Sample 3300025228

Basic Information
IMG/M Taxon OID	3300025228 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0053073 \| Gp0101300 \| Ga0209672
Sample Name	Arabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Col_mMS_r2 (SPAdes)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

3300025228 Open in IMG/M

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Gs0053073 | Gp0101300 | Ga0209672

Sample Name

Arabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Col_mMS_r2 (SPAdes)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	110864649
Sequencing Scaffolds	30
Novel Protein Genes	33
Associated Families	29

Dataset Contents

Total Genome Size

110864649

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	7
All Organisms → cellular organisms → Bacteria	2
Not Available	14
All Organisms → cellular organisms → Bacteria → Proteobacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Aquabacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Pelomonas → unclassified Pelomonas → Pelomonas sp. KK5	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales

All Organisms → cellular organisms → Bacteria

Not Available

All Organisms → cellular organisms → Bacteria → Proteobacteria

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Aquabacterium

All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Pelomonas → unclassified Pelomonas → Pelomonas sp. KK5

Ecosystem Assignment (GOLD)
Name	Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations
Type	Host-Associated
Taxonomy	Host-Associated → Plants → Roots → Endophytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Ecosystem Assignment (GOLD)

Name

Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Type

Host-Associated

Taxonomy

Host-Associated → Plants → Roots → Endophytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	Unclassified
Earth Microbiome Project Ontology (EMPO)	Host-associated → Plant → Plant rhizosphere

Alternative Ecosystem Assignments

Environment Ontology (ENVO)

Unclassified

Earth Microbiome Project Ontology (EMPO)

Host-associated → Plant → Plant rhizosphere

Location Information
Location	USA: North Carolina
Coordinates	Lat. (^o)	35.6667	Long. (^o)	-78.5097	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

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Location Information

Location

USA: North Carolina

Coordinates

Lat. (^o)

35.6667

Long. (^o)

-78.5097

Alt. (m)

N/A

Depth (m)

N/A

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F012876	Metagenome / Metatranscriptome	276	Y
F023377	Metagenome / Metatranscriptome	210	Y
F023612	Metagenome / Metatranscriptome	209	Y
F028856	Metagenome / Metatranscriptome	190	Y
F031516	Metagenome / Metatranscriptome	182	Y
F033107	Metagenome / Metatranscriptome	178	Y
F035339	Metagenome / Metatranscriptome	172	Y
F036775	Metagenome / Metatranscriptome	169	Y
F037289	Metagenome / Metatranscriptome	168	Y
F039453	Metagenome / Metatranscriptome	163	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0209672_103291	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	3410	Open in IMG/M
Ga0209672_104596	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	2532	Open in IMG/M
Ga0209672_105015	All Organisms → cellular organisms → Bacteria	2343	Open in IMG/M
Ga0209672_105301	Not Available	2233	Open in IMG/M
Ga0209672_105449	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	2178	Open in IMG/M
Ga0209672_106135	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	1985	Open in IMG/M
Ga0209672_106506	All Organisms → cellular organisms → Bacteria → Proteobacteria	1890	Open in IMG/M
Ga0209672_106752	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	1832	Open in IMG/M
Ga0209672_107278	All Organisms → cellular organisms → Bacteria	1714	Open in IMG/M
Ga0209672_107281	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Aquabacterium	1714	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209672_103291	Ga0209672_1032912	F070201	MRTMPLQFLTWGTITAAVGSAVWLSSEDQAAVFCSVGYRATSQAMGIEVPLPAEPTRAGPSAKLPGSSAAKQLQANAV
Ga0209672_103291	Ga0209672_1032913	F050419	MSNASRPTFLRNFGRGTAARRAPDLADMGTAFALDEALEQGSYDTLAPGESPPPMRAVVPVAPWRLWLGRKLGA
Ga0209672_104104	Ga0209672_1041041	F077376	MTTYVLSLTGDEEKAANATHWATFRKAKLVSISRRTPEMPPAAAGKDSIVVTAHGELDPLDAERAAATRHPQALAALLVRTLDIQDGAGVVLADFDSEQFAADVVAEIAALGRDVVCPGRASNFAFGSRVGARAWRA
Ga0209672_104596	Ga0209672_1045963	F040711	MSHDAPRDQLASALGRDADHVVMERGWSLAFVGVDGQVRLLQFRLSKKGFDADRAADDAVFATMLDEFAAVVERLLAARWGGIAMRAAFDGEGELVERLYEAGHLARCDAVDPVSPAGRLVKDGEVVDARELLVRASARLVENWGVFERAAARDDGAYAHEARIRHWIEGTSA
Ga0209672_105015	Ga0209672_1050153	F023377	MVAALALAGAAAQAMTVSYQCTGRRLLTAELAPRQGQLHFEGQDWTVSRVPGGHEAHYVNKKDGIDVVTRERNMTFTHGSETLQCFLYSDALPGDAPQKTN
Ga0209672_105301	Ga0209672_1053012	F044583	MSHVHTPGQEILRARIRFALRRVTGFVFDIDAMLARPEIRSRRIGLWRDVADDELSSLLDQLETEFQADADDHDDAERTVVMRRAEAHAPHSPRA
Ga0209672_105449	Ga0209672_1054493	F058198	MNALTLSLLTLLALAARTVQLRMRFAGWAPLWRFTSGPFTVELRRHAEITRLGADSLEFPQPREFRVLSLRLAGIPIWSQVAIVSLPAASDERIDHIPATEFDQLFDSHFRLSWPQRRMRLTARAH
Ga0209672_106135	Ga0209672_1061352	F092337	MSALQTATFTISIRGVSEDELEAAAAAFICTLHRAGLTPHDALAAWGRMDAWEQRDFAPDAEPGPAWWRTMRVARDAAMAALDAAGLDGQQRPFTIEAVSPSC
Ga0209672_106506	Ga0209672_1065062	F039453	MPATLTPLRGDAIRVTHEDVHYEPLQRDAALGALLFALDLLGRDAIDVPAMRYADRVTLGPALDAARQYGLILQRHVARIDRGSPLLPAAVKVDDVHAWVHEAARAVPEAERDRFCWRLARRLGANPWCDERPAIALENQQFGMFEEGFEEIEAAKAGALEEAVAEAGDGATPA
Ga0209672_106752	Ga0209672_1067522	F078153	MGWIVFEAMLALAAALVVVWWTFRGRADSVDDEADAEER
Ga0209672_107278	Ga0209672_1072782	F060114	MTSSLADLLENQRIENARLAGQIVALEMAVKLLFIQHPNPTGLAVVYAKAIDELLDITLATRMPEEMRDALDQARNGLLEALRTRPAA
Ga0209672_107281	Ga0209672_1072812	F033107	MKLLNSLALLAIGYLAVTKVNKVHAARFAARPAAKPEEVQTWEGEGGGLPTGGPGPGVKVAPAAVSDPDLAHGGA
