2236876025: Switchgrass-associated rumen community WFO

Overview

Basic Information

• IMG/M Taxon OID: 2236876025
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0059810 | Gp0054246 | Ga0026534
• Sample Name: Switchgrass-associated rumen community WFO
• Sequencing Status: Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 342670654
• Sequencing Scaffolds: 12
• Novel Protein Genes: 12
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → unclassified Bacteroidales → Bacteroidales bacterium WCE2004	1
All Organisms → Viruses → Predicted Viral	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	1
Not Available	7
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → unclassified Oscillospiraceae → Oscillospiraceae bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Switchgrass-Associated Bovine Rumen Microbial Communities From Urbana, Illinois, Usa
• Type: Host-Associated
• Taxonomy: Host-Associated → Mammals → Digestive System → Stomach → Unclassified → Switchgrass-Associated Bovine Rumen → Switchgrass-Associated Bovine Rumen Microbial Communities From Urbana, Illinois, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Host-associated → Animal → Animal proximal gut

Location Information

• Location: Urbana
• Coordinates
  • Lat. (^o): 40.1
  • Long. (^o): -88.26
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F012184	Metagenome / Metatranscriptome	282	Y
F028722	Metagenome / Metatranscriptome	190	Y
F032501	Metagenome / Metatranscriptome	179	Y
F074260	Metagenome / Metatranscriptome	119	Y
F076635	Metagenome / Metatranscriptome	118	Y
F093041	Metagenome / Metatranscriptome	106	Y
F102240	Metagenome	101	Y
F104183	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
CowRDRAFT01_c0001876	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → unclassified Bacteroidales → Bacteroidales bacterium WCE2004	10294
CowRDRAFT01_c0016128	All Organisms → Viruses → Predicted Viral	2734
CowRDRAFT01_c0028316	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales	1977
CowRDRAFT01_c0080755	All Organisms → Viruses → Predicted Viral	1040
CowRDRAFT01_c0090385	Not Available	967
CowRDRAFT01_c0132121	Not Available	747
CowRDRAFT01_c0140022	Not Available	718
CowRDRAFT01_c0162719	Not Available	647
CowRDRAFT01_c0169978	Not Available	627
CowRDRAFT01_c0174918	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → unclassified Oscillospiraceae → Oscillospiraceae bacterium	615
CowRDRAFT01_c0188557	Not Available	585
CowRDRAFT01_c0235832	Not Available	503

Sequences

Scaffold ID	Protein ID	Family	Sequence
CowRDRAFT01_c0001876	CowRDRAFT01_00018769	F076635	MIKRGSKIRVVKMDTAGGMDWQAKRLEGKVFTVRFIDSAGQIHLEETGIALLPGVDEYEIVK
CowRDRAFT01_c0016128	CowRDRAFT01_00161283	F074260	MAAKKKEEKELLPFDELPIAVKRNRRLLYEYIRTGELPE
CowRDRAFT01_c0028316	CowRDRAFT01_00283162	F076635	MIKRGSKVRVVKMDTAGGMDWQAKRLEGKVFTVRFIDSAGMIHLEETGIALIPGVDQFEVVK
CowRDRAFT01_c0080755	CowRDRAFT01_00807552	F104183	SDMKQEEFEAKAKSASKEMLKKKAPTRPETQFVKGAMWAWELLMTGRTVAEYEEQLRQDVCARFNIEEPEMWQELLISETATMMADRDGMQQDILTEGRLLEKFDKNMNPYKESNPLYVHLKELQRSIGMQREHLGLTNKSSKKMESPKTHDVKDDPLGEYFEGIR
CowRDRAFT01_c0090385	CowRDRAFT01_00903851	F012184	MYVRGRDPLQNKFVRLAVRRKSKSCVKGVHMNKNDVLSTILALEGATMCRQNKTNFIAIPTEDGVVKVTIGTALAEDTKNHKAFNFEAAKADYKAWEAEGALRAAERANKPVKVKGPNPEAQARRDELDAKVMALPSFTDCTATDIMNALAGQIAENVTVMAVGSSAMRLVEKGVLTMTLDEKKKKHYTKA
CowRDRAFT01_c0132121	CowRDRAFT01_01321212	F076635	MIKRGSKIRVVKMDTAGGMDWQAKRLEGKVFTVRFIDSTGQIHLEETGLALIPGVDEYEIVK
CowRDRAFT01_c0140022	CowRDRAFT01_01400221	F028722	MEERHVEIARSDYNIEDQYSAAHKDAMSDGDPQGKGTGHGGHTAFLPDCTKPVGQINYSNFDTAKGGGYYDINGRNDIGGRLKSMAASLYNENNQYGLDLINTEANIADGQTFVS
CowRDRAFT01_c0162719	CowRDRAFT01_01627191	F102240	MTRITPLGKLLNVLTFYKWAFGDLTEQDSDIGMLAEYLVGDIMNCLPPSRKVNAPFDLIMKDGTTLEIKATTHKYARKGKTPYYRWKVSTQSEALKGGRAIADYWLFLTAAFPRENSATPHVAQAFDLKNWKVYVVAGEELRTAGCVKYVSESTLKRLGTEALPLGELTKKFNHEIH
CowRDRAFT01_c0169978	CowRDRAFT01_01699782	F032501	MKQESEEKDWVKVLYEVILKILTLGFYHIEKHKKK
CowRDRAFT01_c0174918	CowRDRAFT01_01749182	F093041	MMAKSEKVFRRTALRRSKTARLFCHIFIAMSIGRMIQRIIRCQTCRLAAKSIESSIDFAIRRSVHPEQETEGEKP
CowRDRAFT01_c0188557	CowRDRAFT01_01885571	F076635	MIKRGSKVRVVKMDTAGGMDWQAKRLEGKIFTVRFIDSAEQIHLEETGIALIPGVDEYSFYFSAD
CowRDRAFT01_c0235832	CowRDRAFT01_02358322	F076635	MIKRGSKIRVVKMDTAGGMDWQAKRLEGKVFTVRFIDSAGQIHLEETGLALIPGVDEYEIVK