2199352012: Mesophilic microbial community from rice straw/compost enrichment Sample: eDNA_1

Overview

Basic Information

• IMG/M Taxon OID: 2199352012
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063773 | Gp0052323 | Ga0026259
• Sample Name: Mesophilic microbial community from rice straw/compost enrichment Sample: eDNA_1
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 495813128
• Sequencing Scaffolds: 15
• Novel Protein Genes: 15
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobiaceae	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → unclassified Planctomycetia → Planctomycetia bacterium	1
All Organisms → cellular organisms → Bacteria	5
Not Available	2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Opitutus → Opitutus terrae	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Rice-Straw Enriched Compost Microbial Community From Berkeley
• Type: Engineered
• Taxonomy: Engineered → Solid Waste → Grass → Composting → Bioreactor → Rice-Straw Enriched Compost → Rice-Straw Enriched Compost Microbial Community From Berkeley

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: Davis, California, USA
• Coordinates
  • Lat. (^o): 38.5402727
  • Long. (^o): -121.7500776
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002571	Metagenome / Metatranscriptome	547	Y
F006324	Metagenome	376	Y
F018543	Metagenome / Metatranscriptome	234	Y
F027361	Metagenome / Metatranscriptome	195	Y
F031935	Metagenome / Metatranscriptome	181	Y
F054742	Metagenome	139	Y
F089942	Metagenome	108	Y
F099155	Metagenome	103	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
2200534807	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobiaceae	2376
2200547298	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	2306
2200655628	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae	1817
2200727813	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	1577
2200783939	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → unclassified Planctomycetia → Planctomycetia bacterium	1214
2200785721	All Organisms → cellular organisms → Bacteria	1184
2200818384	Not Available	816
2200830720	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	734
2200847880	All Organisms → cellular organisms → Bacteria	650
2200850452	All Organisms → cellular organisms → Bacteria	640
2200859692	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Opitutus → Opitutus terrae	28383
2200886816	Not Available	536
2200903019	All Organisms → cellular organisms → Bacteria	3797
2200944434	All Organisms → cellular organisms → Bacteria	3218
2200974980	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales	2905

Sequences

Scaffold ID	Protein ID	Family	Sequence
2200534807	2201028232	F027361	MATASQVQKNLQAAMREALRIQDRFVAEPLFAKTGRGHLKSEGISTISKIKANLSRKKASKPK
2200547298	2201048247	F089942	MNRETSSTARKGFCIFVDVFLEGSMPCVSDENGYIIFESELEAQKEIADHQMTRLREFLDGDREFEDAIQVDEFVVPVTVLPDGTIVDEAGNCFSPKPD
2200655628	2201200877	F099155	MKSLERLVVTPEHFPLEITVSTGEKYLLPHPDHVQMHPNTRDLVIYPDEGPFSLVINPAHVVSVKPVRKAS
2200727813	2201270401	F054742	MNRFNGICFLLMAMLFACDRKPYVEHKLKFEKVSDNCQDQQTYFRMTSNFGGERYEFEKCLPADFKKDQLITERAGDTIFVHFKTEGASGASHVFHLVLDIDSYPRYRYLTIGADTYSISPVEK
2200783939	2201350629	F006324	DFNNDGDIGTDADIEAFFACLAGNCPPTGCSADFNADGDTGTDADIESFFRVLSGGSC
2200785721	2201356196	F006324	CDGDIGTDADIEAFFACLAGNCPALPCTNSADFNGDGDIGTDADIEAFFRVLAGGNC
2200818384	2201445852	F018543	MNWWANKGAAANRRPAGQWDGSGNLSAIVAADRAFPAAVAELDR
2200830720	2201476443	F002571	MKNSETSSQAVAIPADAGFSPWQRLKSKRISYLAIPLLVMATIVEFVILATGWKYQQMVCLPQGMGVTFFGIGPIGAVILAVELLKLPLAVWAASRVGWQKGFMLIVGLPLICVLTFQLVKDMAVYEMTKAMEPA
2200847880	2201513418	F006324	DADIEAFFACLAGSCCPTCFVNGADFDGDGDVGTDADIEAFFRVLAGGDC
2200850452	2201518860	F006324	FDGDGDVGTDADIEAFFACLAGNCCPTCFPGGTDFDGDGDTGTDADIEAFFRVLAGGEC
2200859692	2201540165	F099155	MKSLERLVVTPEHFPLEITVSTGEKYLLPHPDHVQMHPNTRDLAIYPDEGPFSLVINPAQVVSVKPVRKAS
2200886816	2201595272	F006324	DFDGDGDVGTDADIEAFFACLAGSCCPTCGSADFDGDGDTGTDADIEAFFRVLGGGNC
2200903019	2201625554	F006324	FSCLAGSCCDTCWRLGADFDGDGDSGTDADIEAFFRVLGGGSC
2200944434	2201702233	F031935	MMSDGAKRIQVQERTDVPPMWCVHAGQRRAPKRFETLLQFKGFGGGVPPNTETA
2200974980	2201754906	F006324	FFACLAGDCCPTCHSGGADFDGDGDVGTDADIEAFFRVLAGGEC