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 3300000077

3300000077: Wetland microbial communities from Twitchell Island in the Sacramento Delta, sample from surface sediment Feb2011 Site B1 Bulk



Overview

Basic Information
IMG/M Taxon OID3300000077 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0063443 | Gp0053964 | Ga0026103
Sample NameWetland microbial communities from Twitchell Island in the Sacramento Delta, sample from surface sediment Feb2011 Site B1 Bulk
Sequencing StatusDraft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size79467785
Sequencing Scaffolds24
Novel Protein Genes24
Associated Families23

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae1
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon4
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → unclassified Bacteroidales → Bacteroidales bacterium1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → unclassified Cytophagales → Cytophagales bacterium3
Not Available9
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → unclassified Geobacteraceae → Geobacteraceae bacterium1
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → unclassified Nitrospira → Nitrospira bacterium SM23_351
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula → Methanoregula boonei1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameWetland Microbial Communities From Twitchell Island In The Sacramento Delta
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Marine → Wetlands → Sediment → Wetland → Wetland Microbial Communities From Twitchell Island In The Sacramento Delta

Alternative Ecosystem Assignments
Environment Ontology (ENVO)marine biome → saline wetland → sediment
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Sediment (saline)

Location Information
LocationTwitchell Island in the Sacramento/San Joaquin Delta, CA
CoordinatesLat. (o)38.10726Long. (o)-121.648538Alt. (m)N/ADepth (m)0 to .12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002989Metagenome / Metatranscriptome515Y
F003063Metagenome / Metatranscriptome509Y
F009011Metagenome324Y
F017668Metagenome239Y
F020200Metagenome225Y
F021446Metagenome / Metatranscriptome219Y
F028913Metagenome / Metatranscriptome190Y
F030615Metagenome185Y
F035352Metagenome / Metatranscriptome172Y
F040940Metagenome161Y
F042655Metagenome158Y
F045509Metagenome / Metatranscriptome152Y
F063193Metagenome / Metatranscriptome130N
F063812Metagenome129N
F064689Metagenome128Y
F067458Metagenome125Y
F071376Metagenome122Y
F080201Metagenome / Metatranscriptome115Y
F080208Metagenome / Metatranscriptome115Y
F086688Metagenome / Metatranscriptome110Y
F089951Metagenome108Y
F092304Metagenome107Y
F102645Metagenome101Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
WSSedB1B2DRAFT_c001371All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae2536Open in IMG/M
WSSedB1B2DRAFT_c002476All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon1785Open in IMG/M
WSSedB1B2DRAFT_c002510All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → unclassified Bacteroidales → Bacteroidales bacterium1770Open in IMG/M
WSSedB1B2DRAFT_c002933All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → unclassified Cytophagales → Cytophagales bacterium1628Open in IMG/M
WSSedB1B2DRAFT_c003689Not Available1438Open in IMG/M
WSSedB1B2DRAFT_c003726Not Available1428Open in IMG/M
WSSedB1B2DRAFT_c003911Not Available1389Open in IMG/M
WSSedB1B2DRAFT_c005796All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon1144Open in IMG/M
WSSedB1B2DRAFT_c006466Not Available1080Open in IMG/M
WSSedB1B2DRAFT_c009892Not Available862Open in IMG/M
WSSedB1B2DRAFT_c010912All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon819Open in IMG/M
WSSedB1B2DRAFT_c011271Not Available805Open in IMG/M
WSSedB1B2DRAFT_c015273All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium695Open in IMG/M
WSSedB1B2DRAFT_c017285All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → unclassified Geobacteraceae → Geobacteraceae bacterium656Open in IMG/M
WSSedB1B2DRAFT_c018305All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon638Open in IMG/M
WSSedB1B2DRAFT_c019437All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → unclassified Nitrospira → Nitrospira bacterium SM23_35620Open in IMG/M
WSSedB1B2DRAFT_c021471All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria592Open in IMG/M
WSSedB1B2DRAFT_c021734All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium588Open in IMG/M
WSSedB1B2DRAFT_c022283Not Available582Open in IMG/M
WSSedB1B2DRAFT_c022615Not Available577Open in IMG/M
WSSedB1B2DRAFT_c023083Not Available572Open in IMG/M
WSSedB1B2DRAFT_c023498All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → unclassified Cytophagales → Cytophagales bacterium567Open in IMG/M
WSSedB1B2DRAFT_c023520All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula → Methanoregula boonei567Open in IMG/M
WSSedB1B2DRAFT_c024845All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Cytophagia → Cytophagales → unclassified Cytophagales → Cytophagales bacterium553Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
WSSedB1B2DRAFT_c001371WSSedB1B2DRAFT_0013712F067458MKRLVFAGLIFLVLLQGIWFAAADDSPDYAKIVVVHLTINKSSITEKSVEMRYGHPPNIEARNGDFKGTLKTADGSTIREFNLWDPRYQLGDVLEKDNESSGYLSGYXTYSDXADLVLILPYYENQMTFELYDKKTGTLLKKVNMSQAITKFQSNYPKDPGSISVSPIQFDKSVLYVITGVVISILIIGMILSMVRKK*
WSSedB1B2DRAFT_c002476WSSedB1B2DRAFT_0024762F092304MIIGFMCPLQRSNFLSDHKKQQLKREIRESLMHKLALRREAPFIGLISFIATLWGSKLFTSLSPGTGLIFQLWGYNIHLHHFNYGFVLLVVGLMLSFFEGPWIVRVQHVLFGVGLGFIVDEYWLLLTFDQSASVYFGPQSQYFSLVVAAVVTSAYSAIALSVFFASRKEIKLWTKLYQAAKTEEVNLPD*
WSSedB1B2DRAFT_c002510WSSedB1B2DRAFT_0025102F102645VTFWAGEGEDLSALRTQYNLDPAIYQVLTHGKKSFDLGDGRIIETFLVRGHSNGGNVFIIKKDMLIFSGDALGSGFGQAFPTVEKLKQVAEDSQKLVEYLKANFTPYERYRLRVYTGHWWQNAYGGFLHPNKLPIDIGYLDWRFIQDVASCANGILQGKWLVDGSGIRYIGNMAYTDAWPSAEGRAIMVCGTGTIIIPLKQAYEAAGLKMPE*
WSSedB1B2DRAFT_c002933WSSedB1B2DRAFT_0029332F064689VNCQKCDSIIVCPEGLTGEKICNKCGLVVEDSPAFKSFTQWVPEWYSNWKEEDSETLKEWLTTLRSVTCQLNIPNYPYREEAARTIRKQNHILFRSQKLSKNKRATVAALMHLVLKEYNKLRPLKEISKELSLDPKSVLKQVWILNKTLKQEENEPLKIQRRTAIDYLNEYAREITQNKELILCAKNTLIKIKRSGGNPIGLAAGAFYFSCREKKIQISKEKIGQAFHIPPRTIYTNEARIRKLLATPSPNYISILTTNQYNLKKISVDQ*
WSSedB1B2DRAFT_c003689WSSedB1B2DRAFT_0036892F086688MEKELLFEGKENTSSVNIKEFTPAGVRLEITVAGKVSGKVAGQIISTHNILMKPGGTSDLDLKSIIFSNGESILVMGKASGKLIDPTPIGKIEANLTFQTPSQNLAYLNTTKGWSEAAYNMATGEYTFKVYAVK*
