3300000864: Marine plume microbial communities from the Columbia River - Metatranscriptome 25 PSU

Overview

Basic Information

• IMG/M Taxon OID: 3300000864
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0084963 | Gp0056399 | Ga0011724
• Sample Name: Marine plume microbial communities from the Columbia River - Metatranscriptome 25 PSU
• Sequencing Status: Permanent Draft
• Sequencing Center: University of Maryland
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 24148901
• Sequencing Scaffolds: 37
• Novel Protein Genes: 38
• Associated Families: 37

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	1
Not Available	11
All Organisms → cellular organisms → Bacteria	1
All Organisms → Viruses → Predicted Viral	7
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium → Strombidium inclinatum	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Cryomorphaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium TMED194	2
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	3
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Caudoviricetes sp.	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Saprospiria → Saprospirales → unclassified Saprospirales → Saprospirales bacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Maribacter → unclassified Maribacter → Maribacter sp.	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → Planktomarina → Planktomarina temperata → Planktomarina temperata RCA23	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micrococcales → Cellulomonadaceae → unclassified Cellulomonadaceae → Cellulomonadaceae bacterium TMED98	1
All Organisms → cellular organisms → Bacteria → environmental samples → uncultured marine bacterium 580	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Freshwater And Marine Microbial Communities From The Columbia River, Usa, Of Estuaries And Plumes Across Salinity Gradients
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Neritic Zone → Unclassified → Freshwater And Marine → Freshwater And Marine Microbial Communities From The Columbia River, Usa, Of Estuaries And Plumes Across Salinity Gradients

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): marine biome → plume front → sea water
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Columbia River plume, coastal ocean
• Coordinates
  • Lat. (^o): 46.235
  • Long. (^o): -124.16
  • Alt. (m): N/A
  • Depth (m): 1

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000820	Metagenome / Metatranscriptome	878	Y
F004327	Metagenome / Metatranscriptome	443	Y
F007530	Metagenome / Metatranscriptome	349	Y
F009597	Metagenome / Metatranscriptome	315	Y
F020544	Metagenome / Metatranscriptome	223	Y
F021777	Metagenome / Metatranscriptome	217	N
F024267	Metagenome / Metatranscriptome	206	Y
F031053	Metagenome	183	Y
F032578	Metagenome	179	N
F033402	Metagenome / Metatranscriptome	177	Y
F033869	Metagenome / Metatranscriptome	176	Y
F036552	Metagenome	169	Y
F036671	Metagenome / Metatranscriptome	169	Y
F043080	Metagenome / Metatranscriptome	157	Y
F043755	Metagenome / Metatranscriptome	155	Y
F044732	Metagenome / Metatranscriptome	154	Y
F044912	Metagenome / Metatranscriptome	153	Y
F051262	Metagenome / Metatranscriptome	144	N
F053628	Metagenome	141	Y
F055525	Metagenome / Metatranscriptome	138	Y
F055657	Metagenome / Metatranscriptome	138	N
F058189	Metagenome / Metatranscriptome	135	N
F059360	Metagenome / Metatranscriptome	134	Y
F070056	Metagenome / Metatranscriptome	123	N
F070157	Metagenome / Metatranscriptome	123	Y
F071199	Metagenome / Metatranscriptome	122	N
F074467	Metagenome	119	N
F076493	Metagenome / Metatranscriptome	118	Y
F080085	Metagenome / Metatranscriptome	115	N
F080933	Metagenome / Metatranscriptome	114	N
F083245	Metagenome / Metatranscriptome	113	Y
F087118	Metagenome / Metatranscriptome	110	N
F091581	Metagenome / Metatranscriptome	107	Y
F094948	Metagenome / Metatranscriptome	105	Y
F099287	Metagenome / Metatranscriptome	103	Y
F100409	Metagenome	102	N
F100684	Metagenome	102	N

Associated Scaffolds

Scaffold	Taxonomy	Length
OpTDRAFT_1000160	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	708
OpTDRAFT_1000321	Not Available	530
OpTDRAFT_1003699	All Organisms → cellular organisms → Bacteria	1840
OpTDRAFT_1004612	All Organisms → Viruses → Predicted Viral	3153
OpTDRAFT_1005475	Not Available	982
OpTDRAFT_1005811	Not Available	2630
OpTDRAFT_1006214	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium → Strombidium inclinatum	1183
OpTDRAFT_1007172	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	1482
OpTDRAFT_1008207	Not Available	699
OpTDRAFT_1008219	All Organisms → Viruses → Predicted Viral	1878
OpTDRAFT_1009419	Not Available	1298
OpTDRAFT_1009463	All Organisms → Viruses → Predicted Viral	2070
OpTDRAFT_1010189	All Organisms → Viruses → Predicted Viral	1297
OpTDRAFT_1012328	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana	1778
OpTDRAFT_1012854	Not Available	578
OpTDRAFT_1013738	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Cryomorphaceae	1243
OpTDRAFT_1014165	Not Available	888
OpTDRAFT_1014530	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium TMED194	770
OpTDRAFT_1014547	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium TMED194	767
OpTDRAFT_1015252	All Organisms → Viruses → Predicted Viral	1293
OpTDRAFT_1015400	All Organisms → Viruses → Predicted Viral	1350
OpTDRAFT_1016332	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1129
OpTDRAFT_1017048	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Caudoviricetes sp.	1453
OpTDRAFT_1018244	Not Available	620
OpTDRAFT_1018629	All Organisms → cellular organisms → Bacteria → Proteobacteria	1308
OpTDRAFT_1020705	Not Available	835
OpTDRAFT_1021406	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Saprospiria → Saprospirales → unclassified Saprospirales → Saprospirales bacterium	896
OpTDRAFT_1021765	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Maribacter → unclassified Maribacter → Maribacter sp.	1019
OpTDRAFT_1022483	Not Available	524
OpTDRAFT_1022653	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → Planktomarina → Planktomarina temperata → Planktomarina temperata RCA23	587
OpTDRAFT_1022915	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micrococcales → Cellulomonadaceae → unclassified Cellulomonadaceae → Cellulomonadaceae bacterium TMED98	718
OpTDRAFT_1024060	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	568
OpTDRAFT_1025287	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	623
OpTDRAFT_1027399	All Organisms → cellular organisms → Bacteria → Proteobacteria	571
OpTDRAFT_1031260	All Organisms → Viruses → Predicted Viral	1309
OpTDRAFT_1033383	Not Available	570
OpTDRAFT_1034496	All Organisms → cellular organisms → Bacteria → environmental samples → uncultured marine bacterium 580	716

Sequences

Scaffold ID	Protein ID	Family	Sequence
OpTDRAFT_1000160	OpTDRAFT_10001601	F020544	RCQTGIKMKFYEPPLTIDSMTPAQKANACSAGHGAIWKKIADGPDEIGIVLEHDALMYYKPSIPIQDNTIVVLGYKVTDPSRYRAFDSIREQPKQLISIDGHEGAHAYMMTKKTAQLLVDEIEEHGILGAVDNAYFIRGQRRTKVPLAIMSPTPALGWLRKSTIWLDSADRNYKFIPSFENYYK*
OpTDRAFT_1000321	OpTDRAFT_10003212	F059360	MIMTLFKEVLVPANLXXXXXXXREGQALFEITGRTKFVGCNLSCMLKFKA*
OpTDRAFT_1003699	OpTDRAFT_10036991	F007530	MDKHPYDELIEIVAVKMKEYENDGLGYGIFEKVDKNLNLARGTAWDASGYKDYADFVVFNDV*
OpTDRAFT_1004612	OpTDRAFT_10046124	F024267	MKIEITQYGHKSTYEFGHEDVDLEELLFYIERVIRLTGYEFKGHLEIVNEEQ*
OpTDRAFT_1005475	OpTDRAFT_10054751	F004327	MERTFIKIGTKVLTRHGEAKVTGIELTKDGSKYGIGMDKIFVEDKDRCVFDMDNGHWSYGYQ
OpTDRAFT_1005811	OpTDRAFT_10058113	F053628	LKLEISHLVVNGCSYTYGHGIDDPIVDSWPAIIAERLGVPIVNLAIPGQGNDAIFRRTMQYFYKDLLHDSKPFYIHAYTQSSRKECYLLEGNAPHQYWIVDGQGQISNLEKEIILNSDDHYYNLLEQHKFHIWASINNLLDANNVPHLMSDYMPATASHVKEFEEKYETIIKNELYIHSGKLQNFNEVTQDFEKTPCLHETNEGHKHLADHIWKEIEKRYDDIEVIDLPHAKLHDILIQTPKTTEDLKSSHHNPVNYYPRVFCRNVWYFKELGVDYLKKNWDGKPGDTPKRP*
OpTDRAFT_1006214	OpTDRAFT_10062141	F000820	NLKNLVTDKPAPITVALAQKSDADGLFKLMDANVTRGNLKNLVTDKPAPITVALAQKSDADGLFKLMDANVTRGNLKNLVTDKPAPITVALAQKSDADGLFKLMDANVTRGNLKNLVTDKPAPITVALAQKSDADGLFKLMDANVTRGNLKNLVTDKPAPITVALAQKSDADGLFKLMDANVTRGNLKNLVTDKPAPI
OpTDRAFT_1007172	OpTDRAFT_10071723	F071199	MRFLFALSFLLPVDAFGQSDSAQSPEPLGMEQTYTLPFKAHFESGPYQLFSPNTSANNSITGNLSGLQLSMRIHRHFSVGLSVQDAQSQALTETGELLYLDQMRWAGFLASGFLIGVDEYSPWDLSASLGWGYARSSFTETPGVPLVYHQTGYPWVFRVQGHYRHRDSPFLFKHCIILPVEIAFGPQTTLDMRTDKLRTTWLWSLSWPLMGGFLSGGC*
OpTDRAFT_1008207	OpTDRAFT_10082071	F100684	DIKSKPSTANKQRVKVQRLTSQEAQEFRERMGLSNSYLVIGNTIKGGRK*
OpTDRAFT_1008219	OpTDRAFT_10082193	F051262	HRGANAGEKFEVRTVKTLDNFFKTRTDNETSEVVTLMSESYAPFANAEIVGAKQRTGATKKEGIPIDKLGAIIGDIILTDNQNNEWYISLKDINGNTFSSYSGAASLFNSAGDLQPNSAGAKFLNTFGVDLNRVQEGFDERGSINKVRPKLAVSKASAREIEKIFNRAWGMNYFYVRRMRTGWKVFWLGKTKLDKLSQNIKIDDIRYPSTKSKQITILCSNTVENYVIELRNSKAGEYPNDTKFKVKK*
OpTDRAFT_1009419	OpTDRAFT_10094192	F043755	MLRTSRKLTMQSNNSASLHLFVFFGSELGLAVGDVNVQSGGSFNDGGPFLGADTGGDFASPGSVRHHQAVKFVQVVNEKLLETHLVSAGVSGVFVGSVTDAWVASLTTESSSEGTIDTLWSSP*RVSDSNESIDLVSGELLVSLLQERVLANSFLCHF*
OpTDRAFT_1009463	OpTDRAFT_10094633	F032578	MIDPIEGRAYDVRSEDILALNYIKTQIQSLDHERRDQYSTLLIDAQSAKRNINLSANKSHRRYEIARGILLLMQDGQFDRDLVKGICSHITKETYTKAGEALGHLNAAQAELFAQICYGITADQVTIQYIPEQNTFRVQEESK*
OpTDRAFT_1009463	OpTDRAFT_10094634	F087118	MTDIFLQDGGSKYPALKFETPGDTHSGKVLEVKKLEDRDPQGNTKTWDNGDVRYVFVFTINTGTSM
OpTDRAFT_1010189	OpTDRAFT_10101894	F031053	MKQNEQHENYGLYITQNTYTMDFYCFSRDVADLYWSGEPCKKSSGKTSQEALSNYKNGLYSNK*
OpTDRAFT_1012328	OpTDRAFT_10123282	F094948	MTAAWALNCHYNIAHVLPTPQTITTGVGVAKCWADLEILAQSEARCRPTHGYKSATITSTKALQVFTNLLGTHTVPIHQYIC*
OpTDRAFT_1012854	OpTDRAFT_10128541	F076493	SVTTDPGLIFHWKFPRCFSEELRWLATYVALSRPPSLAQLISVGLPDKLRNIIEAGPPEGILSRFDDMFKEKEEATHLRAAEVMRELGWDATD*
OpTDRAFT_1013738	OpTDRAFT_10137382	F080085	MKQPLLVFLPFFMALPLCAQEVERPQTTFKADSIQLDSNGIRMFGEEVEMTLSPDVKVKFEPKSKPSKQEKVYRFGGQTMSFGFYPGFYSGANFSGAEGFNNPTSSWGDGQVDYVNRTSYEWFYVQERWKESPIWGHLGLAWDFIGVDFNPNAYLSTTFLDGVPNGLAVLQAPATSEMEVFWRRSQFLINYLTLNSNFVFNASRSGRKGLSLSVGNSMSLRMGKPTMYRDYYITGLGRVNDRVSSNFYAMRWAYGVQARLGFNNFFIEARKSATPVFTSEAQMPVAFLGNIGFGYSVKW*
OpTDRAFT_1014165	OpTDRAFT_10141651	F055525	MATSEEKTELVEQIKGPRFYSIQVSGYGGESAYMTITKEAHDFW
OpTDRAFT_1014530	OpTDRAFT_10145301	F070157	EPPLNPYNSKGTLADLGQTFVLETNITGNSSTPADSLWKLDDEIQFSSGGVGYLSWDDSLDALQGTVPGDVANLRTIRVRNLKNGQGFAVGDTITSESGGTGKIQSIGIDDFPNRAVGRGGGCVLADRRVLDTDSLYTYVLCFGFTPRTQNGLGYVARDGAGVNGIGSLSIFVRCAFYALNGGQMTLNNSGTQFGDISMRAKGTTQFFAPKSTTQTIVGNTEFAQSIDYSADLVIDDMVDYLTSNTANGGLGYQEY
OpTDRAFT_1014547	OpTDRAFT_10145471	F070157	EPPLNPYNSKGTLADLGQTFVLSGVTGNTSNPITSLWKIDDEVVFSSGAIGYLSWDDSLDAKKGIVPGDVNSSNTIRVRNLKNGKGFAVGDTITSESGGTATIASIGIDDFPNRAVGRGGGCVLADRRVLDTDSLYTYVLCFGFTPRTQNGLGYVARDGAGVNGIGSLSIFVRCAFYALNGGQMTLNNSGTQFGDISMRAKGTTQFFAPKSTAVPIIGNTAFAESIDYSADLVIDDMVDYLTSNTANGGLGYQEY
OpTDRAFT_1015252	OpTDRAFT_10152525	F033402	MVEITLEGLNARQKVLADILWSIEEWSDAERFIATLPKREKAECESIVEMMKMELVESYRKGMAEDGMLPDNLEAKRVIDKFRLTK*
OpTDRAFT_1015400	OpTDRAFT_10154004	F033869	MLKKTYDVVYWTVEGEKELVNSFSTKTEAEETYLKCVEGDKEAQENQSYDIEESYIGSPGH*
OpTDRAFT_1016332	OpTDRAFT_10163321	F099287	LNKLLRISTVFLLAFGWLFIAPTEANSDDPLTVAAQEIQELNDSIDDLGYKDKFISLIEEAEDKYALAVSAKETQTQTSATYDTSLVLKATAGEEKASAQTAVDGQTVVVATALTNKNNAYDALGVANINLQTAQQALDSAGSSGLAPR
OpTDRAFT_1017048	OpTDRAFT_10170483	F070056	NKYMEYAYMGKSLEKVLKPDGSEVWELVELREPQPEPEPEVCKAVRKRKPSKPAEETPTSTFDS*
OpTDRAFT_1018244	OpTDRAFT_10182442	F083245	MELFIHVAFCFFVGVGIGAILIQLSALFWMFWDMFKPKD*
OpTDRAFT_1018629	OpTDRAFT_10186293	F100409	MSLKIKTTPEIAAKLKDAKTFDARLFQPPHSQADKREMQKLLSDLQNGIRVFILIHLGR*
OpTDRAFT_1020705	OpTDRAFT_10207051	F044912	PRQCHPRRKVPDHHRPDPGAYSLTALVAGTSEAQQEQLIAEHKILIESYATYLKVEEAGKELVLYAAGDNALAALKKQYIGFGNVTIHGMIDHLRTKTAIRMTMAQKHEYRTIGYNTPWDPSTSITVYFTHLNCFQISLVDRGIATSKEEKVMAAGAQMWESEMFTEEQMLAWENKPAADQTWVNLQAYFTEKWLERKQYSSSTAK*
OpTDRAFT_1021406	OpTDRAFT_10214062	F009597	MVCLDGKDDWIYVTKQTEHCWDLQPELFEDAHEAMEFAQRFQLPDKPENVMVVDYYEDP*
OpTDRAFT_1021765	OpTDRAFT_10217651	F043080	MTNTNNTNTMTVYTGTFVTQRGEQRTMNFIRISEAPDGVFPMNLRERNLKAGYETVWDIDRQQYRTFNSNTQIGSISSSSRDVSIRLF*
OpTDRAFT_1022483	OpTDRAFT_10224831	F055657	TPEEAKTWILDYYNSKITTDYMGTNTCDYIFESVYTADSYTVYWAHANDDYGFNPENVYYYANGLVDEIISCVKDGLDIFVDEEIYDELYIDDLLHEQYIIVQDRIESEKELNDTE*
OpTDRAFT_1022653	OpTDRAFT_10226531	F036552	MNATTPPLFSEFIQMKKQNPLRYWTPAAHAQMARSYQHHGPAFFDLHKDKGT*
OpTDRAFT_1022915	OpTDRAFT_10229152	F074467	MTALCESETPLASKFDSTLLTSSSQVFKEIDDYTRLVDLNANPIEQLDRQTVVDLTNKTNLMLDTVDLSSYNTLRDRIEQAPLTFVEVADFVVSNNLDIGTINNDVGLYVQGASTSAPVDSYLNDLDYYLNVNLGKSISSGLCGAFANIFATLGGLFT
OpTDRAFT_1024060	OpTDRAFT_10240603	F036671	DIECGNLDWFMLRVRVMVEGIELSSEFLGGCLYKDACEVLTDGTAEDLIDMALTEAKKDVYRLYKKFQDISWELDAEGVAR*
OpTDRAFT_1025287	OpTDRAFT_10252872	F091581	GAGKPAARKAFKDIKATETAWNARGTENLIILKSW*
OpTDRAFT_1027399	OpTDRAFT_10273991	F044732	MLMTGKKFITSSKGVNMTDHYFVEVIADNGEILRWEALDKTQADFVYNQQVIIYGAENCTIGKSMDAYTL*
OpTDRAFT_1031260	OpTDRAFT_10312601	F058189	MKFSCPIDFHLPTQKLHDIYWNEFGYKLDDRTLYKDDKRIMPVVTGFLITGKDIKWPVQSLLDALDIELQTARLFVTNPHCKLQIHKDCLAQSKELRSWAINIPIANCDLGINEWFEDHNNDFGTEQFSPGGSSIMPEYFDNNYIVSESMVLNSIQLIKTDVFHRSNNTGNDNRRVVLSLRGKPDVTW
OpTDRAFT_1033383	OpTDRAFT_10333832	F080933	EKIGKYNAAVSRSGHRFMPIILDKFGNVLQKTRDMLFQMFIRKISNDRHDIAETEADFIATKKTNFWLKRASAAMAKTKAMCIINRSTNLSLSNMKRNTEKEVKTVPLTLIIDNRIDIEQESDVLIADYSFDECNYFKEDDDTCA*
OpTDRAFT_1034496	OpTDRAFT_10344961	F021777	MKKLFLLFLLVPLISCSDHQTNNSWGSYATHKETQKQEFWFTSYKTRDECLADMYWHLD