3300002902: Soil microbial communities from Manhattan, Kansas, USA - Sample 400um Nextera

Overview

Basic Information

• IMG/M Taxon OID: 3300002902
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0099547 | Gp0055091 | Ga0006119
• Sample Name: Soil microbial communities from Manhattan, Kansas, USA - Sample 400um Nextera
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 42399287
• Sequencing Scaffolds: 27
• Novel Protein Genes: 28
• Associated Families: 28

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	10
All Organisms → cellular organisms → Bacteria	5
All Organisms → cellular organisms → Archaea	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → unclassified Rhodospirillales → Rhodospirillales bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → Thalassobium → unclassified Thalassobium → Thalassobium sp. R2A62	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Deinococcus-Thermus → Deinococci → Deinococcales → Deinococcaceae → Deinococcus → Deinococcus ficus	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Rhodocyclales → Rhodocyclaceae → Aromatoleum → Aromatoleum toluclasticum	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Lactobacillales → Lactobacillaceae → Lentilactobacillus → Lentilactobacillus hilgardii	1
Not Available	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Kansas (Konza Prairie Natural Area And Manhattan, Kansas, Usa)
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil Microbial Communities From Kansas (Konza Prairie Natural Area And Manhattan, Kansas, Usa)

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → prairie → soil
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: Manhattan, Kansas, USA
• Coordinates
  • Lat. (^o): 39.214
  • Long. (^o): -96.5852
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000268	Metagenome / Metatranscriptome	1411	Y
F001449	Metagenome	692	Y
F002103	Metagenome / Metatranscriptome	593	Y
F002553	Metagenome / Metatranscriptome	549	Y
F002588	Metagenome / Metatranscriptome	546	Y
F004536	Metagenome / Metatranscriptome	434	Y
F006477	Metagenome / Metatranscriptome	372	Y
F008628	Metagenome / Metatranscriptome	330	Y
F009170	Metagenome / Metatranscriptome	322	Y
F012827	Metagenome / Metatranscriptome	277	Y
F013626	Metagenome / Metatranscriptome	269	Y
F022986	Metagenome / Metatranscriptome	212	Y
F024856	Metagenome / Metatranscriptome	204	Y
F027000	Metagenome / Metatranscriptome	196	N
F030581	Metagenome / Metatranscriptome	185	N
F031269	Metagenome / Metatranscriptome	183	Y
F033996	Metagenome / Metatranscriptome	176	N
F041123	Metagenome	160	Y
F041499	Metagenome	160	Y
F043697	Metagenome / Metatranscriptome	156	Y
F050761	Metagenome	145	Y
F051036	Metagenome	144	Y
F064859	Metagenome	128	Y
F069922	Metagenome	123	Y
F079275	Metagenome	116	Y
F080449	Metagenome	115	Y
F087922	Metagenome	110	Y
F106125	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI24803J43973_1000177	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1158
JGI24803J43973_1000182	All Organisms → cellular organisms → Bacteria	1152
JGI24803J43973_1000445	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	964
JGI24803J43973_1000577	All Organisms → cellular organisms → Archaea	911
JGI24803J43973_1000648	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	889
JGI24803J43973_1000676	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	878
JGI24803J43973_1000822	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → unclassified Rhodospirillales → Rhodospirillales bacterium	845
JGI24803J43973_1001938	All Organisms → cellular organisms → Bacteria	695
JGI24803J43973_1003071	All Organisms → cellular organisms → Bacteria	625
JGI24803J43973_1003167	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	621
JGI24803J43973_1003224	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	618
JGI24803J43973_1003496	All Organisms → cellular organisms → Bacteria	605
JGI24803J43973_1003571	All Organisms → cellular organisms → Bacteria	603
JGI24803J43973_1003633	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	600
JGI24803J43973_1004204	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	579
JGI24803J43973_1004207	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	579
JGI24803J43973_1004432	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → Thalassobium → unclassified Thalassobium → Thalassobium sp. R2A62	570
JGI24803J43973_1004529	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	567
JGI24803J43973_1004623	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Deinococcus-Thermus → Deinococci → Deinococcales → Deinococcaceae → Deinococcus → Deinococcus ficus	564
JGI24803J43973_1005216	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	546
JGI24803J43973_1005253	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	545
JGI24803J43973_1005254	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	545
JGI24803J43973_1005506	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Rhodocyclales → Rhodocyclaceae → Aromatoleum → Aromatoleum toluclasticum	539
JGI24803J43973_1006358	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	518
JGI24803J43973_1006609	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Lactobacillales → Lactobacillaceae → Lentilactobacillus → Lentilactobacillus hilgardii	512
JGI24803J43973_1007078	Not Available	502
JGI24803J43973_1007130	All Organisms → cellular organisms → Archaea	501

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI24803J43973_1000177	JGI24803J43973_10001772	F027000	MPPARNFFGQPQKLSHTTELPSEQAALIENSAGLRKRARCLLITTPERGPNFLQLVSSKITMACECVVLADCPGALIELCGISTLERLLRTLQRCGIERATILSTTSERIAEELARPSCPRARLALTLRTRPNEALRIEQIVDICPGAAEFLLLVRGDAVFDRRLLQLLATKSLPAVLVDSAVPSKFQPLVAQAPDALGAKFCGAALLQRDWVSSQCGPLERAINNGL
JGI24803J43973_1000182	JGI24803J43973_10001823	F000268	MRVVAVMLLLSAGIAAEAMSYSFVSKASGRLGGPIRFEFYRDSTTGPKTDIKSFTVSMRTADDRWKAMWSILSGRGLTQPIEYGVTPPGFTTMIQPQKLIPGRVYAGFATDGHGGTSGVTFGFDKNGRMTFPDSFDR*
JGI24803J43973_1000445	JGI24803J43973_10004452	F006477	MIVLNLLIVVVASGIAFVAYKHPNAYRVMFIFAVPVLAMGGLLVLAIKVGDLNGSIKSIYHELPNIRKYALSDQLPYQITRLYQVGQFLKVFLIYYISGFAYLVFLLILGGLLDLVKDRHHIPT*
JGI24803J43973_1000577	JGI24803J43973_10005772	F033996	VMEFNLTAKDKHALKSLSGDLRDMFSMKRVEDRLVDPDPEYRKVFDATFFKTVEGNYLDEMLNWVEDFKXRLTEAESKQSKEELDLETKELLDAGWLVEQNKNDRNG*
JGI24803J43973_1000648	JGI24803J43973_10006482	F041499	MTVMTKVISLLLIGAVAAISAGCINRQFGGSTTRSAAAERDYELLTGTWQLTRAVVDGRLVPQSVVRNTILITDHNTFRFPKASGVGTHPAGTFTVDPIPRPKRVDSIAVGGTHAGQLTLGIYEILDATHKRA
JGI24803J43973_1000676	JGI24803J43973_10006761	F002553	MHEIQFREIMRDAEVAYAVHPIVLKYLLTVEETTKALIACGVPRAANVAQISSDSFL
JGI24803J43973_1000822	JGI24803J43973_10008221	F009170	MRGFGRQCRGQGRVFVTLVRHTERQLLALGQPIQALGQQAQQLLDHANDLQDAHRQRLTSELNAAMKTQEHIRKQSLRLTQGKKLSHCKIVNAYDPTIAPIIKGKSNCPAQFGRKPGIVSEPATGFIFANRVPEGNPSDPSYVLPLLDKVQSAIDRVRVPQRLRIHSVAGDLGVNETALRQALHARGILTVGIPK
JGI24803J43973_1000822	JGI24803J43973_10008222	F043697	IDEELMDTLIAIQAAAAMEAGLVSPAHLVVDTFPCEQGSQRVTDATTLYKAQKNS*
JGI24803J43973_1001938	JGI24803J43973_10019381	F001449	VSFFLAASLHGMLSNGQRYALNFVDIDGHKLSTADGHVTVVVLAMTGDAEKVRAVGDNIPDYCLGNPRYKMITIVNFKRKHTVIGRGIATVFLRNRVKEEAKRLQARYDARKIVRNARGDIFTVTDFDGSASSQLGGQSEAANFHVFVFSER
JGI24803J43973_1003071	JGI24803J43973_10030712	F008628	SFGALAYCESCPQRLWVSKSRARDAKGNWGIWHLVSNRPYAAKAAAQEYSRRFGCEEGFRDAKWWLGFAKARITQIKAWSRMFALFAIALLVMTSLGSCLLLAQGHRAQVLLRRVASRRRGRCELGLVSAMVWLLQQDKTLYDALSPHVKLKLEVTLANVS*
JGI24803J43973_1003167	JGI24803J43973_10031672	F064859	MKGIVILAAALVIALSDQAFARLGQTEDQVNALFGKPVDPGKPDSDGITTNMYKNPTGDYLAMVQFLKGHSVTESYARVDRHKLSQKEL
JGI24803J43973_1003224	JGI24803J43973_10032241	F022986	MPTLALHSFSKAIDIPSKLHNQPLNEWQTSARLTTLLSRFGIRVLGELHGRKVVDFAWEKNCGPKTLYLXLDLLARRARFRNGKASGNGHRGHRVHPSHDFSVTDSGEANAKVKEDAASFAIPESICHLALNELPLTTRLANVVRSMGARSLGDLNRRS
JGI24803J43973_1003496	JGI24803J43973_10034961	F013626	FCLGNPDYRMITVVHFTGRHMAIGRRMATAFIRHRVGEEAKRLQARYDAQNISRDAKSDIFVATDFDGTVASQLGQPVGATDFCVFVFGQTGELLAQWHSVPSADELAAVVKKSD*
JGI24803J43973_1003571	JGI24803J43973_10035711	F012827	QFLGCVLRVMDQQVRAARQLHQPRIDLLVMLNVRTNDEHFPISLDPEGIRSARMVVPLSGDYGFHIVDAGEVFAGISDLQELEIGPHVIQLHREIFRLHLDFENLPQIVNCLVPAERQERDFLAGIISLGKERKALDVVPVKVRECDNDLFLLVADRAEVSAQIAQSCARVNDDDAVRIGEGDLQARSVAAELLKTGIAD
JGI24803J43973_1003633	JGI24803J43973_10036332	F051036	LQKRIGALTSQNASVCIDAVKWPALVLLVLLFAAANSCTTLVNRRDLYSPEPAPDSLEAMRQMTTVTTTTTRTRREEISPSGY*
JGI24803J43973_1004204	JGI24803J43973_10042042	F004536	KPDPADSSLSETMAARIEIKELGDPAHQKKITDAVEALDGVIETKIAKGALHVSYDPLATTEKKIEQAIHSTGTTIKTAATDTEGAHPDLPTPGENSPTTAET*
JGI24803J43973_1004207	JGI24803J43973_10042071	F069922	VFATVAFALAPSLLKWHFQVRGYSWYFLSIPILTMLFASIESDRVPNQRTLFLFGLASAISIWCLELAIPLVGALWLLLILRRRFSLKNAPSAFVGFVAGYAPVIAFNFTNHFSNWRYLIVERPGGGFSSLYHLSAFGRIFLNEMPKFFGPDTVLWYYAEKPAAGYVFYAIALCAVGVGISPFVKSPGKILR
JGI24803J43973_1004432	JGI24803J43973_10044321	F079275	GSPQSTLYLVNDHYVETLKEGEIASSTLTRLSDQGVLVIRLVSKAADKVSNALDAISKGKSLAWDSTSMKRIRFELSPDRSTIRKLEIAGLFKADDIKLQRFDAANLSKLEIRDDRTSEVMLTGMTAPAVHEKGKEKEQSPSPVNWDTKD*
JGI24803J43973_1004529	JGI24803J43973_10045292	F041123	MIKATKGLNASLDARSNLCYTAINVEQDHNFDGDGCRAFHRSGGSRRAIMHPSRRGRSKSLSVKL
JGI24803J43973_1004623	JGI24803J43973_10046231	F087922	KSDPGAYVAHLLFSRVGLRNIEIVNARVHWISDESIGIVNRPEEDFFSKGCEGWVPIAPDVLKEILGFQPLCTEGYLVPGANRTERHDAVYRRHSKWVAQWIKDRTKTSYELRRYAGSRLLDMGATVFEVRDFLRHRDVQTTQIWYAYRLQNRQLRTIGMKDLIPT*
JGI24803J43973_1005216	JGI24803J43973_10052161	F002103	MSTDEPFRTDYEXLKGVDYIFVSLDRNLSGEECHELAEKYFETHKGMTLPGQALRVDLRPAFRKPLADVTPKFRAVSIGYTFTPQR*
JGI24803J43973_1005253	JGI24803J43973_10052531	F031269	CAARLGGPARDWPARYGFSLLVFFWDLLDDIDLLFWCDWI*
JGI24803J43973_1005254	JGI24803J43973_10052541	F002588	AVCGWVSLIVGATLAVLLWFYPRWFHDHISDRMNACVLVLVPLLAGASVFLVRWFVSPYPIYMQVRRTLDTLTDTKKEERAKAVHGCFERSAAILKQHDSVLLSFHALSRAEGHRLESNQEVAEVCDLIQEAGYDHPFEGISPGYVPEKDWLPFLKYVKHAPKINPEEGKDYLDAADRWR
JGI24803J43973_1005506	JGI24803J43973_10055061	F080449	MDLPAGIRTLQRTDRWVGVPLCAILTLLRRIFGSAGRPGSRQVERILFVKFAE
JGI24803J43973_1006358	JGI24803J43973_10063581	F050761	MKTMKLIMGSMCLALFCASAAWVEYKIVSSVGSGLSLFALTSMSAAILVALLRAPEGCENADGFCARVRKRRPDTVRHGQRTGTAKIDMFRFLVAR
JGI24803J43973_1006609	JGI24803J43973_10066091	F024856	VTFCVFNFAIGQRFASIVLPVSVSFDVEGQRTSKLLMLGPVFGFGRRGGSKKNRVAILESINDAGFGGVVRRHLHFHPVPNCKPNETFAHLPGNVRENEMIVRECDAKHGSGEHRHDGALQLDGFFRIHSVVRCVSPPSNVGPENFSGPTSKPLYR
JGI24803J43973_1007078	JGI24803J43973_10070781	F030581	MVNRFTIMVAKFLHIPDRAAVWVIWAAGMAVVIIIGIIVMLWR*
JGI24803J43973_1007130	JGI24803J43973_10071301	F106125	MGADVNGLDDIQKHLRGLANSADPNTFNEWANRVGATAKEICNDPDCKRIKLIKNEYGKVKFQFADKEAVDCVIQAIKTHVNSMPRA