Sample 3300033541

Basic Information
IMG/M Taxon OID	3300033541 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0135940 \| Gp0344181 \| Ga0316596
Sample Name	Metatranscriptome of rhizosphere microbial communities from salt marsh grasses in Alabama, United States - S_170502SBrCrA (Metagenome Metatranscriptome)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Sample Name

Metatranscriptome of rhizosphere microbial communities from salt marsh grasses in Alabama, United States - S_170502SBrCrA (Metagenome Metatranscriptome)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	377770865
Sequencing Scaffolds	33
Novel Protein Genes	36
Associated Families	23

Dataset Contents

Total Genome Size

377770865

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → Solirubrobacteraceae → environmental samples → uncultured Solirubrobacteraceae bacterium	1
All Organisms → cellular organisms → Eukaryota → Metamonada → Fornicata → Diplomonadida → Hexamitidae → Hexamitinae → Trepomonas → unclassified Trepomonas → Trepomonas sp. PC1	1
Not Available	27
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → Solirubrobacteraceae → environmental samples → uncultured Solirubrobacteraceae bacterium

All Organisms → cellular organisms → Eukaryota → Metamonada → Fornicata → Diplomonadida → Hexamitidae → Hexamitinae → Trepomonas → unclassified Trepomonas → Trepomonas sp. PC1

Not Available

All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium

Ecosystem Assignment (GOLD)
Name	Rhizosphere Microbial Communities From Salt Marsh Grasses In Alabama, United States
Type	Host-Associated
Taxonomy	Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Rhizosphere → Rhizosphere Microbial Communities From Salt Marsh Grasses In Alabama, United States

Ecosystem Assignment (GOLD)

Name

Rhizosphere Microbial Communities From Salt Marsh Grasses In Alabama, United States

Type

Host-Associated

Taxonomy

Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Rhizosphere → Rhizosphere Microbial Communities From Salt Marsh Grasses In Alabama, United States

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	Unclassified
Earth Microbiome Project Ontology (EMPO)	Unclassified

Alternative Ecosystem Assignments

Environment Ontology (ENVO)

Unclassified

Earth Microbiome Project Ontology (EMPO)

Unclassified

Location Information
Location	USA: Alabama
Coordinates	Lat. (^o)	30.2619	Long. (^o)	-88.2383	Alt. (m)	N/A	Depth (m)	0 to .07
Location on Map

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Location Information

Location

USA: Alabama

Coordinates

Lat. (^o)

30.2619

Long. (^o)

-88.2383

Alt. (m)

N/A

Depth (m)