Ga0209672_107689	Ga0209672_1076892	F023612	MGHSQSTRRVTRPLRAATMAGLAALTLGAQAQGLTQRTPDSTYGGHLSAEYALTNFHATSNSIRLLGDYYFFDPSAGSNGPLLGGFRASTGIVGLAQPLSLYETRPDPLQNLPYVGLGYSRLYFNSQLSLNADFGLASQNRGHGLFSSPSSLDDVTSQLRWAPIMAVNVRYSF
Ga0209672_108828	Ga0209672_1088282	F035339	MPTTGAELTRAQLRRDRVVLWCWLPVGGLAMFLVVKAWQFVAGAAPPALYTVLDVAWIAVTFALISRRSTSRCPKCDHRWLRAFPWMSLKKVECGVCGHEMPED
Ga0209672_109576	Ga0209672_1095761	F044564	MSTVPDTTPRALRIDGPLSARAVLDHFNEKGRGLLGPGQEDAAVRIAQLLAHEADLSAAWGGLPGTDHPRHWQPATGDEAPMSDARSEHRRLDVHLAQWWALPLAVRDRQPHSVILPMGTTREALAALVRRHMPGAWWNSTVRVTIDVETRVYWGARGAVHPHAAARHACAHRGDAGSPSLTLMTLHAGRAVETAMPERLVDPDVVLRVHPGVGWLVAVPLLRFEREL
Ga0209672_110287	Ga0209672_1102872	F049682	MDQREFEAVVDEFGASAKDLVELVEQARYEQPTAVEISRLLDAREDMLTLIGKLPALRAVSPPVEIPVKLASLRTRIADARTALQTSPDSSAILHLVIDVGETFAAAVAPLQAEGRWPRGRSR
Ga0209672_111344	Ga0209672_1113443	F040670	DIGRPPPADAPMQVLPWAEDSSRSIGAEDANTRYQGELFLPGWLKIELQPTAEQGPGA
Ga0209672_112099	Ga0209672_1120992	F012876	MTKTTPQAAAVVLSAIMSLAIVAGMNGLATTQYAKADSLEMARYGQAHVAVQHVTVVARRATA
Ga0209672_112112	Ga0209672_1121122	F040130	MSRAPGFLVRTAAVLLGVVLGMAVVAGSSPWRELLKKPEPVPSAPIQRERAPDQRV
Ga0209672_114842	Ga0209672_1148422	F062395	RGRLTRMKRVPAPAPAKRVVASSHVHSESRTSFRYEATWHIDGPLLTWKATVSLPGRRWCLAGGTPEWTGGNEAKAVRDDVARSIDGLET
Ga0209672_115555	Ga0209672_1155551	F028856	MDNFSAGQSHDAKFEAGMLFDMDNPLALLRPDDNLGDEAAFPSTWQLLASGDAPND
Ga0209672_116133	Ga0209672_1161332	F031516	MVDNRINPSSTMLHFDTAQMAAITQAHFFSRVAEFIRDQTGVAAYRQAAMDTMLRTELWAPHWPTLRNASEHDAALFMCFLLACATLGVDANRATEAVRQSTQPETSMKLFLSERGLLRFSAFDVPDLTRPGAAA
Ga0209672_116715	Ga0209672_1167151	F036775	MYDQLDQMPDVPEIEDRPGQRRQARLSNAVFYAGCFALALLPASLAGILLHDFIGEPMLFLAAVVLSTWVVTTVALVKIAGPMLRCRAIVAAGGL
Ga0209672_116924	Ga0209672_1169242	F040712	ARMGPAEFRTPGAMSLRSSIVRRCLQSCFEATGLRVVNLPHVVDARQHVDPPVRLDAGYLVVDRRAFAWITFSRASDGGATSTRTVGFATLSGALRAICAERIGLAGRAAIPGPARAVELRRAGRWQEVLDASELVEAPMRARLDAWLRGGRFKAFRVALGLLKRF
Ga0209672_118160	Ga0209672_1181602	F056275	MDWHCINFKRGGAHEAEAADLVLALEDAYDSAGEPPAAEVFLARGRVGDYAFYLSPEAASMAPSVLQRFHAVMCDPPQDLHRCTPMIL
Ga0209672_118236	Ga0209672_1182362	F012876	MTKTTHHFTALALSALMALGIVAGMNGLATAQYAAADSQEMARYGQAHVAVQHVTIVGHRANA
Ga0209672_119662	Ga0209672_1196622	F055847	MNRRYAYRDYEILVSARPAGGQPGWRPEICVIAPDDRWEFVPTHHSLVANDPGWCLEIGRLCAESAIQSMDPARERATRAGPLH
Ga0209672_120418	Ga0209672_1204181	F044583	VDQLLTPNQEILRNRIRFALRRATGFVFDIDAMLRKPELRAKRIGLWRDVADHELSSLLDQLETEFQADAADEEEAERTVVLRRPEAGATPR
Ga0209672_121757	Ga0209672_1217571	F044585	HFQARFGDRDALEPPMLAASAEARVHGWRVESLLVDLLEVYLATLGGNHDEGLRDVEAIRAEAEAHLDPIELSAMELMAGHFRGYMLGWPHEPERTYRALSRLTASPQAPPGLIANVQMNIGHSHLLVGNVDLASTYLQEAVRLYEPLPLTPRKLAAARAWAQCLLARNEARRADAVLHPLLAARTELASTRFLADALLVAAE
Ga0209672_122447	Ga0209672_1224472	F012876	MTAFAKQAAALALSALATLTVVFGTNALATSQYAAADSQEMARYGQTHVAVQHVTVVGHR
Ga0209672_122556	Ga0209672_1225562	F047761	MDVITRLAALLIALLLAIDAFSAERTETLRVDRHTRLTRWHQGDDYRVHFAGGRVESCEVGWTVFNALADGDLVAVDTSRVFKSCDGIRRGDEVIAQAHLRRWFVLVPMLILLAAAFG
Ga0209672_124126	Ga0209672_1241262	F012876	MTKTTAQFAALALSALMTLAVVASVNGLATHQYAAADALAMAPYGQTHVAVQHVTVVGHRATA
Ga0209672_126762	Ga0209672_1267622	F037289	MSMWISNQSVGLALVLATGWRAVQTGALSLAHPATLRRAQSGMVRLITVVAGH

Showing 1 to 33 of 33 entries

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300025228: Arabidopsis root microbial communities from North Carolina, USA - plate scrape CL_Col_mMS_r2 (SPAdes)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences