3300026684: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-HINK08-E (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026684
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0072134 | Ga0207556
• Sample Name: Soil microbial communities from Arlington Agricultural Research Station in Wisconsin, USA - Nitrogen cycling UWRJ-HINK08-E (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 9105426
• Sequencing Scaffolds: 14
• Novel Protein Genes: 15
• Associated Families: 15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	4
All Organisms → cellular organisms → Bacteria	3
Not Available	4
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	2
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Agricultural Land → Soil → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)

Alternative Ecosystem Assignments

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

Location Information

• Location: Wisconsin, United States
• Coordinates
  • Lat. (^o): 43.42
  • Long. (^o): -89.4
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001033	Metagenome / Metatranscriptome	799	Y
F001489	Metagenome / Metatranscriptome	686	Y
F004992	Metagenome / Metatranscriptome	416	Y
F005766	Metagenome / Metatranscriptome	391	Y
F006680	Metagenome / Metatranscriptome	367	Y
F012304	Metagenome	282	N
F015807	Metagenome / Metatranscriptome	252	Y
F016036	Metagenome / Metatranscriptome	250	N
F030263	Metagenome / Metatranscriptome	186	Y
F039084	Metagenome / Metatranscriptome	164	Y
F041998	Metagenome / Metatranscriptome	159	Y
F059436	Metagenome / Metatranscriptome	134	N
F072389	Metagenome / Metatranscriptome	121	N
F073354	Metagenome	120	Y
F095991	Metagenome / Metatranscriptome	105	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207556_100171	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1069
Ga0207556_100222	All Organisms → cellular organisms → Bacteria	1009
Ga0207556_100734	Not Available	731
Ga0207556_100785	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	718
Ga0207556_100812	All Organisms → cellular organisms → Bacteria	711
Ga0207556_100870	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	698
Ga0207556_100934	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	683
Ga0207556_101345	Not Available	611
Ga0207556_101400	Not Available	604
Ga0207556_101894	Not Available	550
Ga0207556_101972	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	543
Ga0207556_102303	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	518
Ga0207556_102376	All Organisms → cellular organisms → Bacteria	513
Ga0207556_102453	All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium	507

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207556_100171	Ga0207556_1001711	F001033	MKFVSRTKSMAVPHQILGASTNEKRELLMCGHSLIARLTIAVFVFQMLGVTSVVHAEGPDSTAGTSSADTRKLVIGPSSASVALWKASLIVSPLTHRDGNYVGDYQLKVRPYFFKSEKGSLLLAASDDAVRKLQAGTAINFTGQAVTHKDGRTHIVLGRATPSSRDRGSVTFSIVTDDARIVFNTSYHFG
Ga0207556_100222	Ga0207556_1002222	F041998	MPIALSAGQNILELLEERLSPLRIGPAQQLLGFLPRQLAAMQGFSDRLAAAPQPIPRADPANEAAQRPARRRISANDGWRRGRALGGADGLAEFGFALRAKRGRRPPVRRNASASGPWAL
Ga0207556_100734	Ga0207556_1007341	F072389	MRQRTLASAVLAVVLTAFIAGCAGPMARSAQVVPASFDEHLVGTWSGKFWALGEFYYPIEGLMVLQVRPDHTFTVTATPTGAANNIAKPGTWSGTVTEEKGRLVLHADKGAFPMFSSLERRSSDELYGVANDPASGGGNI
Ga0207556_100785	Ga0207556_1007851	F006680	MKISKFLWSVLVAFAAVALIAPQQVEAIVVDGRIKGQIQFTGSGTVTESTGINSNAINSNGINELEFNGENFPHGPLSVTNATGDYIPTVGSQAIFDLPIRWTGSGSSVNLLDVLPGVGGPAWNIFITGDGNATGTLFSLKSVTFDED
Ga0207556_100812	Ga0207556_1008121	F039084	SKTVTYVTADGRVIEPSKIRKDSKVHVHYIKDGDDMLVDKVIVTKDRD
Ga0207556_100870	Ga0207556_1008702	F073354	IKLHGFRIEDDREAAELYFLRNYQTIAAVFSVSSTVSRTALNNGINGYAMYPVFPFTTQQSEFFTGVMGDVPVEFTINDLNSPPVPYQPIAAGSGRSFAEAIQLTVEQKIAS
Ga0207556_100934	Ga0207556_1009341	F005766	GRQAPWILLEDRFGYDRFHDTPQSGNDNVVNLRGGVALTDRIALEGGYAFESFVAPNDFYDRQLHRADVRMVFDVTSSLQLGLGYSYQEGDVISYAVPPRPDIARFSVEREDQDEFGQPLRTAYKLLGRTHALSFSAAYQLTKRASVQLGYEYAITTHDPLEYENHLVEVKIAVAY
Ga0207556_101345	Ga0207556_1013451	F059436	MNRSAEDGEWSSPHSGGEGTWVPPRRTKVCAGDTVGKSVSDPGRPGIVHREGMAGIVRHSQTKGRETGNAKPGLKPPMVGADISASEGPTEAVPGVGSGRGTQERGQSKRPRIAAGRAATPV
Ga0207556_101345	Ga0207556_1013452	F015807	SPTRSGAPDRYPKVGVMPHRPEGMEGMERLVRHDGESRDTDRPTWSHHRRRSGGQGARREAGSERLEENHRVVINGSDPER
Ga0207556_101400	Ga0207556_1014002	F030263	MRTSYDSSARRLSSWLMVVLGVVAYVGLLYGLTLLPLQFEVPLPFWGIAVVPPIVYGLLVPLLVRWPSPLRWLMGTALLSGLHVLLTFARAPISAFLDPTLAGRPLPWVVPPPLPELVGLILLLVPLRDLLRARPRSARERLAAGRSTASARA
Ga0207556_101894	Ga0207556_1018941	F095991	INCKIIPSGHATVVREYARGNLDEAEFSTELSALGFNSTEIEWHIANPGKCSALRGSQMDEELKSFFFSAIEQLPLERQGAALRWLKERVVLAKVAEQLIADAGAELPPELQEV
Ga0207556_101972	Ga0207556_1019721	F012304	QLIVSAAPLFYALLPCSEQKMLTLVAEQIGEPGTELQNTYVLRHGGRVSSILSAVGDNQITTARLGSSMNFIRKLGRSERACYMSNLKRYAKELEPIDKPGTYIARLATKPASNTAGAGARLLKWFLLSSGPGLYTCHVHKDNSIAMWLNQKVGFRLISELNEGAFDYRALVLQR
Ga0207556_102303	Ga0207556_1023031	F004992	VTNETPSVIDPHTFATVFSENWDNARYIKSERISFMNAYSVICAGVLALLQSVQASDLIRIALLFFMTLFSLVGLLTSLRLKSELEECLAKIEAMTVQAKLSQFVALGQLEGKPSRYPRFRWIFPIFYTMTTAG
Ga0207556_102376	Ga0207556_1023762	F001489	KLLDFEERVVHAEERSHHDAILQKIHDYVWEQIEIWGEAPIRKRIGEIERQALNSRPRTVFDPPRREFLRKYFNVPVENVRKFPAWREYLYLNVLGFPPEPVYIENWPAEIPQTKVA
Ga0207556_102453	Ga0207556_1024531	F016036	RRGAKLADVALEYLGLRTISVDTDGEIPLRVVAFDSPRHSWREALLLPEGDRPIGILINTADVGPLVLVHEVFDSFTEPEKEMVRRYAALAVRGQPHEAIVAALRSGCVGKAGFTQALVAVRRAVRSLDPTVLFSPDGVTRVQLGSMSRTTKDILREGLQGDHLFILP