NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Sample 3300025793

3300025793: Wetland microbial communities from San Francisco Bay, California, USA, that impact long-term carbon sequestration - Muzzi_PWB_D1 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300025793 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0111376 | Gp0101363 | Ga0210065
Sample NameWetland microbial communities from San Francisco Bay, California, USA, that impact long-term carbon sequestration - Muzzi_PWB_D1 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size181792879
Sequencing Scaffolds28
Novel Protein Genes28
Associated Families26

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria7
All Organisms → cellular organisms → Bacteria → Proteobacteria4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1
All Organisms → cellular organisms → Bacteria3
Not Available7
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → unclassified Solirubrobacterales → Solirubrobacterales bacterium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Chromobacteriaceae → Chitinilyticum → Chitinilyticum aquatile1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameNatural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Marine → Wetlands → Unclassified → Natural And Restored Wetlands → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Alternative Ecosystem Assignments
Environment Ontology (ENVO)Unclassified
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: San Francisco Bay, California
CoordinatesLat. (o)37.926434Long. (o)-122.509186Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001506Metagenome / Metatranscriptome681Y
F002483Metagenome / Metatranscriptome555Y
F008223Metagenome / Metatranscriptome337Y
F017764Metagenome / Metatranscriptome239Y
F018371Metagenome / Metatranscriptome235Y
F018541Metagenome / Metatranscriptome234Y
F021102Metagenome / Metatranscriptome220Y
F021303Metagenome / Metatranscriptome219Y
F024806Metagenome / Metatranscriptome204Y
F026568Metagenome / Metatranscriptome197Y
F029006Metagenome189Y
F029446Metagenome / Metatranscriptome188Y
F030933Metagenome / Metatranscriptome184Y
F035835Metagenome / Metatranscriptome171Y
F036294Metagenome / Metatranscriptome170Y
F045206Metagenome / Metatranscriptome153Y
F049002Metagenome / Metatranscriptome147Y
F051143Metagenome / Metatranscriptome144Y
F053306Metagenome / Metatranscriptome141Y
F063111Metagenome / Metatranscriptome130Y
F073180Metagenome / Metatranscriptome120Y
F074892Metagenome / Metatranscriptome119Y
F082775Metagenome / Metatranscriptome113Y
F087352Metagenome / Metatranscriptome110Y
F097365Metagenome / Metatranscriptome104Y
F105195Metagenome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210065_1000002All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria145630Open in IMG/M
Ga0210065_1000131All Organisms → cellular organisms → Bacteria → Proteobacteria21840Open in IMG/M
Ga0210065_1000435All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria11512Open in IMG/M
Ga0210065_1000828All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium7781Open in IMG/M
Ga0210065_1001112All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria6492Open in IMG/M
Ga0210065_1001603All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria5099Open in IMG/M
Ga0210065_1001834All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria4668Open in IMG/M
Ga0210065_1001840All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria4662Open in IMG/M
Ga0210065_1003723All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria3036Open in IMG/M
Ga0210065_1004463All Organisms → cellular organisms → Bacteria2756Open in IMG/M
Ga0210065_1006815All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria2180Open in IMG/M
Ga0210065_1007606All Organisms → cellular organisms → Bacteria → Proteobacteria2059Open in IMG/M
Ga0210065_1008781All Organisms → cellular organisms → Bacteria → Proteobacteria1910Open in IMG/M
Ga0210065_1011334Not Available1675Open in IMG/M
Ga0210065_1013058Not Available1553Open in IMG/M
Ga0210065_1013441All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → unclassified Solirubrobacterales → Solirubrobacterales bacterium1530Open in IMG/M
Ga0210065_1016423All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Neisseriales → Chromobacteriaceae → Chitinilyticum → Chitinilyticum aquatile1381Open in IMG/M
Ga0210065_1018476All Organisms → cellular organisms → Bacteria1303Open in IMG/M
Ga0210065_1022470All Organisms → cellular organisms → Bacteria → Proteobacteria1175Open in IMG/M
Ga0210065_1058162Not Available715Open in IMG/M
Ga0210065_1059598All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium706Open in IMG/M
Ga0210065_1065809Not Available670Open in IMG/M
Ga0210065_1066643All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → unclassified Solirubrobacterales → Solirubrobacterales bacterium666Open in IMG/M
Ga0210065_1075077All Organisms → cellular organisms → Bacteria625Open in IMG/M
Ga0210065_1075800All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia bacterium622Open in IMG/M
Ga0210065_1083311Not Available591Open in IMG/M
Ga0210065_1090822Not Available564Open in IMG/M
Ga0210065_1097516Not Available542Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210065_1000002Ga0210065_100000255F051143MYKFAQEEGLERVATMTTLEAVAYANRLSNRLKRDDCTDEERTNALELLRQLTERVPFLKITLEQPSFCRIGSSYFDKPARSREWA
Ga0210065_1000131Ga0210065_10001312F008223MGFFNRLFGKTVRPPSPVEEVTRILERFATATSMGVDREDLARYPARQRQVMAFHFGAIEYLAREFQLDETQLLGVFVVFLDTYFIMPITETGSISERVQGFYDKPEERNYREAGADVCRRWHALNERRAPLQLGVMLQAS
Ga0210065_1000435Ga0210065_10004355F053306MKTKLLSTIASTLILSACGQPEPITYESLVWVNNYYVEHPVASLSATAGGWLFRGAREFGTEIRIGFLLPSPMNPDPAKRQAVLNTICPAKSETIWKALPEENKLVITVWTQDNKFKDSVTC
Ga0210065_1000828Ga0210065_10008284F018541MRSFWVDFPVSDEQYSKLDLRWRRRQNFYEIKNPPPPEIRIRSFCTFGGEDYRIISLEARGDIEAYHHALEIMHKWIVENLGEY
Ga0210065_1001112Ga0210065_10011124F097365MVTNSDWREMKRRAFDVFKYEGRMSVPDLEQIVNIGCADGDFDEYEKEVLINIISNLTRADMNDAMWLKIDELIHKFELHDDSEAFIEHLPEEYELPE
Ga0210065_1001603Ga0210065_10016035F018371MQEMEVHVNGPEGANRLFMHSGMADVEIRGGLPHPRWTLEVVCFEVGRTYDLSEESIIKINASAALAGGRMDGVASFAGWQIFGAAGELDNESRRVRMNIAAGARDTQAFLEQISFQVNILARVKE
Ga0210065_1001834Ga0210065_10018345F049002MAKADYDKAQTELINAIEKDAPCTFDNPIPVLVTLDNGVKYEGLAYEVQAKSDNFPDGLVMVRSGSTDIGVPVSYIRGK
Ga0210065_1001840Ga0210065_10018405F001506MNRILYESRCRCNEEFLITKKRSSSNRSEGKPLQYPKPSEITSKTFQIKYEKELSSIAKFVLNSFQNKYIYYAIDDILYLLKSNPIERDHLLAIIYSPVLSLQNNFSINFFDIWINEIYINEVPKVNKFITNDFQNFEQFSYITIKLLYKTRVPIKKQDSLW
Ga0210065_1003723Ga0210065_10037236F029006LGDPDLQYLAWLGDLKLYIVAAAIALVSMPWIAEQLDG
Ga0210065_1004463Ga0210065_10044633F029446MLILLIVATGIVVGMLPGLLKLDNLFSVTNMVVGSVGAFIGAFLGFGNAPLFLKYPLLNEVTLMVGISFLFVLVKVLLTRN
Ga0210065_1006815Ga0210065_10068152F021303VLDHSSEFVELVYRDAPAEYRRLMALERFRLELARQSRFNHGKLYAYAEFVVFRREFRERFPDASPAACINAFSSLLLKNDISVTNLVEFVEGPDHRGQRLLNEPPASGGKGNLTS
Ga0210065_1007606Ga0210065_10076063F030933MINDHQTDELRHKRAQAVKTAWILGIIALAIFATFIGSAIIGR
Ga0210065_1008781Ga0210065_10087811F018541VSTGWKNMYSPKMRSFWVDFPLTDEQYSKLDLRWRRRLNFYEVKNEPPSGIRLRSFCTFGGEDYKILSLEARGDIDAYNDTIKIMDKWINETLGEY
Ga0210065_1011334Ga0210065_10113343F029006ERIMNKVIIALMAIYFIGDPGLQYLAWLGELKVYIVAAAIALVSMPWIASQLDG
Ga0210065_1013058Ga0210065_10130583F024806MTTNSNFNFINNTTVTLELPFSEHIEELRQRIFLLFWIILLLTCVAFIEVK
Ga0210065_1013441Ga0210065_10134412F002483MLNTLPMPIGFLRRRSKKRPQRAAAPWPSSPLPPRRPPSYYLVAGVALDRELERLRALPVFAAGPLAARRPQLKVRRASKRPNKLGFAVPDEFRLQVTAYPGIGSGDILETLLHELTHLHVGRAAEAHAWHGRTFKAALAQAMREAYGVAIPPPSHTRHGIYAAAIDATASAAQSGDEG
Ga0210065_1016423Ga0210065_10164233F036294VTVMGRGSSEEAIVGVKPIANEDAATYPRVKLSESDKEVGAEGRNM
Ga0210065_1018476Ga0210065_10184761F063111MLTTSVAVVRKMLDAVAGSAPSFWSVIGTSTPVIPLATHAPVI
Ga0210065_1022470Ga0210065_10224701F105195MTVLLVWSLMDLQSPRIITPDKYVIDLLETDPTIWVNHISEENKQRVVAEVLRWETAVGAGADATEAYGYAVGGIGVDFQTWLIKENDSCSS
Ga0210065_1058162Ga0210065_10581622F073180MKKEFTQLQLTRLVYGETTKAESDMLLELAATVPQIANTLETLKMGKETLGKDRFTPSDKVINFLLGYSASSAPVSAS
Ga0210065_1059598Ga0210065_10595982F026568MHKPTPYKEICDPFFHYTRGVLYFDEECFRFTAYRVPYMELDSKTWETEQAFTADYRRM
Ga0210065_1065809Ga0210065_10658091F074892IMTAMTSKYVSIVLLGLLLSSCAERGENVYKSWVGPDRPNMAIVTLRLGDDVRDITVRERVLPRSEYGTLLLVPGQYTLYEDDGASIGITIRPVLMNTEKARASGELILGHTYTLRAGKSKDGGERALWIEDARSGEVFIDTR
Ga0210065_1066643Ga0210065_10666431F021102VRREAPIRRRNPSGEMVWLARYTGRDGKRRVAKPSWNRGKGTFRRKGEAQRAIDEAYGLSDSPDTLGDYFATWTERHPRSERTNATNEHRISRATEVEIEGIALKDWPMRELRRRHALAVVDHLLRVQSRATTGVVGILRSLSAMAEDAISDEVCDLNPFKGMRIRANDPRAKKKPRPIRVFSFEQ
Ga0210065_1075077Ga0210065_10750772F017764VSVTLTVNLDADILQSAEQEARARHTTLPELVSQQLRLMARNWQDSNAGKTPVTDALRGAVELPVDFNERDALTAELENRHGVRE
Ga0210065_1075800Ga0210065_10758001F045206QLDERRIVEAIVRGPGLSKSGRSAFGAAMPTAASLEEPS
Ga0210065_1083311Ga0210065_10833112F082775MSEPDILYPAIFVFSMLLTGLLLTMWEFSRLQKRQQQKTDRDEPVSDPGFRASRGNVRKVSNF
Ga0210065_1090822Ga0210065_10908222F087352MYHPNEVIEDIRERLDRMVLDFKALLEENKQLETENKSLAHSLEEALNKQEILSKRLDTISQETLRDTKGITHWKTETRKEIRSIMKEVEKCIPQAESLLEK
Ga0210065_1097516Ga0210065_10975162F035835PIWRRTSRKKFIESVRRRDTNPKTGRAWFVVDCVDCGRVMGIGEKERRPLAKGGMSKKARSVFEIDHVEGITPLTDIKETLGQHFYELLYGRQEVVCYACHKHRTAKQVAERKENKSK
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