0 to .07

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F001346	Metagenome / Metatranscriptome	718	Y
F009934	Metagenome / Metatranscriptome	311	Y
F015509	Metagenome / Metatranscriptome	254	Y
F016975	Metagenome / Metatranscriptome	243	Y
F018557	Metagenome / Metatranscriptome	234	Y
F025922	Metagenome / Metatranscriptome	199	Y
F030135	Metagenome / Metatranscriptome	186	Y
F030933	Metagenome / Metatranscriptome	184	Y
F033261	Metagenome / Metatranscriptome	178	Y
F035541	Metagenome / Metatranscriptome	172	Y
F039161	Metagenome / Metatranscriptome	164	Y
F043157	Metagenome / Metatranscriptome	157	Y
F052283	Metagenome / Metatranscriptome	143	Y
F053305	Metagenome / Metatranscriptome	141	Y
F055469	Metagenome / Metatranscriptome	138	Y
F056191	Metagenome / Metatranscriptome	138	Y
F067247	Metagenome / Metatranscriptome	126	Y
F077370	Metatranscriptome	117	Y
F082866	Metagenome / Metatranscriptome	113	Y
F084294	Metagenome / Metatranscriptome	112	N
F099975	Metagenome / Metatranscriptome	103	Y
F100490	Metagenome / Metatranscriptome	102	N
F102142	Metagenome / Metatranscriptome	102	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0316596_1014959	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	1930	Open in IMG/M
Ga0316596_1019320	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia → Solirubrobacterales → Solirubrobacteraceae → environmental samples → uncultured Solirubrobacteraceae bacterium	1728	Open in IMG/M
Ga0316596_1033746	All Organisms → cellular organisms → Eukaryota → Metamonada → Fornicata → Diplomonadida → Hexamitidae → Hexamitinae → Trepomonas → unclassified Trepomonas → Trepomonas sp. PC1	1334	Open in IMG/M
Ga0316596_1090605	Not Available	824	Open in IMG/M
Ga0316596_1091524	Not Available	820	Open in IMG/M
Ga0316596_1104419	Not Available	767	Open in IMG/M
Ga0316596_1105509	Not Available	763	Open in IMG/M
Ga0316596_1106202	Not Available	761	Open in IMG/M
Ga0316596_1110780	Not Available	745	Open in IMG/M
Ga0316596_1112357	Not Available	740	Open in IMG/M
Ga0316596_1112650	Not Available	739	Open in IMG/M
Ga0316596_1114323	Not Available	733	Open in IMG/M
Ga0316596_1122354	Not Available	709	Open in IMG/M
Ga0316596_1132144	Not Available	682	Open in IMG/M
Ga0316596_1157826	Not Available	624	Open in IMG/M
Ga0316596_1167718	Not Available	606	Open in IMG/M
Ga0316596_1168091	All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon	605	Open in IMG/M
Ga0316596_1170146	Not Available	601	Open in IMG/M
Ga0316596_1173085	Not Available	596	Open in IMG/M
Ga0316596_1176601	Not Available	590	Open in IMG/M
Ga0316596_1181383	Not Available	583	Open in IMG/M
Ga0316596_1184497	Not Available	578	Open in IMG/M
Ga0316596_1189401	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	571	Open in IMG/M
Ga0316596_1190923	Not Available	568	Open in IMG/M
Ga0316596_1195025	Not Available	563	Open in IMG/M
Ga0316596_1205270	Not Available	549	Open in IMG/M
Ga0316596_1212991	Not Available	539	Open in IMG/M
