3300027087: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF017 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300027087
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0085736 | Gp0057298 | Ga0208605
• Sample Name: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF017 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 12254333
• Sequencing Scaffolds: 17
• Novel Protein Genes: 18
• Associated Families: 18

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
Not Available	9
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium liaoningense	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Acidoferrales → Candidatus Acidoferrum → Candidatus Acidoferrum panamensis	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae → Dankookia → Dankookia rubra	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies

Alternative Ecosystem Assignments

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

Location Information

• Location: Harvard Forest LTER, Petersham, MA, USA
• Coordinates
  • Lat. (^o): 42.471116
  • Long. (^o): -72.17263
  • Alt. (m): N/A
  • Depth (m): 0 to .1

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003614	Metagenome / Metatranscriptome	477	Y
F008837	Metagenome / Metatranscriptome	327	Y
F012266	Metagenome / Metatranscriptome	282	Y
F014678	Metagenome / Metatranscriptome	261	Y
F015918	Metagenome / Metatranscriptome	251	Y
F016708	Metagenome / Metatranscriptome	245	N
F020059	Metagenome / Metatranscriptome	226	Y
F020723	Metagenome	222	Y
F021381	Metagenome / Metatranscriptome	219	N
F022117	Metagenome	216	Y
F023941	Metagenome / Metatranscriptome	208	Y
F025875	Metagenome / Metatranscriptome	200	Y
F029209	Metagenome / Metatranscriptome	189	Y
F029291	Metagenome / Metatranscriptome	189	N
F031985	Metagenome / Metatranscriptome	181	Y
F047145	Metagenome / Metatranscriptome	150	Y
F064528	Metagenome / Metatranscriptome	128	Y
F085519	Metagenome	111	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0208605_100008	All Organisms → cellular organisms → Bacteria → Proteobacteria	3650
Ga0208605_100204	All Organisms → cellular organisms → Bacteria → Proteobacteria	1551
Ga0208605_100318	Not Available	1335
Ga0208605_100380	Not Available	1250
Ga0208605_100458	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1147
Ga0208605_100616	Not Available	983
Ga0208605_100899	Not Available	820
Ga0208605_100956	Not Available	791
Ga0208605_101273	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	688
Ga0208605_101350	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium liaoningense	668
Ga0208605_101530	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Acidoferrales → Candidatus Acidoferrum → Candidatus Acidoferrum panamensis	636
Ga0208605_101574	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	629
Ga0208605_102081	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Acetobacteraceae → Dankookia → Dankookia rubra	561
Ga0208605_102191	Not Available	550
Ga0208605_102457	Not Available	524
Ga0208605_102617	Not Available	512
Ga0208605_102650	Not Available	510

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0208605_100008	Ga0208605_1000083	F029291	MKDTRCAGLEMLKGRVKCKMRKTKSAVTNGETREEGVKSYPCGSAPVWKTLAKVLGRGQSGRSQCAAAMRRNDGAGQRHSGGWRFGLIDARVPALTAKRNCGFLPAVPGGLMRLTRQAFRVLRVATWRKRPLSSTIELPPRRQPLAVVTDRYKAVLKGGRYARLSGTSHLRPAVWGTQLDQSSPPGPRAKEMKGRSAGSSACHPGFGVVSSLAQAAVGPGRASSRLNPRQAKQHPSHTGNRRAGRLVHRQVRKVQP
Ga0208605_100204	Ga0208605_1002041	F012266	CLALQLPFCFEVRALSDRLVSSTPERPCDDMCGLDSLSSKSDGDAADFLD
Ga0208605_100318	Ga0208605_1003183	F047145	MTIVYVTTGAWGTGTGTPNSAAQVDGNFYTLDQLIVALNADLAEGKRIDSVTYTNTSMTFHFTDGTTQTIPLPVAVITYVGQWTNSTPYVVGQMFSVPARGMYQVLVNHTTPALPAVFDPNATDGSSNPLYSFWMPLYDINYDAAIFVPGSVQRSAGEVLFQAIAGRTMRLVSGSGHAYAYLDVGIGSGSNIVLSIQKNRVQIGTITFTAGATLDA
Ga0208605_100380	Ga0208605_1003802	F008837	VMKVYNEAMSTRIIARVTSGKCEGAAFVFGLIESAIRKEATEILLTPIQELDMVRMDFGRLHCYYRQPDITRAQFAYLAIYLVLIGNVAAGEARTERLFRGSDEGLYNLQFGKMRLPDNDPAVVIHIEPVTQPTTAGGGWRKSRR
Ga0208605_100458	Ga0208605_1004581	F022117	MPAHYGLGPDDSYGLKEARATAIEPNEQSAVDPTQMQSTAWRTLPKNVELMPQYQDFGLQPPSRLEAVAQ
Ga0208605_100616	Ga0208605_1006162	F020059	MIKPDLALSQIAARFTQHDVEWSRGAFIIIDRRTTNPIARLRPIPDTDRFELFYWSNAKGRWTTFGNLGR
Ga0208605_100899	Ga0208605_1008991	F015918	VSAQAKPISEVVKDFEQSLGNLRPSTKRVYVAGARAAIRAASLELWQSPSTTDLLASIGKSPIEKRARISPFLDFLGDGGSKQSISDEEIAALQNWVIQRLAKQMRSVKNPSITSRRDTALIAAICAAPAKGTPRKWPQNCLKITENEVLLWDASIEEPCFAISLRFWHAWRERLARPDQRRRAHHSGKDQSRFP
Ga0208605_100956	Ga0208605_1009561	F003614	MKPSELPGTRSLYRLTNRALTQIKELWQYAGEAELPSESLLQAQVEALRILHIDVPLSAKRQFQLFCSEHFPGLADILDCLAADQVWTLLSMRVQLADSDQPHALSAAVRFGGLGRRYILVVFDDRPVGLLSHADGSGLFPEARSKLIALSWEEIRLALMLDIGSN
Ga0208605_101273	Ga0208605_1012731	F025875	VIRFSAFLVVVAVGLLVAGVVTSKLLLVYIAIGVSGVALLAL
Ga0208605_101350	Ga0208605_1013501	F014678	MIGSFLVERRGACSEIGFDHVGDDGARLGKIERCDSRIHLVETLAATQKLGIDCANL
Ga0208605_101530	Ga0208605_1015301	F016708	METYFVSKWRKEHLEEPEDNIFANNPFLEDLLEWRHSPEGEQFAELADALCDLMDDVQLDAKQRQLIWPDAERLDLVQSIQRIQKLYPDFPGHEIEEVLLNWIDMGYDPKNYSQAQLNEFDSLTERWVADH
Ga0208605_101574	Ga0208605_1015741	F064528	MDIYEVELCHRGRWEQQDARFVAARNADEAAYKVTGIQLRSEGE
Ga0208605_101852	Ga0208605_1018521	F021381	CLRFFLVASALFKGRCLFCHAKQTSRQKANPWQSPSHQKNVVQKKPAPDKVENLAKEYLAELREVDVTFEKGTAVLEKYRAKYPELASYIREIVPGERRIEIRQRLEGEDASLHLFAIRVLEDEARYEVKLSGDAEHKTVKPPEWLSLLHDKLARIVAKILYARETSKPEKQDLNLSGPA
Ga0208605_102081	Ga0208605_1020811	F085519	MINRRFMIVPPALLSGGHAEQLEQTSKDFPCLLLEMANMRVPRHSDFDSLAVSG
Ga0208605_102191	Ga0208605_1021911	F029209	SCIEAQEGRAVTNKSAPAKFPLDEIDLLVGWRAGEDEYLFTKAVAMVREWLLDSEEKDRLRKVLKEILAEAGPPAGNRPLD
Ga0208605_102457	Ga0208605_1024571	F023941	EGEGFELVWGFSCQVVVLGFAESSLFGAGKPFFIPSPAIRFAERAEGVKGPKR
Ga0208605_102617	Ga0208605_1026172	F020723	MTLTPRQISAYLEFNDKLDRIDRANALVISAIGAQGDKQAIDKALRELSSG
Ga0208605_102650	Ga0208605_1026501	F031985	ITGIDRLVRVYPSVAASLGDPNGQVDQAKPDGATAKADTDGGA