKQSGTDGTVVFSNVNVTGVGQGT
Ga0310040_1151336	Ga0310040_11513361	F038519	MRMFAIEYGGDDAEGPYTDEELLKKTLAIIRQIEPNAEIIGRECNPWSDQIHAGLLPFRIHVDLVDGMPQLPAEVSITWPPGEMEGIQSGNLECREYFVWAENEKAALRKLATLNKATPQPSISKAVTAEAF
Ga0310040_1156628	Ga0310040_11566281	F017253	MRQCVKLVTLVANVGSYTQGRIAGDFLSSRNAARAERYPPKTTAAELA
Ga0310040_1178567	Ga0310040_11785671	F086459	MIYAKDRVLAELDSAGAQLASLTADLKASRAVLQARLKMPPPFMPLEEYDCHFANAFTHIEKAKMAVRAMHPVCHQADFLKKKTEKNRR
Ga0310040_1181574	Ga0310040_11815741	F059711	MRERTLHTSMNLLLEPDIYQRIKMIARLQKRSMSKFIREGINLRLAQYDKENNSIIGGKDRERTDNQ

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

3300030493: Bioremediated contaminated groundwater from EPA Superfund site, New Mexico - Sample HSE6-23 (v2)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences