3300003724: Soil microbial communities from Colorado Plateau and Sonoran desert - Soil Crust after wet up 2B (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300003724
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063445 | Gp0056424 | Ga0004769
• Sample Name: Soil microbial communities from Colorado Plateau and Sonoran desert - Soil Crust after wet up 2B (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 7414697
• Sequencing Scaffolds: 11
• Novel Protein Genes: 12
• Associated Families: 10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → Rubrobacter → Rubrobacter xylanophilus	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → unclassified Nitrososphaera → Nitrososphaera sp.	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → environmental samples → uncultured Rubrobacteraceae bacterium	1
Not Available	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Calotrichaceae → Calothrix	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Sphaeropleales → Selenastraceae → Monoraphidium → Monoraphidium neglectum	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Four Geographically Distinct Crusts In The Colorado Plateau And Sonoran Desert
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Sand → Desert → Soil → Soil Microbial Communities From Four Geographically Distinct Crusts In The Colorado Plateau And Sonoran Desert

Alternative Ecosystem Assignments

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

Location Information

• Location: Colorado Plateau and Sonoran desert
• Coordinates
  • Lat. (^o): 38.42
  • Long. (^o): -109.4099
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000818	Metagenome / Metatranscriptome	878	Y
F001042	Metagenome / Metatranscriptome	794	Y
F005661	Metagenome / Metatranscriptome	393	Y
F008717	Metagenome / Metatranscriptome	329	Y
F038139	Metagenome / Metatranscriptome	166	Y
F044877	Metagenome / Metatranscriptome	153	N
F058553	Metagenome / Metatranscriptome	135	Y
F059546	Metagenome / Metatranscriptome	133	Y
F076934	Metagenome / Metatranscriptome	117	Y
F093150	Metagenome / Metatranscriptome	106	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0004769_100328	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → Rubrobacter → Rubrobacter xylanophilus	612
Ga0004769_100368	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → unclassified Nitrososphaera → Nitrososphaera sp.	790
Ga0004769_100590	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → environmental samples → uncultured Rubrobacteraceae bacterium	851
Ga0004769_100833	Not Available	544
Ga0004769_100856	Not Available	556
Ga0004769_102333	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Calotrichaceae → Calothrix	1318
Ga0004769_103322	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → unclassified Nitrososphaera → Nitrososphaera sp.	592
Ga0004769_103457	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Sphaeropleales → Selenastraceae → Monoraphidium → Monoraphidium neglectum	505
Ga0004769_103777	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	692
Ga0004769_108739	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → unclassified Nitrososphaera → Nitrososphaera sp.	573
Ga0004769_110263	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae	695

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0004769_100328	Ga0004769_1003281	F059546	GVKLKKMMMLAALLAMLVVAAIPAIAQVEQGFEQETDSGEVEQSFEISGSGDNGNQCANVNGTTNTGNLQNQSGSIQYASDIEEFEQEEIGSDLSVTGTGSVTCEQQVNQAAAAG*
Ga0004769_100368	Ga0004769_1003681	F001042	MTFTDDSLCGRSQDLTCAEASDKIVIDKLLVNKLTELLITSIYNVHTSRRSEIFLTSLDMHLAQDSISNKNDNARCEFTEKSTLLLESYQEDVPKSLGKAESCLGEALDLINLVVSASEAGVNNE*
Ga0004769_100590	Ga0004769_1005901	F076934	SKLLAHPGADSPATRGRCRIVRKGLTVSTALHVRRPKGNKNDLYVLGKTSEDGPRVLCVTPASGIKTLPLFSNREAARRFLRATPLRFGLLRSGWRARKVLGSDLGSLFLLGFPTGIRAIGLDLTPEDLVGECCAEPLSEVA*
Ga0004769_100833	Ga0004769_1008331	F044877	MTFTEGCPPGRSQDLTCVSEEMVTLDRKTLEEIFSLIGDCVDTIINLRHSGVFITSAKRCLLDTGNLELASSTEVSEAALLLDTWLDVVPKSHKEMDAWLQQANAITYLALAPIKLGKSNG*
Ga0004769_100856	Ga0004769_1008561	F059546	GGIKLKKMIMLAALLAMLVVAAVPAIAQVGQDFEQETESGEVEQSFEISSEGSNGNQCANVNGTTNTGNLQTQTGAIQYASDIEELEQEDIGSDLSVTGTSTVECTQEVNQAAAAG*
Ga0004769_102333	Ga0004769_1023332	F058553	MAQTRAVMPARYVPLADELLQTTGVSDYSTLIGILLSRYGKHLLSTWEIANCQQAAPVNPQPIVEVPIAQPETFT
Ga0004769_103322	Ga0004769_1033221	F001042	IKLMTTSHLIGKNFASNVPKNFEADADDTIVIDKLLVNKLTELLITSIYSVHTSRRCEIFLTSLDMHLAQYSISNKNDTACREFTEKSSLLLESYQEDVPKSLGKAESCLGEAIDLINLIVSASEAEVNNNG*
Ga0004769_103457	Ga0004769_1034571	F038139	MEQRKTEPKQSRFKVEQLERRIAPSAANFPPGQFPSGNPAKAPGNSNPNEMGGPKS*
Ga0004769_103457	Ga0004769_1034572	F000818	MQPQEKKSRFQIVKLEERIAPAIVGVKINGGGNTPNGTANGVPTTNLNPAGFAPPGQN*
Ga0004769_103777	Ga0004769_1037771	F005661	MQFRVAQTSGAGHVAREFGYHSGPLTPEMVHDAARTAKILDLQKQLRTAYNRHDAKIRANKVELERLTLEAIENGLTDKAQIDKYVSKAIVAGAKHDQHIVNLSQQLQNELNLVKVQGASTQTLANADFRQRLLLIKANHQAKGQIQTNGFQQSLKAIQASPQQAIAMQAKRAAFTNYINAKDFDPIPAVSGASTGGNNSSVGNNSKGFLDGLFDFFSGRK*
Ga0004769_108739	Ga0004769_1087391	F093150	TALSFALVANKEAKAAVFIFAPTTAYTLGDTNGQDGVADTIFGGASLPVGIINGEGYRHEYRASYEFNLANLFLAPNTAITSAIFGVRANSVSSYARFSRLDLHGYIGDGQANVSDFEAGEYLDGRFLYSVINVDSTINPSPIFSFNVRPFLSTSINNNNTFAGFTLRVDDAYLALREDARLTIITADVPE
Ga0004769_110263	Ga0004769_1102631	F008717	MTEPTGGGESFPELFGVIESYAQGDHNHQVKALRVISAAYLPLFEVPPMPDAKRVVEDVLRANDFLLTDPETGGLEPAAVDAVVSVATSRLSEEDLKWGAGCLLDVMDALRQRAQTEGYETYVLDADDVLDGLEAILAADIVEDAIEDILEGEA*