3300012264: Freshwater sediment bacterial and archeal communities from Indian Creek, Illinois, USA to study Microbial Dark Matter (Phase II) - Sed-PBS metaG

Overview

Basic Information

• IMG/M Taxon OID: 3300012264
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0111485 | Gp0154774 | Ga0136715
• Sample Name: Freshwater sediment bacterial and archeal communities from Indian Creek, Illinois, USA to study Microbial Dark Matter (Phase II) - Sed-PBS metaG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 84582186
• Sequencing Scaffolds: 19
• Novel Protein Genes: 22
• Associated Families: 20

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Aphanizomenonaceae → Aphanizomenon → Aphanizomenon flos-aquae → Aphanizomenon flos-aquae WA102	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Caulobacter → Caulobacter vibrioides	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	7
Not Available	7

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Bacterial And Archaeal Communities From Various Locations To Study Microbial Dark Matter (Phase Ii)
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Bacterial And Archaeal Communities From Various Locations To Study Microbial Dark Matter (Phase Ii)

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater biome → bayou → sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Water (non-saline)

Location Information

• Location: USA: Indian Creek, Illinois
• Coordinates
  • Lat. (^o): 41.6655
  • Long. (^o): -87.5437
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001725	Metagenome / Metatranscriptome	645	Y
F002778	Metagenome / Metatranscriptome	530	N
F003195	Metagenome	501	N
F003456	Metagenome / Metatranscriptome	485	Y
F010765	Metagenome / Metatranscriptome	299	Y
F012096	Metagenome	283	Y
F019929	Metagenome / Metatranscriptome	227	Y
F025214	Metagenome	202	Y
F026830	Metagenome / Metatranscriptome	196	Y
F029044	Metagenome / Metatranscriptome	189	Y
F032099	Metagenome / Metatranscriptome	181	Y
F037635	Metagenome / Metatranscriptome	167	Y
F042795	Metagenome / Metatranscriptome	157	Y
F042802	Metagenome / Metatranscriptome	157	Y
F074546	Metagenome	119	Y
F077033	Metagenome	117	Y
F077438	Metagenome / Metatranscriptome	117	Y
F087118	Metagenome / Metatranscriptome	110	N
F090615	Metagenome / Metatranscriptome	108	N
F097333	Metagenome	104	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0136715_1010040	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	1357
Ga0136715_1011037	All Organisms → cellular organisms → Bacteria	1270
Ga0136715_1014257	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Aphanizomenonaceae → Aphanizomenon → Aphanizomenon flos-aquae → Aphanizomenon flos-aquae WA102	1068
Ga0136715_1020621	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Caulobacterales → Caulobacteraceae → Caulobacter → Caulobacter vibrioides	821
Ga0136715_1023394	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	751
Ga0136715_1025538	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	704
Ga0136715_1026432	Not Available	687
Ga0136715_1026529	Not Available	686
Ga0136715_1027213	Not Available	673
Ga0136715_1027240	Not Available	672
Ga0136715_1030681	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	617
Ga0136715_1031718	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	603
Ga0136715_1032159	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	597
Ga0136715_1032676	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	590
Ga0136715_1035470	Not Available	556
Ga0136715_1036335	Not Available	547
Ga0136715_1037134	Not Available	538
Ga0136715_1037526	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	534
Ga0136715_1038467	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	525

