3300019761: Microbial mat bacterial communities from the Broadkill River, Lewes, Delaware, United States - BB_6_MG

Overview

Basic Information

• IMG/M Taxon OID: 3300019761
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0129088 | Gp0217621 | Ga0193955
• Sample Name: Microbial mat bacterial communities from the Broadkill River, Lewes, Delaware, United States - BB_6_MG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 311550901
• Sequencing Scaffolds: 13
• Novel Protein Genes: 15
• Associated Families: 15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria	2
Not Available	9
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Roseobacteraceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → unclassified Candidatus Pelagibacter → Candidatus Pelagibacter sp. TMED197	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

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

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: Delaware
• Coordinates
  • Lat. (^o): 38.7906
  • Long. (^o): -75.1644
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002360	Metagenome / Metatranscriptome	567	Y
F007062	Metagenome / Metatranscriptome	359	Y
F009753	Metagenome / Metatranscriptome	313	Y
F016507	Metagenome / Metatranscriptome	246	N
F026888	Metagenome / Metatranscriptome	196	N
F036294	Metagenome / Metatranscriptome	170	Y
F047109	Metagenome	150	N
F047689	Metagenome / Metatranscriptome	149	Y
F049757	Metagenome / Metatranscriptome	146	Y
F053227	Metagenome	141	N
F088927	Metagenome / Metatranscriptome	109	N
F089556	Metagenome / Metatranscriptome	109	N
F092061	Metagenome	107	Y
F099388	Metagenome / Metatranscriptome	103	N
F105926	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0193955_1018891	All Organisms → cellular organisms → Bacteria → Proteobacteria	2231
Ga0193955_1031213	Not Available	1572
Ga0193955_1032005	Not Available	1546
Ga0193955_1081889	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Roseobacteraceae	794
Ga0193955_1094622	All Organisms → cellular organisms → Bacteria → Proteobacteria	721
Ga0193955_1097161	Not Available	708
Ga0193955_1114757	Not Available	634
Ga0193955_1117113	Not Available	626
Ga0193955_1124378	Not Available	602
Ga0193955_1149447	Not Available	537
Ga0193955_1154304	Not Available	526
Ga0193955_1157834	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → unclassified Candidatus Pelagibacter → Candidatus Pelagibacter sp. TMED197	519
Ga0193955_1165603	Not Available	504

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0193955_1018891	Ga0193955_10188911	F036294	MDRGSSDEAIVGVKPVADEDAVTYLRVKLSESGSDAGAEGRNM
Ga0193955_1031213	Ga0193955_10312131	F047689	GGAYVHSQEQTSNYTIGLTEGAVLAGPITITGTVTNAGTMVIL
Ga0193955_1032005	Ga0193955_10320053	F105926	MDRILPVQKAIDPNRTKNDAQVIINVASIESIKQKASEYDEAELVEPEEKTDDEIIVNVAKNGRTKY
Ga0193955_1081889	Ga0193955_10818891	F016507	KGMHTKTRNRLARQDALREYMQERGSVQYLFDIIEKIEKLDPESETFQQDLAKYSKVVDVRHKMLGKYLPELKATEITGEGGGDLQITVADFKSA
Ga0193955_1094622	Ga0193955_10946221	F088927	KVLTETTSNPTEKLWRSVLKQAFEDAFLGAKLHLCNYERQDARDFVSKRSTNFDYVCEMAGLSPDYVWDKVQQFRKEKYVWKNDLQRVQW
Ga0193955_1097161	Ga0193955_10971611	F009753	CNNIMESEALMLYAIYFALHFAMMFLGVVIAIHFDMTIGLLIATTFGVKFLFMLPNNREG
Ga0193955_1114757	Ga0193955_11147572	F089556	MTQYKYLVKIFTKHLQTQFEIESDKEINDADELNKPIIDFLGKSDIKW
Ga0193955_1117113	Ga0193955_11171132	F049757	MAKQISYQSLTDIGLNGLNTQSNPASLDLSYLVKAENVVIRESG
Ga0193955_1124378	Ga0193955_11243782	F002360	VDKVNKIGENTFLKLRQQRDQARSECDQAKIQRDVALRKLNKALQIAKDLRKLIENGNQT
Ga0193955_1145779	Ga0193955_11457791	F099388	RNRAKNLATPGGVIDAVDVWEMGVLGLMIAAIAYKEYDEIPTIFKRTATNMFNSMTSMYNIPPVPLEQYDLDYEFIEKVITTGEKVMPTDIIIKKVGEIAKGVGEKGLATGFGYVPTTPKNTDTMETTQKIQPGVQEEKMFEQARPKKIKSAGGSGARIL
Ga0193955_1149447	Ga0193955_11494471	F053227	MTEFNLDKYQTCLELYNEPSMEDEENYVPYLFGAKYLWYGYKVDACDNLENIIKSEM
Ga0193955_1151174	Ga0193955_11511741	F026888	KRLEYDEEKGYSIKDLEDAGLVRTGGKQTTPQTTMNTAGNAQTSYNTLSDPSFDLIRNRYQELLPTRKTNLQDLITAFGATAPEDATKLQTIGQVLSKAGTTATGLRQQREATAEGFKSTALNEVLKNMTAPEKDQLIRRAKQYARLNNIPEDQAINMFLSKLLESGGSDYLKDYSP
Ga0193955_1154304	Ga0193955_11543043	F092061	MNKKETSEAIIKFFVESYTAPTKEKREYANWCAFGACAGLYPEEVRYFQREAVSRL
Ga0193955_1157834	Ga0193955_11578343	F047109	CRCRYIRGGRMKTYKVIGGYTVYEQYEINVEAKDDKEAIAKAEKIPVEKWNELQNSNDGGFIIDDVWEEDENN
Ga0193955_1165603	Ga0193955_11656031	F007062	MIDEPRFKNIQKERDLLSVAHIKKLEEEIDMLRKQKIYLQSQLRKKHAKENQESK