WSSedB1B2DRAFT_c003726WSSedB1B2DRAFT_0037262F003063MLLPSCLLQNRRNFSMRRKMPGEVLFLEDENMFKIAVTWRRVREFLTSKGWEIQVKDEEMGMDLFRNKKTGQKVFFEHISEDFPATFIMGELSMSEFSLIASELTPEIHLLEVDRSWEGKPKTIVVAMTEEQVRNMFGRRTKMRKLAVHRVS*
WSSedB1B2DRAFT_c003911WSSedB1B2DRAFT_0039112F021446MKTLSIALMAAFMLVLAATSTGQAQSAEDIYNDPSPGGKYVYRGCNLAQVIFIRGDKLSEINELTLIIEVQGGQNSHTTRLTFPILAKRQEGNKLILDYQWPLGGDTYEATIIGGTLINRKTKGYLAGIREEMFTRE*
WSSedB1B2DRAFT_c005796WSSedB1B2DRAFT_0057962F035352VPNYSKKPVLTNSDEEYLMLIEVSEEFERQKIDKTAREKSGNPAEIVLRNRLIRRNLNLSLIPDVTIQGSKIKNDLLLLKSGVDPNQKTYLSNQVKMVIEVKNNSVGGKTLENGKQEDPSKVMRVKFNELEATTNVRNFAVVVLSEMLLPPRTPYRWRFKEDVIGKENCKVFTLVARQLYPPG
WSSedB1B2DRAFT_c006466WSSedB1B2DRAFT_0064662F042655VLDLKTFELTIPEQYLDHINKEIKKPKRPNTELLELWLERELSIENKGTYGNLPTDESHVTVQVLPNGNYKVIISDVIFGMIKSHVQPEPHSHKIHNDDLFHCWLDLKTNKVHAEEHIKVKETA*
WSSedB1B2DRAFT_c009892WSSedB1B2DRAFT_0098923F071376LKYWLEEETHLNPVGSWTLHFDWGPKGNYNWASLYFNFDGTFAYLAGANEGAWSQVDDSIILRFKRTPNEENNTVYSGTASRNFMSGIMFSSQGEKGHWYAVKKGATVFSMKENVKIPYSVDKEGKPKLDPAGRKTEKLLQ*
WSSedB1B2DRAFT_c010912WSSedB1B2DRAFT_0109122F017668MNKGRLYEEFIPIEQXSYKGYNTPELANAKIGKFLDEAKKEMPPFVEKWVNTEIENPDWKATCEAMNERTLAXEKWFIKWFGEQK*
WSSedB1B2DRAFT_c011271WSSedB1B2DRAFT_0112712F045509VVNDEGLRSYKAIAFIXSDPKSLSQNKIRYLKLGANLVSTVLAKQKPLRSFYKNLGEKLWIN*
WSSedB1B2DRAFT_c015273WSSedB1B2DRAFT_0152731F002989MARFQAAQPNGVAVQELEILVRTAVFKSANQLVGFLLQQAADRIDAAYQPQPGQQRKGRESLQVHTLFGRFELRRDYYYHEGKKQGHYPA
WSSedB1B2DRAFT_c017285WSSedB1B2DRAFT_0172851F020200MCWVCDRLENLVSGWNEERNFQEQTSSDDYHRGLSKGFSECVKDLSEAVASMRLKGICERFPEYNGPFDGKQRWDILNEI
WSSedB1B2DRAFT_c018305WSSedB1B2DRAFT_0183051F009011LTGLGVVFVLFELRHMSKHRDLEITMKLFEWAETESLRKAFRWVEKEFAFGSLEKYNRDVSKVFEVNDYPYQVESYFEELGFLVSKRFVDIDLIVDRLGSYIVSNWQRLEPWILAIRKEKADETFGEHFEML
WSSedB1B2DRAFT_c019437WSSedB1B2DRAFT_0194371F040940MGTLNNIFSLVFGINLIVVGLVAFIAGIISLVKRDGSVKKLTSIAYIIAGVTAVYFGVILSRSAYNM*
WSSedB1B2DRAFT_c021471WSSedB1B2DRAFT_0214711F080208HEGGTTMEVEEFLNVINECDVLREDIDDIRGRVALTKAEGGKLAQATEHVDKAKTILADLFPTIRSLDDEVREDLSEELNETD*
WSSedB1B2DRAFT_c021734WSSedB1B2DRAFT_0217341F028913MSLRTVVGVVSVVVWQGKDPTDQHWGCPVRERWGLRAHQQMSPALEERVAFTATLAGSYEAAAQVAGKWGCPVDDSVIHALVQRVGSVAQAQTQQRLKEPARESDPQ
WSSedB1B2DRAFT_c022283WSSedB1B2DRAFT_0222832F063812CFVSLTMSAKHHDSKKHEDAKPAPACHMCKEKYVYPEHPTPSGICHKCQTKIGVIILIIFVILGGIVFFGLI*
WSSedB1B2DRAFT_c022615WSSedB1B2DRAFT_0226152F030615FYETKVKTWLGWVSFTVFYKTDILHIHSVPSVQKSMAYERISQYCEIKGYKKKNIEISEINKAENKKWILFQRIYSD*
WSSedB1B2DRAFT_c023083WSSedB1B2DRAFT_0230831F063193KKENEKPAVSRENKLSDEEIGRMNRRAEIDNISNSNLLNNEKSSSPKDLKTTNQIIVESGHHRHGGYYMYGGGLLLVIILVIILV*
WSSedB1B2DRAFT_c023498WSSedB1B2DRAFT_0234981F080201LNGYTQWTPEWFSNWNEQDSETLKEWLTTLRAVSCQLNIPNYPYREEAARTIRNQNHSLFKSQKLSKNKRATVAALMHLILKEYNKMRPIKEISKQLSLDQKTVMKQTWLLNRILNEKKKPLKTQRKTAIDYLHESVGKLTHNRELIINAENTLEQIKRIGGNPIGISAGVFY
WSSedB1B2DRAFT_c023520WSSedB1B2DRAFT_0235202F089951MHEQGMGHGMGAMQWHDMLTMEIWNKMSDEQKKTLMKRMVDGKILMKENWIKQFQFKIETMKMVKKMLDES*
WSSedB1B2DRAFT_c024845WSSedB1B2DRAFT_0248451F080201ICNNCGLVIEDTPAFKSFTQWVPEWYSNWKEEDSETLKEWLTTLRSVTCQLNIPNYPYREEAARTIRKQNHLLFRSQKLSKNKRATVAALMHLILKEYNKLRPIKDISKELSLDAKSVMKQAWILNKTLKQEKNEPLKIQRKTAIDYLNEYVRDITQNEEIILNAKNTLVKIKRSGGNPIGLAA
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