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0136715_1010040	Ga0136715_10100401	F025214	NLALLTLTERCKMLETLSQTEAKEWLHRYRIKVKETGKQQAQAWWEGVKLGIKKRRGQAGLDTLIAEMQRLRNDVNRL*
Ga0136715_1011037	Ga0136715_10110371	F090615	PTDPSLIAALRVRKGWLRPDSPIVDKAAVEGLKKLGALLCPPLDPEGKSIRAKLFNEIAAEYLKTVPQTRLLIEESIVEHQAFWDTDKVYVERTDEEIHEKLVTALKQAYADLLRAARAKASAGS*
Ga0136715_1014257	Ga0136715_10142571	F077033	ALPDSEGIPGFEVSNATDAGTGLGVQVLVGMEQSGFLNVTATLMFGAAVGRATSLVRLKTA*
Ga0136715_1020621	Ga0136715_10206212	F090615	MRALQLAAPEPTDPSLIAALRVRKGWLRPDSSIVDKAAAEGLKKLGVLLCPPPDPEGKSIPAKLFNEIAAEYLKTVPQARLLIEESAVEHQASWDPDKVYVERTDEEIHEKLVTAIKMANADRLRAAKAKAAAGS*
Ga0136715_1023394	Ga0136715_10233942	F097333	MAIYNQSWLHTILHDLNGSMVNENVWQSICYHYGITSPVNGSWIQALCEFFDVNHEIGEAWIQSLAEDFGATGPVNGSWIQALALQIQGTADLIDLLIARINADGGVLEAE
Ga0136715_1025538	Ga0136715_10255381	F002778	VKEYNAQMMEIKAFCDEVNTWISVAPSAEHLEECDQYLRQLSAYYSRYTVISGMNESIYSQLLMICIRDMAEEEYKRIKHSSTLTDYYVKGKYPKATAIFEQCRAVKQLLLITSDNYRTLLSSFRQERILVGHMTT*
Ga0136715_1026432	Ga0136715_10264322	F029044	MIYTQLSNDYKYDTLANAMYAREVEHFHYDFDRKNFEHLLANTTDSEFAANVAERLNDTRKQMGNVEAIMLALKEQIEDQAAYDAAVVRVTAKRETKEAK*
Ga0136715_1026529	Ga0136715_10265292	F003456	MKWLRRAGVIAERLTKAGAKDEGDIVTVIAGETYILELKNRAVLSLPEFWREAQVEALNYAKARGIGEVPLSYVIVKRRNASIDQAWVIQDLTQWLKEKQ*
Ga0136715_1026529	Ga0136715_10265293	F026830	MVKGETVMPVPQGDITTTEILVPEEVVEVSTTEEDEDDLPELS*
Ga0136715_1027213	Ga0136715_10272131	F077438	PSFIQSSFETLFLWNLQVEISDALRSMVEKDISSYKNLTE*
Ga0136715_1027240	Ga0136715_10272402	F012096	MSSWLIGVIGLVYFAVAVDQFIKGGVGTGIMFLGYALGNVGLVMVAK*
Ga0136715_1030681	Ga0136715_10306811	F019929	MISYQALTDEIIAFYNAHLQVKKVGTDFKEQLFNFATKDEKYPLVYVVPVDAIPSENVTLFTLEIYCFDIIQKDRANITTILSDTQQILND
Ga0136715_1031439	Ga0136715_10314391	F087118	MTDIFLSDGGSKYPALKFENVNDTHTGTVIEVKKLEDRDPAGTVKTWDNGDVRYVFVFTMNTADGIGNLWARGNMVKAIREAAQAIGASTMVGTKLTVKYTGDGEKKSKATKVVQGQG
Ga0136715_1031718	Ga0136715_10317181	F042802	MDPITILAALGPLAVDLGKSLIGRFIQSDVYKPVNVGEYVQMRNVDLEMFKAMNNAGAGGSTYPWVEAIVRLMRPSVAAIALGTWSFM
Ga0136715_1032159	Ga0136715_10321591	F003195	VTGAGAYSATYTVTDDRIEPYTFTAATAAADRTYPLPFIPAATATLSGASAAQLYASTPPIENAILVVAVEIFQSITAPGNQIMSDNFQPSPFILGRSLSNRVIGLLGPFLDVETMCQ*
Ga0136715_1032159	Ga0136715_10321592	F042795	MSIESAIRTPLKTALSGIAANVYNGIPETMTSPSICLIPDAPYLESVLINGSTTKVRVNLTVTGVVGYANNAAALDNLETL
Ga0136715_1032676	Ga0136715_10326762	F032099	MSTKGGARPNSGRKSKVDEEKVNTIFVNALKQLYNTNNDDTAKITFVKDVLMESQRGQIFIAEHIFGKPKETIEQTTTLSNFNIKELFSFDSDKQ*
Ga0136715_1035470	Ga0136715_10354701	F090615	PSLIAALRVRKGWLRPDSSIVDKAAVEGLKKLGVLLCPPPDPEGKSIPAKLFNEIAAEYLKTVPQTRLLIEESAVEHQAFWDADQPYIDQSDEDIHEEMVTAIKMANADRLRAARAKASAGS*
Ga0136715_1036335	Ga0136715_10363351	F074546	KKLTPDEKEAFRLGVMADVNERLGNFKGGDFTKQIFKSENQKLLLRNAFPDQASYNEFSQYVKGLNRQAETKQRVLGGSRTDENKAVREESSLLGSLAQASASGDLVSLLRSGVSALQSRAKGISSESSEALQKRLFTVDPIEQTAILRELNKRAQRPQTGLLTGAAAVGSATGIIGD*
Ga0136715_1037134	Ga0136715_10371342	F010765	MSALPTPPQPDDLPVALRDIVFGVMIGAVAWLVRYLCSTEKHSLGYILRRTATAGLASLLVGVATKGYFSSEGVAFAAAGCAGYASPELVDLLLAKIKAMRVKSPAKGD*
Ga0136715_1037526	Ga0136715_10375262	F037635	LNFFNGQLLWPELVHKFEENQIQFRGEVIDVGAF*
Ga0136715_1038467	Ga0136715_10384672	F001725	VTNLFVQSYSLSSSFNAEATVVDEAGLTKTHRLDDRKSEITVEGICKTSTMPTLGAALSFTLNAATAYPAGSASVSFAGTITKIDEKGSNKGFTAVTVTAIDYEGITPA*