3300020152: Soil microbial communities from Anza Borrego desert, Southern California, United States - S1+v_10-13C

Overview

Basic Information

• IMG/M Taxon OID: 3300020152
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0128792 | Gp0220312 | Ga0196971
• Sample Name: Soil microbial communities from Anza Borrego desert, Southern California, United States - S1+v_10-13C
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 269467853
• Sequencing Scaffolds: 17
• Novel Protein Genes: 19
• Associated Families: 17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Rhodopseudomonas → Rhodopseudomonas palustris	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Solibacter → Candidatus Solibacter usitatus	1
Not Available	5
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → unclassified Bryobacterales → Bryobacterales bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Sand → Desert → Soil → Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: California
• Coordinates
  • Lat. (^o): 33.3049
  • Long. (^o): -116.2547
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003510	Metagenome / Metatranscriptome	482	Y
F006324	Metagenome	376	Y
F011252	Metagenome / Metatranscriptome	293	Y
F012659	Metagenome / Metatranscriptome	278	Y
F013351	Metagenome / Metatranscriptome	272	Y
F020087	Metagenome / Metatranscriptome	226	N
F031904	Metagenome / Metatranscriptome	181	Y
F052479	Metagenome / Metatranscriptome	142	Y
F053537	Metagenome / Metatranscriptome	141	Y
F053745	Metagenome	140	Y
F064378	Metagenome / Metatranscriptome	128	Y
F064858	Metagenome / Metatranscriptome	128	Y
F069970	Metagenome	123	Y
F072580	Metagenome / Metatranscriptome	121	Y
F091596	Metagenome / Metatranscriptome	107	Y
F092690	Metagenome / Metatranscriptome	107	Y
F105520	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0196971_1000806	All Organisms → cellular organisms → Bacteria	18119
Ga0196971_1006678	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae	3175
Ga0196971_1006837	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Rhodopseudomonas → Rhodopseudomonas palustris	3123
Ga0196971_1009252	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Solibacter → Candidatus Solibacter usitatus	2553
Ga0196971_1019635	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae	1611
Ga0196971_1020951	Not Available	1551
Ga0196971_1030315	All Organisms → Viruses → Predicted Viral	1244
Ga0196971_1039937	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1055
Ga0196971_1044427	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → unclassified Bryobacterales → Bryobacterales bacterium	989
Ga0196971_1063101	All Organisms → cellular organisms → Bacteria	801
Ga0196971_1063370	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	799
Ga0196971_1064608	Not Available	789
Ga0196971_1090380	Not Available	638
Ga0196971_1093153	Not Available	626
Ga0196971_1109845	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	562
Ga0196971_1124544	Not Available	518
Ga0196971_1128995	All Organisms → cellular organisms → Bacteria	506

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0196971_1000806	Ga0196971_100080613	F013351	MHKPVPKPSLLHLSIEQKNLASIPFAVLERRVGKHVSKIDIAGTKVLPDGAQIDVRWQVQGNSELGLPTEQDLDIFIALGVLTFRNDFAKTITFTGREIAAILGIHGVHGKFYQRLKMAMDRFIPLRFRGVAATDRQEDIKWLNVFQEASFTLDRTSGRCVGSVTWTDKLIQSMNNGFFGFSTPAGTWNSTELRRSTCTVSSLSHSRSRI
Ga0196971_1006678	Ga0196971_10066783	F105520	MPPPRVELSRTELDFLHRLLLDMQRRLGGDVSTRAEDEEAVAAIELALAVLGWDGDTPPDLDAQVGLGAAVQLKLGADAMCAYRQWRAERRRAGAPGRQFTP
Ga0196971_1006837	Ga0196971_10068375	F012659	MQSEDRLLEVLVEIRNWIRAAARAPVKTSLEAALPDSKSRMAYQMLDGSRSMDQVRVACKMSPNALVALASRCISMGLMQVNEEKKRVRLFDLVDFDLIDAGDLPKSGAKD
Ga0196971_1009252	Ga0196971_10092521	F011252	LSQYSFIEPNAAFPLPPTFNFDEYIETEQELWALFPETDGRRVNFVQIGLTAMIYAEAPDRGAELGPDETYILMPCADYTMRPIRMRACRRLTLSEYRMGHLTAIKLVGKVNEAGDVMREIGCQILGEEVIQEAQARLADYGDDQ
Ga0196971_1019635	Ga0196971_10196352	F092690	MGSCTHPMKASAVTEAPATEEHQARLVRNLLALRMVLALDQMQTGRWSDRIDEIDEELASLGHDMKSTAACAMEGLRRSVLLPRLVNRRSRAVRHSRKLPQG
Ga0196971_1020951	Ga0196971_10209512	F072580	VKAVYSVRGFPVPEQPSYIHKLEGILAEARKPKPIPFFRRRDIESLFGLRKRQTVNLMHRIGAVRVSRELAVEQRDLVRWLEQMVEDPSVAAEWRRHQRVIGRIIDLKAETAARAVKIVLPDPERSVELPDGVSLRPGLLTISFNSEQQLLERLFLLARVLASQTDVLSGLSRSTSSQREADERDLRSHL
Ga0196971_1030315	Ga0196971_10303153	F064858	VNTPRISFVHAAELTPEVEAAVNDAFEYHKWDADKIAAGTKVREALASAVKVIIANVPPCPDRTTAIRKLREARMDVNSAITHDGKY
Ga0196971_1036820	Ga0196971_10368203	F091596	MAYQPGTTAPESGIYWCSVCKVPVQFKSGEQLPACKNLCGRGKWEFVKAAETK
Ga0196971_1039937	Ga0196971_10399372	F031904	MKPTPKSLPGLAEIEREVLAESRAWGRQRLEERLQKLADEHGEVFPPPATQAARRDAAQRIGRGKARR
Ga0196971_1044427	Ga0196971_10444272	F020087	MPTTTVQNMYGRPFEILEGDDLRSVCEQTIKNGGGALATNTAMMCRPFCASGAGNPIISALRSPIPGFEWDEVWFGFEDFTSEEDFLREHGYYGSGRCYIVVNTDGRKKLVALKDFIAHVPETILGARLHALGHGMFRYSKFFINKNRLPHHTHDVKEEAYWIEPTMIVDYDLFDERCFMTLGLHQDFGPKELREHLTAAAWDDPQMVLKRHARWYYMR
Ga0196971_1063101	Ga0196971_10631011	F003510	LEEGTYAIPFTGAGGEQRQEITAQELGAILSGIDLTEAKRRKRYRRGNAEPA
Ga0196971_1063370	Ga0196971_10633702	F053537	MKYMHKAIWQSDGNLVIRGNSRALLFRALEDVRADLEKRQDGEQLKRTLAALDQVLGTYDGPLPSAIELLGDPMREQVSRNLLKA
Ga0196971_1064608	Ga0196971_10646081	F064378	MAITTNNIQTGGAVVRLGGTVDADANNADWFDVTPQGTDIGCTTGGITVTYSLETSDIFCDQVTAPVDVAITGETATIEFSMLESTAENLKLAMGNFASSEDESGVAYWVGVGGSKTLSFVPLELEIVDNDTGYLTTWTFFRTVAQGIETNFERENPTAFGVTFTAYAA
Ga0196971_1090380	Ga0196971_10903801	F053745	MSKSNKAVQSVQVTQSEDASLVKKPSYLLELEAKWVRWTKIDDKEAYEALKDLSGDLWGELRKLEAQLCKEIENREMPEDFKEFTKARIRDTWRDIIGHQKIGLDK
Ga0196971_1093153	Ga0196971_10931532	F052479	MLAEKKLLDIETIEAQSAFELPDRVMPLVTVVITNVLNDLTVEVDVSNNRVAVQVCAAVLLLNTIIAPNQLECEIEQ
Ga0196971_1109845	Ga0196971_11098452	F069970	MSSQIQVGAKVTFDNDKIEVFKKETNLDNKEIQQYRKLVLAGIDQVGIVKEPGVTMTTVSYSDGWDLPIPTKYLVVLPEV
Ga0196971_1124544	Ga0196971_11245442	F006324	DGDTGTDADIAAFFSCLADQCCATCGTPDFNRDGDAGTDADIESFFRALAGGAC
Ga0196971_1128995	Ga0196971_11289951	F006324	EAFFACLSGNCCTSCFAGGADFDGDGDTGTDADIEAFFRVLSGQPC
Ga0196971_1129519	Ga0196971_11295192	F091596	TTAPESGIYWCSVCKVPVQFKSGEQLPACKNLCGRGKWEFVKSENGEV