Ga0316596_1214374	Not Available	538	Open in IMG/M
Ga0316596_1223489	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium	527	Open in IMG/M
Ga0316596_1232102	Not Available	518	Open in IMG/M
Ga0316596_1237885	Not Available	512	Open in IMG/M
Ga0316596_1239624	Not Available	510	Open in IMG/M
Ga0316596_1248750	Not Available	501	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0316596_1014959	Ga0316596_10149593	F043157	MVGDRLMGILDERFRDCICLNIYDRIESMQMLGELTMTKRAKSLERRIR
Ga0316596_1014959	Ga0316596_10149594	F067247	VRKLLSIGIILALLVTFIVPVAVAAQDYGDDCCDWTPPASVPMPDRTTKTLAGATMWTLLGVTDIMGKAVCATTGQMAANLGGWSDELGVIGVDVTVAALDGVSGLLEFVMDEFLGMAELGASLADLISGIADALAGAAEA
Ga0316596_1019320	Ga0316596_10193201	F084294	MSTATKSRPTKSDVVEFTCARCEVTSRWTQGLGAATPPNWVKEKGLYYCLACRRERAMEQAVEKAGGDSVSTADRAKLRSAAVVDFEIARDPDRTEGEIAKAARASIGAVRKA
Ga0316596_1033746	Ga0316596_10337462	F082866	MHHQLPNRKRTLNLLLRKASGSGKICVLSQIEPQTPRLVVSLRQYLQVSDLHPYFPQSLKPFGFLGAVSTCAHCLDGSV
Ga0316596_1090605	Ga0316596_10906051	F009934	VLDGPAMRPATPLAEENSVGKLAACKAPNASMGKRAWRTPTPKIRPR
Ga0316596_1091524	Ga0316596_10915241	F009934	MRPVTPLAVENSVGKPAAYMAPNVGPGKRAWRTPTPIFL
Ga0316596_1104419	Ga0316596_11044191	F030135	PRAQNREELAILSSVTDIWHTTLVGRQFPDAILPGTEAFDLVAGPLN
Ga0316596_1105509	Ga0316596_11055091	F030135	LKDREELATLSSTSDIWHSTFVGCQLPDAILPGTEAFDLVAGPLD
Ga0316596_1106202	Ga0316596_11062021	F100490	EDRSSDLTTIGQFARLLRSLELRAVSHRTVLLLRDQKLILRKRNRFEGSIVHLPTT
Ga0316596_1110780	Ga0316596_11107801	F102142	QFFAQIAGISYEEFRGGMPTLYLFPLFLIYAAIGLVFAKMKENLYISKRGAFLIIFAFHYFIVSFLPDLEGKIYLPDYALFSAMISGFILALAVVSLIFYLWKQEDHPEAKTGQQVRSYFSSRSILSWAWRFFLVWILFYVVTMIIGIVAMPFNGHYLDDPLNTLGMVVPSMGALFAITQFRSLIYILVTLPFIIFWNSSKKDLFLYLALILIIQYPLLGDGLAYFWPGMYRLTDGIVLAFQVSIMSW
Ga0316596_1112357	Ga0316596_11123571	F030135	EEFATLSSFAGIRRTAKAGCQLPDAILPGKEANDLVAGPLDRLPDQGIE
Ga0316596_1112650	Ga0316596_11126501	F016975	VSWPGSQADAANTGRSELKSLTRESSGGNALDGPATRPITPLAVENSVGKP
Ga0316596_1114323	Ga0316596_11143232	F030135	EELATLSSFTDIWHSTFAGRQFPDAILPGREAIDLVAGPLN
Ga0316596_1122354	Ga0316596_11223541	F035541	VKRLALMFTLAILAGLIIVPAVLANPANTTNLNNIPITDTLEAGTLEWDVWARYSDDFPRGRRIHNRLYGALFDNFEFGMYWGISRQAGPLELALKYKVLDEYDGNFPVSLAVGAEGITGNYDRTGRDPSFYGVIGIHDVQLGGWWDWYVGVFHNPTGYDDEDNSLFGGFKYWINDDWQVNADYMGYDSNEEYVLSGGLNYDW
Ga0316596_1123203	Ga0316596_11232031	F077370	VNSLGTPFYSFSSSAGTPQISSNLTDLMILQFTEYSELAQIYGLVKLKKIQLGFTRSSNYIGGGTSILQNTPSIFLQASTIPYSTGSVVLQRAIAQSDNSIEIDLQTYDPKSYDILLPPHIVSNNRANNQTFAFGSQTWISTRLNNVQNFPDLFLNLGSLATPTFDSSTSGNSVLIGQIHGRMQLSFAGPIVG
Ga0316596_1132144	Ga0316596_11321441	F035541	VKRLALIFTLAILASLIAIPAAFAGNTSFGNTTSLNNIPITDTLEEGTFEWDAYARYAEDFPRGHRIATRVFGALFKNFEFGMSWGISRRAGPVELALKYKVLDEYGGRFPLSLAVGAEGITGNYDRTNMDPTYYGVIGIHDVHLGGWWDWYVGVANNPTGFDNEDNSLFGGFKYWFSDCVQVNADYMGYSDNEEYIITG
Ga0316596_1157826	Ga0316596_11578262	F030135	REELATLSSFTDIWHSTKAGRQFPDAILPGKEAIDLVAGPLN
Ga0316596_1167718	Ga0316596_11677181	F039161	MWWECSECGSHVERARAPVACGECGTAGVIFVPVDVDHAIAGDPEADSLRAVWLRAGLEQARPTLVA
