Sample 3300007159

Basic Information
IMG/M Taxon OID	3300007159 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114818 \| Gp0116275 \| Ga0075020
Sample Name	Freshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaT_CSR_2013 (Metagenome Metatranscriptome)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Sample Name

Freshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaT_CSR_2013 (Metagenome Metatranscriptome)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	17986644
Sequencing Scaffolds	40
Novel Protein Genes	47
Associated Families	34

Dataset Contents

Total Genome Size

17986644

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	35
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Sporadotrichida → Oxytrichidae	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Crustacea → Oligostraca → Ichthyostraca → Branchiura → Arguloida → Argulidae → Argulus → Argulus foliaceus	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

Not Available

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei

All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4

All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Sporadotrichida → Oxytrichidae

All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Crustacea → Oligostraca → Ichthyostraca → Branchiura → Arguloida → Argulidae → Argulus → Argulus foliaceus

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila

Ecosystem Assignment (GOLD)
Name	Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking
Type	Environmental
Taxonomy	Environmental → Aquatic → Freshwater → Sediment → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Ecosystem Assignment (GOLD)

Name

Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Type

Environmental

Taxonomy

Environmental → Aquatic → Freshwater → Sediment → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	aquatic biome → watershed → sediment
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Water (non-saline)

Alternative Ecosystem Assignments

Environment Ontology (ENVO)

aquatic biome → watershed → sediment

Earth Microbiome Project Ontology (EMPO)

Free-living → Non-saline → Water (non-saline)

Location Information
Location	Pennsylvania, USA
Coordinates	Lat. (^o)	41.1289	Long. (^o)	-78.4195	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

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Location Information

Location

Pennsylvania, USA

Coordinates

Lat. (^o)

41.1289

Long. (^o)

-78.4195

Alt. (m)

N/A

Depth (m)

N/A

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F000203	Metagenome / Metatranscriptome	1619	Y
F000344	Metagenome / Metatranscriptome	1257	Y
F000734	Metagenome / Metatranscriptome	915	Y
F000817	Metagenome / Metatranscriptome	879	Y
F001296	Metagenome / Metatranscriptome	728	Y
F002020	Metagenome / Metatranscriptome	603	Y
F002557	Metagenome / Metatranscriptome	548	Y
F003497	Metagenome / Metatranscriptome	483	Y
F006338	Metagenome / Metatranscriptome	375	Y
F008512	Metagenome / Metatranscriptome	332	Y
F010305	Metagenome / Metatranscriptome	305	Y
F014145	Metagenome / Metatranscriptome	265	Y
F014264	Metagenome / Metatranscriptome	264	Y
F017072	Metagenome / Metatranscriptome	243	Y
F018868	Metagenome / Metatranscriptome	232	Y
F020120	Metagenome / Metatranscriptome	226	Y
F022652	Metagenome / Metatranscriptome	213	Y
F023644	Metagenome / Metatranscriptome	209	Y
F025923	Metagenome / Metatranscriptome	199	Y
F027759	Metagenome / Metatranscriptome	193	Y
F029031	Metagenome / Metatranscriptome	189	Y
F036126	Metagenome / Metatranscriptome	170	Y
F037738	Metagenome / Metatranscriptome	167	Y
F037987	Metagenome / Metatranscriptome	167	Y
F046349	Metagenome / Metatranscriptome	151	Y
F052605	Metagenome / Metatranscriptome	142	Y
F056352	Metagenome / Metatranscriptome	137	Y
F063173	Metagenome / Metatranscriptome	130	Y
F064734	Metagenome / Metatranscriptome	128	Y
F065812	Metagenome / Metatranscriptome	127	Y
F071600	Metagenome / Metatranscriptome	122	Y
F081359	Metagenome / Metatranscriptome	114	Y
F100490	Metagenome / Metatranscriptome	102	N
F105212	Metagenome / Metatranscriptome	100	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0075020_101266	Not Available	553	Open in IMG/M
Ga0075020_103340	Not Available	566	Open in IMG/M
Ga0075020_104960	Not Available	565	Open in IMG/M
Ga0075020_105047	Not Available	722	Open in IMG/M
Ga0075020_108241	Not Available	626	Open in IMG/M
Ga0075020_108926	Not Available	810	Open in IMG/M
Ga0075020_108995	Not Available	554	Open in IMG/M
Ga0075020_109602	Not Available	505	Open in IMG/M
Ga0075020_109827	Not Available	699	Open in IMG/M
Ga0075020_111649	Not Available	581	Open in IMG/M
Ga0075020_112575	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	666	Open in IMG/M
Ga0075020_113102	Not Available	566	Open in IMG/M
Ga0075020_113807	Not Available	566	Open in IMG/M
Ga0075020_115781	Not Available	548	Open in IMG/M
Ga0075020_115911	Not Available	564	Open in IMG/M
Ga0075020_115938	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	572	Open in IMG/M
Ga0075020_116725	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Sporadotrichida → Oxytrichidae	620	Open in IMG/M
Ga0075020_117072	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Panarthropoda → Arthropoda → Mandibulata → Pancrustacea → Crustacea → Oligostraca → Ichthyostraca → Branchiura → Arguloida → Argulidae → Argulus → Argulus foliaceus	622	Open in IMG/M
Ga0075020_118030	Not Available	555	Open in IMG/M
Ga0075020_120618	Not Available	573	Open in IMG/M
Ga0075020_120815	Not Available	538	Open in IMG/M
Ga0075020_121517	Not Available	602	Open in IMG/M
Ga0075020_122406	Not Available	687	Open in IMG/M
Ga0075020_122474	Not Available	799	Open in IMG/M
Ga0075020_124352	Not Available	679	Open in IMG/M
Ga0075020_124432	Not Available	534	Open in IMG/M
Ga0075020_124602	Not Available	520	Open in IMG/M
Ga0075020_124929	Not Available	778	Open in IMG/M
Ga0075020_125121	Not Available	541	Open in IMG/M
Ga0075020_125200	Not Available	577	Open in IMG/M
Ga0075020_125265	Not Available	581	Open in IMG/M
Ga0075020_125302	Not Available	543	Open in IMG/M
Ga0075020_125621	Not Available	538	Open in IMG/M
Ga0075020_125649	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	590	Open in IMG/M
Ga0075020_156305	Not Available	563	Open in IMG/M
Ga0075020_160811	Not Available	800	Open in IMG/M
Ga0075020_161269	Not Available	841	Open in IMG/M
Ga0075020_163607	Not Available	539	Open in IMG/M
Ga0075020_164875	Not Available	565	Open in IMG/M
Ga0075020_165087	Not Available	567	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0075020_101266	Ga0075020_1012661	F001296	MKVAERRQPLRESEKPLRATGPGQKAARGEPGSIDPQAGENSLRGAERRIVRRFCLHRSMPCMPVVSQAGNQVTW
Ga0075020_103340	Ga0075020_1033401	F037738	QVIRFPALLTTGMHGTEHCNRKRRTFRLSAPLKLGFPRLRINASWLAAAYFLPTGTGNS*
Ga0075020_104960	Ga0075020_1049601	F014145	PGSLPACTAWSTANKSAGRFASPLPDGRFPQPPDQCFLARRWLPPARNRPLVTAFRSPATVAASRRPPFRGRSSQPATSRPSKSASVPVRPFGSATASRFAPVAAVSLPGARCTSTTRFSLPRLRSPLPSRTFTSLGIKAFNRVCCLPVRLTNPPDLLSLPAARPD*
Ga0075020_105047	Ga0075020_1050471	F010305	LAWFASWWRNHQPKRAEKPHSKFRRRKALDGPATRPRTPLAVENGVGKLTAPEKGAPNVSMGKRDWRTPI
Ga0075020_108241	Ga0075020_1082411	F022652	TIDRTTRMLSVRSAAKCALSFVCRSPMLPFGLLRVNAANAVYGFRILPEPVSRCGLSLARNDAFTPFRGQCSRPAPSIPHRIPSRIRSISDSFAPFGFEADPGRYHRPTPVSRAGFRRSRVFQQSPLPFGRFRTLQIKAFDHHPTREARLAWLRSPFAPRRDFFRFRSSLLPVRCARLD*
Ga0075020_108926	Ga0075020_1089262	F000817	RKRSVAFNRLQPEVSRIIPGDRGKAGSGWLTKPLLNQIARFGSGGRIHQFL*
Ga0075020_108995	Ga0075020_1089951	F001296	MRFDPGMEAAERRHPLQASKKPLRATGSGQKAASGEPGSIDPEAEKHSIRGAKRRIARRFCPQCSMPCMPVE
Ga0075020_109602	Ga0075020_1096021	F071600	LLLCISTVRTTLAGLNKIKTAQRKTLKGGQKERTHREGHGNLAGSVKNFRAPAMLKTTPLDCEIKSNLREKRR
Ga0075020_109827	Ga0075020_1098271	F063173	VPRVWPLNSQVAFLPQFSGIVFNIAELSKGFHGSCLDRVSFPVRPLTLFRLSAFFVWRIPFFFGNARVVRPVLMHSSNHLPSGNCDSLEFETSSSYLTGFGTVSHRSSSLSPFFACTDSARTLPEELVNSASPCR
Ga0075020_109827	Ga0075020_1098272	F006338	MLSGPATRPKTPLAVENSVGKLAAAEMWCQMPAREREPGELP
Ga0075020_111649	Ga0075020_1116491	F003497	SDPSNSPLPDRHARSKHGSQRSGDAALLLPVTAFIRLRIGAPESIRLFYLLEASVSERPFARPHRLFSFENHRSEVKAPDLSLRRNSELFFQPVRPYAPTLDCVHHASGDVRRAKPVAVSRAQNSQTSIQLSLPFRTFVPPDRSAQSAAWSEKPTLVSGPFSLRSPKVSITF*
Ga0075020_112575	Ga0075020_1125751	F000344	MRPRHPHAAESGVGKHTARESERAQACATGKERVAN
Ga0075020_112793	Ga0075020_1127931	F000203	SDGDKWGMGVRQALFPMPTLGAPLSEAVSFPTPFSTASGVFGLVAGPSSALRTLDFE*
Ga0075020_113102	Ga0075020_1131021	F029031	GQQNLVSGSDPGTLIRWQTNQTERWRGAKGNRAEHKGELLKRQIG*
Ga0075020_113807	Ga0075020_1138071	F064734	DFQPCSPPACTVLSTALKSAGRFASLLPSGGFRQPRDQCFKARRSLFSPKRDRSLVTAFPSPATAALFRATIPGSEALACYFALSPQASLPVRPFCSATGSGSPRSRPLLRFWPVTTRLAASTCRYSGLHSPSGLLPPSGSKRSAGLAAGRSAFRIRPIPSRSPLPVLFQLRPRIIVPGSLRFRRLAV
Ga0075020_115781	Ga0075020_1157811	F003497	SKHGSQRSGDTALLLPVTAFIRLRISEPELIRHFYLLEAFVSERPLARPQRLFSFENHRSEVKAPDLSLRRNSELFFQPVWPYAPTLCDVYHATGDVRRTKPVAVSRAQNSQTSIQLSLPFRTFVPPDRSAQSAARSEKPTLVSGPFSLRSPKASITF*
Ga0075020_115911	Ga0075020_1159111	F017072	RHGSGGRIHQFLWHGRTCQTRMRDLAARDDEKPFRTESSNPGKFRSRMNRSHPEGGKLLLCISTVRTTLAGSNKTGTAQRKTPKGGPKERTHREEHGNSAGSVKNFRAPAMLKTTPLDCEIKSNLREKRRDPWHWANAPSKAVADPKPVVKTRMKIAGVS*
Ga0075020_115938	Ga0075020_1159381	F023644	LLLGSPATAFGHYRIKASLRVAAFSPARDRMLVTTFRSPATTSAFTDSIPGSKFLACHFASQPADSTARSALLLHYRIRFAPVPAASLLLARCSFIDLLDLLRLLPPLLLGTFASLRIKAFNRICRLSARLPNPPDFLSLPAAVFYY*
Ga0075020_116725	Ga0075020_1167251	F065812	MGDKLLPRLNNVENPIVNKYCEGKMKRALKRGLKDLKPLRRKRSKLITSE*
Ga0075020_117072	Ga0075020_1170722	F065812	MGDKLLLRLNIYGKPIAYKYFEGKMKRTLKRGLKDLKALRRKR*
Ga0075020_118028	Ga0075020_1180281	F056352	RPDERKAAQVPRIIPGDWGKVGPGWLAQPLSKIRPSGAVREAKFTSSSGGVRAPSVNAKKGLSGEGR*
Ga0075020_118030	Ga0075020_1180301	F020120	SLPACTALSTADKSAGRFAAQLPKGRFLQPPDQCFLARRLPPSARIRSLVTAFCSPTTATASRLPPFRGQSSQPATSLPPKYLPCPFGPSAPLPRSPVCPGGGRFTASNPLHFHYSVWPAAPAISTPLRGFCPPRDQSVQPLLLPAGPPDESARFPLAPRRPSW*
Ga0075020_118583	Ga0075020_1185831	F037987	GMGVRHTLFPVPAFGALLTEAAGFPTPFSTASGVLGLVAGPCGVLQRADFE*
Ga0075020_118687	Ga0075020_1186871	F036126	VNSASPNLRSVQRNRDNQPVPIFPRSPGIIHETRDSDLTLDRRFV
Ga0075020_120618	Ga0075020_1206182	F029031	FKGQQNLVSGSDPGTLIRWQTYQTECWRGAKGNRAEHKGELLKRQIG*
Ga0075020_120815	Ga0075020_1208151	F081359	LERKTAVCREASIQGKRNQTLGSRTAEHSALLDEMLSTVHAGDELGWK
Ga0075020_121517	Ga0075020_1215171	F100490	NIGQFTRLLRSLELGAVSHRTVLLLWDQKRLLRMRDRYGGPKKHLPTPGLML*
Ga0075020_122406	Ga0075020_1224061	F010305	LKFSGRKALDGPATRPKTPLAVENGVGKLTAPEKGAPNVSMGKRDWRTPIP
Ga0075020_122474	Ga0075020_1224741	F027759	SQIEAARFTDNPGRPGKSQVRLVDLTPQNRGASCGEAKFTSSSGGVRTPSNANEELGSEKRLETVSS*
Ga0075020_122474	Ga0075020_1224742	F000203	DKWGMGVRHALFPVPAFGATLAGAAGFPTPFSTASGVSGLVAGPSGALQRTDFE*
Ga0075020_124352	Ga0075020_1243521	F052605	KRAAESKIEVVRFRIIPGDWGKVRSGWLIWLLINRSASFGEAEFTGSSGGVRTPSNANEGLGGEGR*
Ga0075020_124432	Ga0075020_1244321	F000734	VKTFRIVGDITNDTAGLKMKGNLRVKRRDPWHWANALPKAAADPAL
Ga0075020_124602	Ga0075020_1246022	F071600	LLLCISTVRTALAGANKIETAQRKTPKGGQKERTHREDHGNSAGSVKNFQAPAMLKTTPLDCELKAT*
Ga0075020_124929	Ga0075020_1249291	F027759	KRAAESKIEAVSFQDNPRRLGKSQVRLVDLAPLNRSASFGEAEFTSSSGDVRTSSNANEGLGSKPRLETAAS*
Ga0075020_124929	Ga0075020_1249292	F008512	LLLCISTVRTALAGLSKIETAQRKTPKGGQKERTHREEHGNSAGSVKNFQAPAMLKTTPLDCEIKGNLREKRRDPWFGANAPPKAVADPEPVVKTRMKFAGVS*
Ga0075020_125121	Ga0075020_1251211	F001296	MEVAERRQLLRASEKPLRATGSGQEAASGDPGSIDPGAGENSQRGAERRIVRRSCSQCSMPCMPVESQAGNQVTW
Ga0075020_125200	Ga0075020_1252001	F001296	MEAAERGQPLRASEKPLRATGSGQEAASGEPGSIDPWAGENSQRGAERRIVRRSCSQCSMPCMPVESQAGNQVTW
Ga0075020_125265	Ga0075020_1252651	F001296	MEVAERWQPLWASERPLRATGSGQKAASGEPGSIDPEAGENGLRGAERRNVRRFCLRCSMPCMPVVSQAGNQVTW
Ga0075020_125302	Ga0075020_1253021	F002020	LTTGMHGIEHREQERRTFRLSAPRWPFSPASVSVLPGSPLAASCPEPVARNGFLLARNSCRLSATSIPGSKLPACYFASFQIASVPVRPFGSTTASRIAPVAAASLPGARCTSTTWFSWPRPRSPLPSGTFTSLGIKAFNRVCCLPVRLTNPPDFLSLPAARSNESLGCGSSFQVRYVSA
Ga0075020_125621	Ga0075020_1256211	F081359	VCREASIQGKRNQTLGSRTAERSALLDEMLSTVHAGDELGWK
Ga0075020_125649	Ga0075020_1256491	F025923	QSQRGGLKKIAKSTAGIIPGDRGKGDGSWCRFPLQTALAV*
Ga0075020_156305	Ga0075020_1563051	F022652	SRVHGTIERTTRMLSVRSAAKCALSFACRSPLPPFSLPRVNAANALFGLRTLPEPESRYGLSLSRNDAFAPFRGQSSRPAPSIPHRTPSRVRSIPSSSAPFGFEADPGRSHRLTPVSRANFRRSRDFRPSPLPFRPFPAFQIKAFDWLHPRKLASPDARLSFAPRDALFRFRLGSLLKTPVSSCSAI
Ga0075020_160811	Ga0075020_1608111	F018868	MRPRALLAAVSGVGEHTARESEAPNVCAGKERVANAH
Ga0075020_161269	Ga0075020_1612691	F105212	KGSPGKGGSGQKFLIELEDKSNGSQDLRQGRVGVQDHKEQSDGIRTAKKC*
Ga0075020_163607	Ga0075020_1636071	F002557	VLIHSSNRLPSGNCDSLRTETCLNYLIRLGAVSNRPLSLSPFFACTDGARTPPEELVNPASAPG
Ga0075020_164875	Ga0075020_1648751	F046349	RFTASLSADMPGTELRKQVSRTDSRSLPATAFQRQRINATKSVCSYYLFGAGFSSRPFTRSERLSAHRTTIPRSKLLTCDFDALLFRLPAR*
Ga0075020_165087	Ga0075020_1650871	F014264	GSGTMIRRAKRIRDYFWRGGERWKIGQLVRVSFSVWKRVEHYNPEGSRGPDGE*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300007159: Freshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaT_CSR_2013 (Metagenome Metatranscriptome)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences