3300028586: Plant litter microbial communities from East Loma Ridge, Irvine, California - P3 T30

Overview

Basic Information

• IMG/M Taxon OID: 3300028586
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0134331 | Gp0306428 | Ga0265798
• Sample Name: Plant litter microbial communities from East Loma Ridge, Irvine, California - P3 T30
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 2364763104
• Sequencing Scaffolds: 12
• Novel Protein Genes: 20
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Pleosporomycetidae → Pleosporales → Pleosporineae → Didymellaceae → Didymella → Didymella exigua	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Rhizophoraceae → Rhizophora → Rhizophora mucronata	1
Not Available	3
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rickettsiales → unclassified Rickettsiales → Rickettsiales bacterium	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	2
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Pleosporomycetidae → Pleosporales → Pleosporineae → Pleosporaceae → Alternaria → Alternaria sect. Alternaria	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Fagales → Fagaceae → Castanea → Castanea mollissima	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Plant Litter Microbial Communities From East Loma Ridge, Irvine, California
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Plant Litter → Unclassified → Unclassified → Plant Litter → Plant Litter Microbial Communities From East Loma Ridge, Irvine, California

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): grassland biome → litter layer → plant litter
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: USA: California
• Coordinates
  • Lat. (^o): 33.7417
  • Long. (^o): -117.7043
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003009	Metagenome / Metatranscriptome	513	Y
F003289	Metagenome / Metatranscriptome	495	Y
F004023	Metagenome / Metatranscriptome	456	Y
F013050	Metagenome / Metatranscriptome	275	Y
F021064	Metagenome / Metatranscriptome	220	Y
F030315	Metagenome / Metatranscriptome	185	Y
F034190	Metagenome / Metatranscriptome	175	Y
F049431	Metagenome / Metatranscriptome	146	N
F056350	Metagenome / Metatranscriptome	137	Y
F075510	Metagenome / Metatranscriptome	118	N
F081964	Metagenome	113	Y
F088701	Metagenome / Metatranscriptome	109	N
F102187	Metagenome / Metatranscriptome	101	N
F102612	Metagenome / Metatranscriptome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0265798_10072848	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Pleosporomycetidae → Pleosporales → Pleosporineae → Didymellaceae → Didymella → Didymella exigua	3341
Ga0265798_10181427	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Rhizophoraceae → Rhizophora → Rhizophora mucronata	1834
Ga0265798_10309691	Not Available	1281
Ga0265798_10507607	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata	909
Ga0265798_10563603	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rickettsiales → unclassified Rickettsiales → Rickettsiales bacterium	844
Ga0265798_10569960	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	837
Ga0265798_10573632	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Pleosporomycetidae → Pleosporales → Pleosporineae → Pleosporaceae → Alternaria → Alternaria sect. Alternaria	833
Ga0265798_10628284	Not Available	780
Ga0265798_10799771	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina	653
Ga0265798_10958645	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea	570
Ga0265798_11001290	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Fagales → Fagaceae → Castanea → Castanea mollissima	551
Ga0265798_11050851	Not Available	532

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0265798_10007138	Ga0265798_100071388	F081964	MSMAKLHWRHLIVRATTGNRPALVFHVTDGAAIDRICDRLVDAERAFEILRAKGYGKPGMLLHEVAALVPNAG
Ga0265798_10007203	Ga0265798_1000720319	F081964	MTTATCYRQQIVRAVTGSAPAIAWTVTNSGSLDRICARLVEAERAAEILQAKGYGKPGLLLHEVAALVPTKGS
Ga0265798_10045341	Ga0265798_100453413	F081964	MSMPIACYRDQVIRTVTGGKPAMVFHVVDETALRRLCDRLAEAERAVEILRAKGLGRPGLLLDELVALLPIAAS
Ga0265798_10056070	Ga0265798_1005607011	F013050	MSKGKQPRTRVNKVPKLLLSEIKVVSIEYDQEVGLEAAIFLRSRNRALVYKLS
Ga0265798_10072848	Ga0265798_100728484	F088701	VAVVLKRPEKIPIPLFKNRKNKLSYAIKAEISKIVIVALEYKIDLSRLSVIELDKSKKINDVINT
Ga0265798_10181427	Ga0265798_101814271	F013050	MSKGKQPRTRVNKVPKLLLSEIKEVVISYGQLIGLEAANFXXSRNRALVN
Ga0265798_10202813	Ga0265798_102028133	F081964	MTTATCYRQQIIRAVTGWAPAITWNVTNSGSLDRICARLVEAERAAEILQAKGYGKPGLLLHEVAALVPAKQ
Ga0265798_10299769	Ga0265798_102997692	F081964	VSMPIVCYRDQIIRAVTGGKPAMVFHVVDETALRRLCDRLAEAERAVEILRAKGHGQPGLLLDELAELVPAVK
Ga0265798_10309691	Ga0265798_103096911	F030315	VIKYNEFIIIIKYENILLIVNDIDALKYKYRIGLDTLLVYTVKYEY
Ga0265798_10416210	Ga0265798_104162103	F081964	MTTATCYRQQIVRAVTGRAPAIIWNVTNSGSLDRICARLVEAERAAEILQAKGYGKPGLLLHEVAALVPPAP
Ga0265798_10507607	Ga0265798_105076071	F004023	MILQVVTFFGLVLCCTHLSEITLTIAANVVHTVFLFHGKFYXXIFTDKNLNTDTLIRLAYAHYLSAFYMAYLGLLHGIDMHYDXKNESSYDGLDVEMSXXDEALSNELGSFIELIFILNLIAXWLYPEPEALSYEIFMXGDIGLISDVRFYGVAPHXYFRPYMAXLIVCPHHKTGIFGLLYLFLVLFHQPTLHGINEHNLYYKRRLLFSANKIKQRVFYKQSYLNVELNLFFQVTY
Ga0265798_10563603	Ga0265798_105636031	F003009	LAWYQRTYFNLNIGNLIKYFSILTVAFHDIHSLFGFCILLVVFSQLVSGTMLSFSLVPESMMVPIVRDEEDLDD
Ga0265798_10569960	Ga0265798_105699601	F075510	VFTFMILQVVTFFGLVLCCTHLSEITLTIAANVVHTLFLFHGKFYWXIFTDKNLNTDTLIRLAYAHYLSAFYMAYLGLLHGIDMHYDXKNESSYDGLDVEMSWXDEALSNELGSFIELIFILNVICXXLYPEPEALSYEIFMXGDIGLISDVRFYGVAPHXYFRPYMAXLIVCPHHKTGIFGLLYLFLVLFHQPTLHGVNEHNLYYKRRLLFSANKIKQKVFYKQSYLNVELNLFFQITYTFFVMCGLYTFTFLPYGRFYNRLGGNVGMLFAYMYVFV
Ga0265798_10573632	Ga0265798_105736322	F102612	LETLYSSLPDLLTTEQEDKTGTEALEQDVGKLDVKEQNLEDRVNKYCQEFLYIGGPTPYKRDLTST
Ga0265798_10628284	Ga0265798_106282841	F034190	MAPSATHPCPICIISHNNFLRAARYRTPADQLSIHPDQPALLHIVPERIVPTPLHVFLGISNRIIFGAFHELFGESAVEQAVQRIKTVHSAGCSGLSDLYELNGQEITKWVKKECSTSVLASAGAAAESSVSDATKATHSILAGWLKKLHHALLHSNDWMPEEIDVWRGVVSDIHQHWQAETHSSAFPKLHMLLHSVDFAERHRFLG
Ga0265798_10767350	Ga0265798_107673501	F102187	IYPTFSFLSFSLTHRRHSHNAWTALGVTSLLHPHAQRIATRITKTKFRLFLLGLGGWNGRESWGWLRTSCTRTRFLFVGDDDFLHPFPSVTCPPLVCIYGVCEGTISLALQRRLYNGSFSPFFDITVARQSRVALGVWDAWLRAFLSFPVVYSKRKSFVPTFVSRVYDNNRDFGAEKGNGNTCRPACRCICMARRSGTCMYTTSKSRVQFQNFHSLLHWDQAW
Ga0265798_10799771	Ga0265798_107997711	F021064	PLDLLTSVIGNSNNIRIAANIAITPNNLLGIDLNIA
Ga0265798_10958645	Ga0265798_109586451	F056350	LSIGNLIKYFSVLTVAFHDVHSLFGFFILLVVFSQLISGTMLSFSLVPEPMMVPIVRDEEDLEDLYTDDFFWVHERGVDLLFIFSXMHLFRKMYISAFE
Ga0265798_11001290	Ga0265798_110012902	F049431	MTTGRINQVTILSPSAEAPEQTPRRRPGCTGRKGRRRSEPQPQASEVCETPKPQATDSIAPTEFPKLRSATGRIRLLHRSLHRYIRPSGGEDSRQVNAQARVLDRAIPEDLVKRLAKPVIHRPQMLPANRETNRTSVPSTSTLQLPEGGQHRASR
Ga0265798_11050851	Ga0265798_110508511	F003289	MXGNIVTEVALQSNFGLGFNNMKSDVLIHLTQXQYXXXFXFSFLXAFYYLVILRVIRFRTLKFRPRLATTYRPHGKXGDLLICIIPISXCSNIITNSNLIMRMIEXQAETGLLTVRIRGKQXYXIYKFELKTFTDILTIPKNIGNNKXQISTPGDLQTADDYLHILQLRSQNK