NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Sample 3300019697

3300019697: Sediment microbial communities from the Broadkill River, Lewes, Delaware, United States ? FLC_3-4_MG



Overview

Basic Information
IMG/M Taxon OID3300019697 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0129088 | Gp0217673 | Ga0194007
Sample NameSediment microbial communities from the Broadkill River, Lewes, Delaware, United States ? FLC_3-4_MG
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size84162782
Sequencing Scaffolds28
Novel Protein Genes34
Associated Families30

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfosarcina → Desulfosarcina ovata1
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobulbaceae → unclassified Desulfobulbaceae → Desulfobulbaceae bacterium1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria1
Not Available8
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Roseobacteraceae → Tateyamaria → unclassified Tateyamaria → Tateyamaria sp. Alg231-491
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium SG8_471
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → Sedimenticola → Sedimenticola thiotaurini1
All Organisms → cellular organisms → Eukaryota1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Halieaceae → Pseudohalioglobus → Pseudohalioglobus sediminis1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Olavius algarvensis Delta 1 endosymbiont1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameMicrobial Communities From Sediments And Microbial Mats In Various Locations
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Sediment → Unclassified → Sediment → Microbial Communities From Sediments And Microbial Mats In Various Locations

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

Location Information
LocationUSA: Delaware
CoordinatesLat. (o)38.7906Long. (o)-75.1638Alt. (m)N/ADepth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012457Metagenome280Y
F015115Metagenome / Metatranscriptome257Y
F016971Metagenome / Metatranscriptome243Y
F021019Metagenome / Metatranscriptome221Y
F023596Metagenome209Y
F044506Metagenome / Metatranscriptome154Y
F044812Metagenome / Metatranscriptome154Y
F045104Metagenome / Metatranscriptome153Y
F047685Metagenome149Y
F051933Metagenome / Metatranscriptome143Y
F062772Metagenome130Y
F064770Metagenome / Metatranscriptome128Y
F072362Metagenome / Metatranscriptome121Y
F073262Metagenome120Y
F074891Metagenome / Metatranscriptome119Y
F074892Metagenome / Metatranscriptome119Y
F075466Metagenome119Y
F076890Metagenome / Metatranscriptome117N
F076930Metagenome117Y
F084398Metagenome / Metatranscriptome112N
F087210Metagenome / Metatranscriptome110Y
F088283Metagenome / Metatranscriptome109Y
F088919Metagenome109Y
F090406Metagenome108N
F093912Metagenome / Metatranscriptome106Y
F094948Metagenome / Metatranscriptome105Y
F099324Metagenome / Metatranscriptome103Y
F100378Metagenome / Metatranscriptome102Y
F101181Metagenome102Y
F105196Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0194007_1001471All Organisms → cellular organisms → Bacteria → Proteobacteria1588Open in IMG/M
Ga0194007_1002435All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfosarcina → Desulfosarcina ovata1345Open in IMG/M
Ga0194007_1003366All Organisms → cellular organisms → Bacteria1207Open in IMG/M
Ga0194007_1004752All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobulbaceae → unclassified Desulfobulbaceae → Desulfobulbaceae bacterium1076Open in IMG/M
Ga0194007_1006842All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales950Open in IMG/M
Ga0194007_1007576All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium917Open in IMG/M
Ga0194007_1011331All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria796Open in IMG/M
Ga0194007_1012178Not Available778Open in IMG/M
Ga0194007_1013489All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium750Open in IMG/M
Ga0194007_1013655All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Roseobacteraceae → Tateyamaria → unclassified Tateyamaria → Tateyamaria sp. Alg231-49747Open in IMG/M
Ga0194007_1014468All Organisms → cellular organisms → Bacteria733Open in IMG/M
Ga0194007_1014914Not Available726Open in IMG/M
Ga0194007_1016050All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium SG8_47709Open in IMG/M
Ga0194007_1017725Not Available686Open in IMG/M
Ga0194007_1018739Not Available673Open in IMG/M
Ga0194007_1019300Not Available666Open in IMG/M
Ga0194007_1019493All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta664Open in IMG/M
Ga0194007_1023427All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium625Open in IMG/M
Ga0194007_1023689All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → Sedimenticola → Sedimenticola thiotaurini623Open in IMG/M
Ga0194007_1025746All Organisms → cellular organisms → Bacteria → Proteobacteria606Open in IMG/M
Ga0194007_1030852Not Available572Open in IMG/M
Ga0194007_1032884All Organisms → cellular organisms → Eukaryota561Open in IMG/M
Ga0194007_1032948Not Available561Open in IMG/M
Ga0194007_1038402All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Halieaceae → Pseudohalioglobus → Pseudohalioglobus sediminis534Open in IMG/M
Ga0194007_1041684Not Available521Open in IMG/M
Ga0194007_1043268All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Olavius algarvensis Delta 1 endosymbiont515Open in IMG/M
Ga0194007_1046554All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Chromatiales503Open in IMG/M
Ga0194007_1046896All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium502Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0194007_1001471Ga0194007_10014711F012457MMIKDLEMSKDLDRDALSAVRGGRNSIEQGGVYAPVANAGGGFSFGSPTSIVSAPVNASSAVLNDNDLHLKLANKSADVLGSFGTEIWQ
Ga0194007_1002248Ga0194007_10022481F088919MHVEEICLSANVVDLDPDQPPEDREQSAALEQTNGMRFCRSAFTLFNNHRLAVKTQGFMQHARDYTIDIGMLDPHPKRLFKIGWSYLLSCIALCAAAWFLGSISLAVCAGLTLILAIYRSHDRLVFYSQYGRVPLVVLFNRSPDRVTLASFTDVLVQHIKDAKTRYPAANEALSEELKAHRRLMQEGGISSKRYNIVKQRILSLHSNKGVGDK
Ga0194007_1002435Ga0194007_10024352F045104MAKYAPGPRPAPLRNAPPWCGLWSGPRRSAAVLFDPVIHRQLVLSLANTEQARATLLDWLAEQSAHLVIPDTLLAQPGLHHPNQIPVAVWIAPSALLEAIRFTTGLTTRAPKHTAALLARWPTAPALRPFLRRLTASRHPEQLSLL
Ga0194007_1003366Ga0194007_10033663F088283MKTTVPVLLTFLACVAGCATDGGVTGTYRPSCVAFEGNTIELTDNRFMWDKFTDEVSVDEAGNKIDPFPGFPVRGTYTIEDDVVSLVTDVGNLAAELHLVRRPDQVYLLTDAEYDAWQQDGTVPDCALLLGAGE
Ga0194007_1004752Ga0194007_10047522F099324IMLGWVLVLSGCAAIDKGHNIEGEDYRGGYPQRGGYTRTSQHKALVSEACNIEANNLAGDKDFMADDRARRVYFSQCMQRNGYNAAGNYVGIPPK
Ga0194007_1005266Ga0194007_10052662F076890CSTPGFEEYCRYSDEYSIREADPQSLALVLGVRRGLAMEAPFVVVRSLSEHNRGAALKLHATAEPHPMPVSLDESRCAAVDWNTYTLTVDEEEWSAFWSDDRNAPFEIAIAFLDNNESLLVSKFGAAIVDTAASDYLVSCGCYWK
Ga0194007_1005336Ga0194007_10053362F087210MRFLIAALALAGAGTALAHTPDAGFLSSFGHQLTSLHHSPAAMLLGVLIVVALALVAIRNRTAR
Ga0194007_1006842Ga0194007_10068421F093912KRQKTRQPKAIITILRALLSKSKSFKIKPAAVHFNNLFFNHQSYIFKKLKQKVFIKLITSYNYRPHNGCRLKKKKRIKIRTRTRKL
Ga0194007_1006842Ga0194007_10068424F064770MDFNLKTYKRFKIKHYFKTINFFFFFHGTFLNNENXIKIEQGFVTHELKYVRVLNKLMINTLKNSIFKNLVVLIHGPIILLNNVNVKLTFKELENINPLISLLGFKLNNKVYSRKQIKNLKRMSYFENISIFHNSMKTFTKLPYCKFKSKKALTVSK
Ga0194007_1007576Ga0194007_10075761F074892SERGENVYRTWVGPDRSNMAIVTLRLGDDIRDVTIRERVLPRSEYGTILLVPGQYTLYEHDGASIGISIRPMLVNVEKARANGELILGHTYVLHAGKSKETGERALWIEDARSGEVFVDR
Ga0194007_1011153Ga0194007_10111532F021019MRKYLIQIFTKYLQTSFEIESNKDINTVEELHPHIIDFLGKSDIKWEQNDLQYTSTVNDFYITYEEVNNGSAKDGVVREENTVRV
Ga0194007_1011331Ga0194007_10113312F075466MSDEKVLCSHVLTIRFDQLEDNRVNWYIQPDETVRQVLSLSLIDLAESGAPLAAMGIRALWKLCRDGLVYNALEQANDTQVEVSKRLAVGPVEALMDLTPESLAIN
Ga0194007_1012178Ga0194007_10121782F023596LFVCAVVIALLFLKLMFDMNSSMSEMAGHVGAISQDVSEMQNSMDSMNESMLRMEQSIHGLGQAFSQGSKQFQQMNPAGMMQQVLPGSDQRTR
Ga0194007_1013489Ga0194007_10134891F074892MTAMMQKYALIALLGLLLSACSERGENVYRTWVGPDRSTMAIVTLRLGEDVRDITIRERVLPRSEYGAILLVPGAYTLYEHDGANIGISISPMLINVEKARANGELIIGHTYVLRASKSKETGERALWIEDARS
Ga0194007_1013655Ga0194007_10136552F101181MGMDDTNHVKLIVLVCVIAVLVVGISIGGPKFINAVQMHFGSKGKIELMERCIEMPGCTIGPEDLDFYERYHAIRESDAAQKIKESDTVEQLLEE
Ga0194007_1014468Ga0194007_10144682F051933MALIVLTFVSVVCVALLFIERRDLGVLQQNFNTLRQENTMLRSQLDDYRNGLATQQEAAARLSD
Ga0194007_1014914Ga0194007_10149142F012457MMIKDLEKSKDLDRDALSAVRGGHDSIEQGGVYAPVANINNGFSFASPTTIVSTPVNAPSAVFNDNDLHLKLANKTANVLGSLGTAI
Ga0194007_1016050Ga0194007_10160501F105196DLCILSVQNFRIPEGQENMHIVDRCRDPYGKLSAARRTLLKQLLNAPDRLNWERARGLIIRDIPIVTLESAVRSVRRNTAADRTPDPFTLYRALRFAVDYESRETESDCGGICR
Ga0194007_1017725Ga0194007_10177252F072362MHKLFAIGIGIYLAGDPSLSMLSLFSESKELIVAVAIALVAVPWVTSHIDN
Ga0194007_1018739Ga0194007_10187391F047685MTDEQIRLLLSLGRDEARLLLDNGEHGLYRRIQRKMVRLVRDYDVKLTLTCLQFMYCCNRQSGRNSD
Ga0194007_1019300Ga0194007_10193001F074891MSAVTHDVVLKTKSGKKRRKSVSALRKIRNALARRKLEEMHEEEVLKEQIYDVFADPDDESKP
Ga0194007_1019493Ga0194007_10194931F084398MARLELTLNFPKSFQIKTFNVKSEKKLSPLAKLILQSVQFKHFYYVRDDIFYLLKSNPIERDFLLQALYSIVISLQNNLSINFFDMWIYEIYINKVSSNNKF
Ga0194007_1023427Ga0194007_10234272F015115MRAKLAGVCLIAAALALATSVPAQDGAPTTITDIRQESNERSTRLVVQCTGPLAYTYYSPDPLTLVVDIPEVDASQVPARIDVGTAEVESLRITSLARADGRNLARLEVR
Ga0194007_1023689Ga0194007_10236891F062772MSLNGIWSCELGGAYGWEPIGTLFLQDGHVEGCGRNHYTLGTYKEKGDGAVFHIELNQFGKKRTLFGQKSEQVSVVVKAKWDHEKLIGEATLPGHRQYGIFVRFKRRADLP
Ga0194007_1025746Ga0194007_10257461F044812AQAQGWVWGHVSQADTEAAIASKIDAIVNPTTEAGVPW
Ga0194007_1030852Ga0194007_10308521F073262NQAGPSAPSTSGALVMADNPTGHLIGAARCQANNCLEGLQAPVGIATQLLAPQSTANTTGTNLNASLNRPKAIATLQDKCPMLVASLLVVCEVATTADPPVCWSTVHATLKATEWAAHHANALDSAGSETNKPVPVTSPPLVQDMGNGRFAASSTNNLTQGTSIFRIRPSCMPRRQEHLNRNRTFEVLVQ
Ga0194007_1032884Ga0194007_10328841F100378YSIVDIPKSLLHGMALTSTGRKIEHNKVVLGTQTYESIISISLENVGFTRL
Ga0194007_1032884Ga0194007_10328842F100378MSDAYATVHIPKSLPIYGMALTSTGRKIEHNKVVVVTQTYESNGWVSHEKSGFSRLRGV
Ga0194007_1032948Ga0194007_10329481F094948MTAAWVLDCHYNIVHVLSSPQTITTGVGVAKCWADLEILAQSEARCRPTHGCKSATSTSTKVLQVFINLLGT
Ga0194007_1038402Ga0194007_10384022F090406MNTLLKVPLSLFLLLVIGACSTTLTSVDDKGGNVYALPAEVADQMLKDAVSTEIPSGTLRRGSSPYPSYIGEVTWGSLDKDTITASARPAKGRKIDGTVVDGYVFEVNRKGTAPATGESTVKRIFAKLQQDAEL
Ga0194007_1041684Ga0194007_10416841F076930MIEKPIDEPTKRASHLGFRQGYEIANRTQIVETIGKDEFVNMVLETVIKSLESTVFEAISAELDLMNEKYPAFDSWKVFADAVIQGAGENFLDRTGNEE
Ga0194007_1043268Ga0194007_10432681F044506MMEQWNSGIMGSGMMQCWINGPATGGIDDKLKMVNILLKTNIPAFHPSIIPFPGHIRKPEKTYIFSVGYRNSETFN
Ga0194007_1046554Ga0194007_10465541F088283MKTKVAIILASLACTAACATNDNVAGTYAPSCVAFEGDTIELADDRFTWDKFTDEVSVDKAGNEVDPFPGFPVRGTYTVEDDVVSLVTNVGELAAELYLVHRPGQVYLLTKAEFDAWQSSGTVPDCALLL
Ga0194007_1046896Ga0194007_10468961F016971MGNAAQQSFIEAKNAVEVVVHIKEDLGDEQRDLVVSALEKTDGIIGAEFCQLRNHLLLAKYDRDIFSSQDVLKSFDSLNLE
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.