3300003710: Tropical rainforest soil microbial communities from the Amazon Forest, Brazil, analyzing deforestation - Metatranscriptome F II A10 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300003710
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0103008 | Gp0088349 | Ga0008089
• Sample Name: Tropical rainforest soil microbial communities from the Amazon Forest, Brazil, analyzing deforestation - Metatranscriptome F II A10 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 4334833
• Sequencing Scaffolds: 18
• Novel Protein Genes: 20
• Associated Families: 19

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	13
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylocystaceae → Methylosinus → unclassified Methylosinus → Methylosinus sp. C49	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Tropical Rainforest Soil Microbial Communities From The Amazon Forest, Brazil, For Analyzing Deforestation At Different Spatial Scales
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Tropical Rainforest → Tropical Rainforest Soil → Tropical Rainforest Soil Microbial Communities From The Amazon Forest, Brazil, For Analyzing Deforestation At Different Spatial Scales

Alternative Ecosystem Assignments

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

Location Information

• Location: Amazon Forest, Brazil
• Coordinates
  • Lat. (^o): -10.0
  • Long. (^o): -62.0
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001346	Metagenome / Metatranscriptome	718	Y
F001633	Metagenome / Metatranscriptome	660	Y
F001758	Metagenome / Metatranscriptome	640	Y
F001975	Metagenome / Metatranscriptome	609	Y
F004323	Metagenome / Metatranscriptome	443	Y
F011719	Metagenome / Metatranscriptome	288	Y
F016001	Metagenome / Metatranscriptome	250	Y
F017604	Metagenome / Metatranscriptome	239	Y
F021919	Metagenome / Metatranscriptome	216	Y
F039955	Metagenome / Metatranscriptome	162	Y
F065470	Metagenome / Metatranscriptome	127	Y
F080954	Metagenome / Metatranscriptome	114	Y
F081396	Metagenome / Metatranscriptome	114	Y
F082737	Metagenome / Metatranscriptome	113	Y
F085271	Metagenome / Metatranscriptome	111	Y
F098747	Metagenome / Metatranscriptome	103	N
F098815	Metagenome / Metatranscriptome	103	N
F099818	Metagenome / Metatranscriptome	103	Y
F104505	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0008089_100129	Not Available	852
Ga0008089_100256	Not Available	579
Ga0008089_100336	Not Available	509
Ga0008089_100716	Not Available	769
Ga0008089_100834	Not Available	809
Ga0008089_100894	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	723
Ga0008089_101075	Not Available	906
Ga0008089_101142	Not Available	688
Ga0008089_101152	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Methylocystaceae → Methylosinus → unclassified Methylosinus → Methylosinus sp. C49	570
Ga0008089_101405	Not Available	619
Ga0008089_101474	Not Available	604
Ga0008089_102561	Not Available	789
Ga0008089_102780	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	619
Ga0008089_102801	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Sulfopaludibacter → unclassified Candidatus Sulfopaludibacter → Candidatus Sulfopaludibacter sp. SbA4	528
Ga0008089_102928	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	787
Ga0008089_103769	Not Available	671
Ga0008089_103799	Not Available	548
Ga0008089_106458	Not Available	632

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0008089_100129	Ga0008089_1001291	F016001	VFSRRLDPIPSWACLLQVFALDAVTTPSRRLSLVALVATLSSHCRRQPSAIRHRAWLASLEAAYLLEVFDLPAIS
Ga0008089_100256	Ga0008089_1002561	F021919	SDPISQPTPRRHATAQSYATRIAGRRPFGSPLPLFKDNGSTLPGSPASFSGWNRHLEATFRSPETTARFQATISRSKLPTCFFDTPPFAGQARSNSGSPTRYGSPRCARDRYRSPVARLAPDAPDPSSNLHSPLGSFGPCRIKAFDPIPGQEVHLPSTPDCPLLPAIDSILLVPMTDHRSRLAKRSAACCSS
Ga0008089_100336	Ga0008089_1003361	F085271	MESGHGERREIGCFVKVDFWKAKLAERFDPEGHKNPWRGVEASGAFWSAGLERIR*
Ga0008089_100716	Ga0008089_1007161	F080954	QRSSLARTFPATQEDEDSIEVEDSVRGVSRGMQDSREVGTPIPGATGDAKFGSMWSFVAGWTGATAAS*
Ga0008089_100834	Ga0008089_1008341	F011719	RTAAVNRLRLDVSRIIPGDWGKVESGWLAQPLYKPNRKAGIGGSIHQFLWRRSRAVSQRELGTVRLGTIRSRSEPSQVVQAGFEPGRIAVTQRVSGCYCVSARANDSGGLHPEVSQRKDAERRDKVSVRTGKDTGSRQDP*
Ga0008089_100894	Ga0008089_1008941	F001975	MPSTTQQELQDQFLSIVSKSQEIALDAIKSIVDTAATITPKIPTVDLPFVDRLPKPQDVVASGYDFAEKLLSSQRTFADEVVKATAPLLPGNSDTK*
Ga0008089_101075	Ga0008089_1010751	F039955	MGVLSHLDIWISGLWEKSEPQPLTVVQYGSTKSYTFRREVLRDNFRLPELPDQGRLIAVLRATQQFYLPDITDEDFDNLRQMLILIDDVILAGLKDPGNWVLPRGFSDIPFVKQRLDKNYPIEQILDFMIDATRLYVWWYRHDEAVSELIPHLLELEESFESLRTRIGDDQGNRGTRLVYDTLH*
Ga0008089_101142	Ga0008089_1011421	F001346	VKTFRKVGDSKKATADLSMKGNLRVKRRDPWPRVNALPKAAADPELSGEDAERKSQTCLDLVHKPVAQPPAQAS*
Ga0008089_101152	Ga0008089_1011522	F099818	MPMERRGWVIVVERGPTGSTGRSPQFQRKAAAFVRWHEPDDA
Ga0008089_101405	Ga0008089_1014051	F001758	VTGERLSQAGWLNPSKLNRKIGIEAGFTSSSGGVRASSVNAKKGLSDEER*
Ga0008089_101474	Ga0008089_1014741	F098815	SK*PSEQLALPTGMRGQSLACSVVETLPVCSPLRLLSRIGSVRPSPSAVFLPARSHRLGTAFPLPCSSPATTVPFREPPRRGQSSWPIPSASISNLSSSPFGLELRPSAPFITSPGAFLAQNPLPAGRPKTLKRPSNVRSPLGLSSLRLSALGQRLNLRSLPLCPARFSFAPHKR*
Ga0008089_102561	Ga0008089_1025611	F081396	ERGLVADSKESEAGQEPRAGRSISGETDEASDRETLKIIGESDSDELDERSGAEWMMTSSTGSEETHLEEAKPRRGSSPIGG*
Ga0008089_102780	Ga0008089_1027801	F001975	TSTQQDLQDQFLSIVSKSQEMALDAIKSMVDTVQTITPKIPAVDVPFADRLPKPQDVVANGYDFAQKLLSSQRKFADEVVKAAAPLLPGNGDSK*
Ga0008089_102801	Ga0008089_1028011	F098747	VPSDLLTSLIHHRHARYWLGNRERRTVRLSAPRQPFLPIDGLTLSSWPQPVLSFGTGCSRRPFTRPQRPPLSRKPFQGQNSWPSASHHDQPVPLPVRPFGSATRLGSPRCPAASTLQARCSFPGSPDLRFLLPPLPFGIFTSPRIKVFNRDLRSSARLPNPPDFIRSPHPVSIASV
Ga0008089_102928	Ga0008089_1029281	F004323	MPLVGFRRLEGRAAPVAANHSPVTRDYPSRALSDVFQAAARSTV
Ga0008089_102928	Ga0008089_1029282	F001633	GGTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPSSDAPCRERRAGRGADTPATFIVSRRHPYHGDGASFWLAVGPALRV*
Ga0008089_103769	Ga0008089_1037692	F017604	MSKGCGETVGDTSGDNPDPESALKRRGQAARKGGRERGRAHEETRSLTRRDSEAQTCGRL
Ga0008089_103770	Ga0008089_1037702	F065470	MSKGCGETVGDTSGDNPDPESALKRRGQAARKGGRERGRAHEETRSLTRRDSEAQTCGRLGPKQRRIAHQSGRLE
Ga0008089_103799	Ga0008089_1037991	F082737	QVTLGASSLPNLHARFEPVTSSTPDPFRLAPRPRCFSVGASLLSARPASLPVRSQNLEAAFHSPTTTGLLPDDRGGVRVPALPLRLCDKVSVGPFRSDLHPWQVSRIAWDFCNQNPLPSDPMPLLPAALNRRSPSGFLALPDQSTRSRWPTGNLPSITPDHPSLPTGGLIRYQPADHRSGFA
Ga0008089_106458	Ga0008089_1064581	F104505	GMRAPLRRIQTQSSCALAVTSKRAASRGVHGSSGSCYALGCRVHWVPRIRFALVVSDGSAGLHRAPSAACLRSWLHPLVSFALLQSPPPRVRRRCPHRRRLPWGLRSLFATSPSGVRAPSVPRLGAFPSAAFLTPATAFSAIRLVGLFRPTATSRVCSTGAFPRQQPRRLIDTAVMPSRRWRRCADGVATVATHRRLDLRAFFRLANPLP