3300021501: Sediment microbial communities from the Broadkill River, Lewes, Delaware, United States ? FRT_1-2_MG

Overview

Basic Information

• IMG/M Taxon OID: 3300021501
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0129088 | Gp0217614 | Ga0193948
• Sample Name: Sediment microbial communities from the Broadkill River, Lewes, Delaware, United States ? FRT_1-2_MG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 145747551
• Sequencing Scaffolds: 17
• Novel Protein Genes: 20
• Associated Families: 18

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	2
All Organisms → Viruses → Predicted Viral	2
Not Available	5
All Organisms → Viruses	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → unclassified Phycisphaerae → Phycisphaerae bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium SG8_11	1
All Organisms → cellular organisms → Bacteria → FCB group	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Microbial Communities From Sediments And Microbial Mats In Various Locations
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Sediment → Unclassified → Sediment → Microbial Communities From Sediments And Microbial Mats In Various Locations

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: Delaware
• Coordinates
  • Lat. (^o): 38.7906
  • Long. (^o): -75.1638
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001488	Metagenome / Metatranscriptome	686	Y
F012457	Metagenome	280	Y
F014381	Metagenome / Metatranscriptome	263	Y
F017316	Metagenome / Metatranscriptome	241	Y
F020880	Metagenome	221	Y
F027186	Metagenome / Metatranscriptome	195	Y
F039151	Metagenome / Metatranscriptome	164	N
F040066	Metagenome / Metatranscriptome	162	Y
F047386	Metagenome / Metatranscriptome	150	N
F056175	Metagenome / Metatranscriptome	138	N
F059979	Metagenome / Metatranscriptome	133	Y
F076890	Metagenome / Metatranscriptome	117	N
F079953	Metagenome / Metatranscriptome	115	Y
F080062	Metagenome / Metatranscriptome	115	Y
F085223	Metagenome / Metatranscriptome	111	Y
F092886	Metagenome / Metatranscriptome	107	N
F093726	Metagenome	106	N
F105196	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0193948_1000046	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	18233
Ga0193948_1002582	All Organisms → Viruses → Predicted Viral	2726
Ga0193948_1013996	All Organisms → Viruses → Predicted Viral	1097
Ga0193948_1019010	Not Available	930
Ga0193948_1020330	Not Available	897
Ga0193948_1025247	Not Available	803
Ga0193948_1027888	Not Available	763
Ga0193948_1028637	All Organisms → Viruses	753
Ga0193948_1031888	Not Available	713
Ga0193948_1032579	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	705
Ga0193948_1036093	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi	670
Ga0193948_1036504	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	667
Ga0193948_1037005	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	662
Ga0193948_1043966	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → unclassified Phycisphaerae → Phycisphaerae bacterium	608
Ga0193948_1052454	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium SG8_11	558
Ga0193948_1055684	All Organisms → cellular organisms → Bacteria → FCB group	542
Ga0193948_1059777	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria	524

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0193948_1000046	Ga0193948_10000461	F012457	KDLDRDALSAVRGGRNSIEQGGVYAPVANAGGGFSFGSPTTIVSAPVNAPSAVLNDNDLHLKLANKSTSVLGSLGTVVWQ
Ga0193948_1002582	Ga0193948_10025825	F017316	DIQTVKDTEDFFFRKGQVAALASVINLQATIEATRDQAEEEEEVDD
Ga0193948_1009748	Ga0193948_10097482	F076890	MCPAYNNNAKVTTRFLTIVLAALVGFSVSACSTLDVNDYCRYAPVESIREADPESLALVLGVKAGRTKVSPFVVFRSLSEHSPEASVTLLASAAPHSMPMNLDESQCAGVDWSTYTLTVDREEWNAFWLDDRTSDFEVAIAFLDHGEPLMASAFGAAILDTSASDYLVACGCYWN
Ga0193948_1011811	Ga0193948_10118112	F076890	MGALGTSACSTLEVDDYCRYSETRSIRTADPESLALVLGVQAGRARQTPFVVIRSLSESTPGASVTLRTTPAAHPMPMGLDESRCARVDWSTYTLAVDPEEWNAFWQDDRNSPFEIGIAFVEDFHPLPLSAFGAAILDTGSADPLVSCGCFWR
Ga0193948_1013996	Ga0193948_10139961	F040066	MKPELETYFNNYNELFNSEGFKQLIQELSNNAVTLADI
Ga0193948_1019010	Ga0193948_10190101	F047386	FVKYPFQSLGRQLKKGEEFKWKEIGVSEDKALILYTQGFIHHNSEFEVELKVGDGLEQLDVAGLHGLVDSINAKVKSKTPSEAEFQKKKCKKSKIVDKQRGLIRSWRRNYGHMETD
Ga0193948_1020330	Ga0193948_10203303	F027186	MVTNSDFNFTNNEAVILELPFSEHIEELRQRLFHIFWITLFL
Ga0193948_1025247	Ga0193948_10252472	F092886	PFVYLASVESGSVRVEGLQEPTWLPELALFRLNPGVQGVEVIREGQPRSAAWAMALEQRRREGWVVLDPSLEVPAEFLPEGEAAGPYWREESVYYQRTGIGGSAYREVWSQRLPSRRSTAPPRYKFDKARFNRWLAWMVEQDLVPAPDAMARDEVLAQLEAWASSQTRIPDPTLRAQRDQVVNNRLELHRSARVIDPAALATKAPAKRSRK
Ga0193948_1027888	Ga0193948_10278882	F079953	MIPKKPNSLYNEITDEFECSEQLVDDLVHFYYKTLKKRMSNLTDLRLNVEGLGHFVLKMKKVKNTIPHYEKVLSNHDTSTFGAYHNKKSIEEKLQKLKGIDVTIQEELERRQNFKNEKYSKTTLEKQKGDTGGDN
Ga0193948_1028637	Ga0193948_10286374	F056175	KIKIYEAGEQLNRIANTLEEILRLVKLDQEKMAKRFPEPETDELSKEWKHD
Ga0193948_1031888	Ga0193948_10318881	F105196	MHIVDRCRDPYGKLSAARRTLLKQLLNAPDRLNWERARGLIIRDIPIVTLESAVRSVRRNTAADRTPDPFTLYRALRFAVDYES
Ga0193948_1032579	Ga0193948_10325791	F059979	MKSFLFIMAQLGLVTLVYVFAYRAGYRSAQSKAFSVVKKFADPVTCLL
Ga0193948_1036093	Ga0193948_10360931	F085223	TITLYLGNTLGEYEATYLTETGLKALIRRVETADSINWGCLATGHEAGCPRQLHFTHHDSYSRWVKHFNGTQSVVVIHRVRCLDCGAVFSVQPSFLIRYKRYDTDATEKLMTLLFITEDSYRMAGVSQTLALDDQQAGTWAALEIHQAHAIQPLALWRLVQWLGQLSPAQLNLALGVEPPQIIIEDEKHATECGQKSYIPLVYAPKEALIWWVDYLHSVSEA
Ga0193948_1036504	Ga0193948_10365043	F020880	WIYNFFAALDKLCLMMDNIFKFMIGLKMNYYFTGLLIIMLVLLAFCGGPSV
Ga0193948_1037005	Ga0193948_10370052	F001488	LKPIKKQNVKEKLNMARLELTLNFPKNFEIKTFNVKSEKKLSPLAKLILQSVQFKHFYYVRDDIFYLLKSNPIERDFLLQALYSIVISLQNNLSINFFDMWIYEIYINKVSSNNKFMNQKFQNLESGEYITIKLAYGNNVSQEKK
Ga0193948_1043966	Ga0193948_10439661	F039151	MLHTKHITLSDATEQVLFTIPAGYTIHVVYIFVANHGTSTNQVSLWWETGGVDQMYFFDGTSIGAGNKEIIGGQNDNGIFVLHNGDVVKTQASSATGQMEVAITFQLLERS
Ga0193948_1052454	Ga0193948_10524541	F105196	MHIIDLCRDPYGKLSAARKALLVQLLNAPDRCTWERARGLIIRDVPFVTLESAVRSVRRNCDADRTPDPFTLYRALRFAVDYESGAAESD
Ga0193948_1055684	Ga0193948_10556841	F093726	YKYIGHMRSVYGLKGELEYPSRKHSQQDSEGNWLLISYNGHKMGKVLKSGKVIA
Ga0193948_1059777	Ga0193948_10597772	F080062	VRLTLPKILWFFAAVGIAWGLNTWRHSAAMHGLDAARDGDRGAAERWVDRALRESGCELHEAKGYISSSTTRQYVRRPDYVETFVEKLYAGGAPDIEV
Ga0193948_1065982	Ga0193948_10659821	F014381	EWKITALKQAPTLDGLSNVITHINFEYKGTDADSGESAVFNGACPVGAPESGSFIPASELTQEEVIAWAQANHPTDHMNEVIEKQISEKITPTNDPVSKDEIPWLPGDDPAPEAEEVVEE