Ga0316596_1168091	Ga0316596_11680911	F018557	MTEPKNGRPIFFPEKLVQGGNFALFMWIILDTVAFALYNFTLGLAFLILTLILIYGVLNILGCLRPCYNCIKCTHGMGRLAALYFGRRIFKDYKYNYKLPTAIFFTIYIGAFPAAFALYSTLQNFTIINVAVFAVLFAFTLFSALTWRPKKPKLIQAVSKKS
Ga0316596_1170146	Ga0316596_11701462	F055469	SWDIKMLKRTVVILAAAGFFWGTVPTQTAQAGDDMWDLMDPSWWADKIFDDDDDDWWYYRHHGYSPYWGAPYAQHPRVIVIQPPETVAQNPETRPPPE
Ga0316596_1173085	Ga0316596_11730851	F025922	VWCNGEVLYRVSSLGSTTTFTNEDIFELGHLDIVDVVDDVPAVAVTLNTMDWGDLYTMAILAQVPPAKRMMDSTVTPTTANLEVVDSYGAHFDNGTTGSGYYHGVGIPDFAITCGNLTGVSLWAPVQDECSLGTLADNIDQTMWMDEVYINSLEFSYTTGANATENYAAETDQKAWFLNSARFINFESFDYADLTGGG
Ga0316596_1176601	Ga0316596_11766011	F077370	RVLKNNTQQLAVPRPMSILGETINRAIDILINIYAVNSLGTPFYSFTSTQGAPSMSLNLTDSMILQFTEYSELTRIYGLCKLKKIQLGFSRSSNFIGGGATTLQNTPSLFLQASTVPYPAGSVTLQRSVAQADNSVEIDLQTFEPKAFNIMLPPHLVSNNRAQNQTFVFGSQTWISTKLNNVQNFPDLFINLGSLA
Ga0316596_1181383	Ga0316596_11813831	F001346	VKTFREVGDVKNDTADLWTKGNLRVKRRDPWHRANARPEAVADPELNGEDAEQHTQTCLDLVRKPVAQPPVEAS
Ga0316596_1184497	Ga0316596_11844971	F035541	LNNIPITDTLEVGTFEWDAFCRYAEDVPRGHRIATRVFGALFENFEFGMSWGISRRAGPVEMALKYKVLDEYGGRFPLSLAVGAEGITGNYDRTNMDATYYGVIGIHDVHLGGWWDWYVGFANNPTGFDNEDNSLFGGFKYWFSDCVQLNADYMGYNDNEEYIITGGLNYDWWNHIGLSGWVERDSYTEDNV
Ga0316596_1189401	Ga0316596_11894011	F043157	MMGILDERFRNCICLSIYNRIESMQMLGELVMIKRAKSLERRI
Ga0316596_1190923	Ga0316596_11909231	F099975	EIKELRGGILLYAAQAIPPIDAEIAEKGHLWTETS
Ga0316596_1195025	Ga0316596_11950251	F016975	VSPPGPRAGGATTSPSGPRGLTQQSIRRKAMDGPAMRPTTPYAAENGVGKLAA
Ga0316596_1205270	Ga0316596_12052701	F056191	VLITRFRHALTAEMCETFPSGGSRHARVTLEGIDGRAPQERVEHV
Ga0316596_1212991	Ga0316596_12129911	F077370	LKNNSQQLAIPRPMSILGETINRAIDILIDIYAVNGLGTPFYSFSSTAGAPSMSYNLTDNMILQFTEYSELARIYGLVKMKKIQLGFTRASNYVGGGNTALVNTPSFFLQASTIPYTAGSISLQRAVAQSDNSVEVDVQTFNPKSWDIMLPPSIVSNNRA
Ga0316596_1213099	Ga0316596_12130991	F015509	LFEKSMSVYQAKSVTDAQRRLQDLMESSLETLRGNVQTALSTNAKIVSSWKDMVDSFKSVTK
Ga0316596_1214374	Ga0316596_12143741	F053305	MLKKSLSMVLVGLFVFSFIAVATLSAQDTQKIEGTVMSVNVETGEVIVKDDAGEMKTLMADPKAEGAVDIKMLKEGDPVSVQSDSNGVIQSLEVTE
Ga0316596_1223489	Ga0316596_12234892	F030933	MKDNSKSDQLNLQRAQAVKTEWIVGIIAILIFATFIGSAVIGH
Ga0316596_1232102	Ga0316596_12321021	F056191	MFLLRASMHLLLPCIKCEARVRHALTAEMFKSFPSGGSIHASVILEGIDGRAPLDRVEHV
Ga0316596_1237885	Ga0316596_12378851	F067247	VRKLLSIGIVLALLVTFIVPVAVAAQDYGDDCCEWTPPASVPMPDRTTKTLAGATMWTLLGVTDIMGKAVCATTGQMAANLGGWSDELGVIGVDVTVAALQGVSGLLEYVMAEFLGMADLGTSLADLINGIAEALAGATEG
Ga0316596_1239624	Ga0316596_12396241	F033261	VVLLTDDDQINARALLNEYGDHWGQETAHRIGKHDLYLDVVPPGYTLKTRRDDQGQLQREIEFDQTAFFLSAWLHCLVFNLMSRFAQMLGGEYTKMWAGTLLRKFIRRPATLYLVGKELHVVFDPFPGQDKLQPLLDKLNAKRTALPWLNGLVVQFSIAQNEPLHPLTEP
Ga0316596_1248750	Ga0316596_12487501	F052283	MNPRQKSMIIGGVLGALMGVLGGYLFTRGLDMPREEEEEPQRLSLRSVPPGEMVKLFIAIMGVLRGLAELGER

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300033541: Metatranscriptome of rhizosphere microbial communities from salt marsh grasses in Alabama, United States - S_170502SBrCrA (Metagenome Metatranscriptome)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences