3300003554: Ammonia-oxidizing marine microbial communities from Monterey Bay, California, USA - Metatranscriptome CAN11_04_M0_20 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300003554
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0099541 | Gp0089008 | Ga0008451
• Sample Name: Ammonia-oxidizing marine microbial communities from Monterey Bay, California, USA - Metatranscriptome CAN11_04_M0_20 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 24320946
• Sequencing Scaffolds: 22
• Novel Protein Genes: 24
• Associated Families: 22

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	6
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Dinophyceae	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	2
All Organisms → Viruses → environmental samples → uncultured marine virus	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	5
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Oceanospirillales → Oceanospirillaceae → unclassified Oceanospirillaceae → Oceanospirillaceae bacterium	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Marine Archaeal Communities From Monterey Bay, Ca, That Are Ammonia-Oxidizing
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Oceanic → Unclassified → Seawater → Marine Archaeal Communities From Monterey Bay, Ca, That Are Ammonia-Oxidizing

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): marine biome → intertidal zone → sea water
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Monterey Bay, California, USA
• Coordinates
  • Lat. (^o): 36.25
  • Long. (^o): -122.2099
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001488	Metagenome / Metatranscriptome	686	Y
F008361	Metagenome / Metatranscriptome	334	Y
F012639	Metagenome / Metatranscriptome	279	Y
F012917	Metagenome / Metatranscriptome	276	Y
F013645	Metagenome / Metatranscriptome	269	Y
F015413	Metagenome / Metatranscriptome	255	Y
F016399	Metagenome / Metatranscriptome	247	Y
F019484	Metagenome / Metatranscriptome	229	Y
F024806	Metagenome / Metatranscriptome	204	Y
F028939	Metagenome / Metatranscriptome	190	Y
F046638	Metagenome / Metatranscriptome	151	Y
F052640	Metagenome / Metatranscriptome	142	N
F059360	Metagenome / Metatranscriptome	134	Y
F063612	Metatranscriptome	129	Y
F065810	Metagenome / Metatranscriptome	127	Y
F072740	Metagenome / Metatranscriptome	121	Y
F081198	Metagenome / Metatranscriptome	114	N
F082730	Metagenome / Metatranscriptome	113	Y
F085780	Metagenome / Metatranscriptome	111	Y
F093912	Metagenome / Metatranscriptome	106	Y
F094427	Metagenome / Metatranscriptome	106	Y
F098669	Metagenome / Metatranscriptome	103	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0008451J51688_100052	Not Available	516
Ga0008451J51688_100304	Not Available	1699
Ga0008451J51688_100540	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	1243
Ga0008451J51688_101671	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Dinophyceae	595
Ga0008451J51688_102517	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	2173
Ga0008451J51688_102867	Not Available	1391
Ga0008451J51688_104859	All Organisms → Viruses → environmental samples → uncultured marine virus	1159
Ga0008451J51688_105043	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	12887
Ga0008451J51688_108476	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	1188
Ga0008451J51688_109771	Not Available	957
Ga0008451J51688_110582	All Organisms → Viruses → unclassified viruses → Circular genetic element sp.	579
Ga0008451J51688_112589	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	1181
Ga0008451J51688_113996	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae bacterium	747
Ga0008451J51688_114527	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Oligotrichia → Strombidiidae → Strombidium	553
Ga0008451J51688_118387	All Organisms → cellular organisms → Bacteria	927
Ga0008451J51688_121065	Not Available	684
Ga0008451J51688_125459	Not Available	608
Ga0008451J51688_130443	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	543
Ga0008451J51688_133050	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Oceanospirillales → Oceanospirillaceae → unclassified Oceanospirillaceae → Oceanospirillaceae bacterium	513
Ga0008451J51688_135089	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	725
Ga0008451J51688_135090	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	710
Ga0008451J51688_136461	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	561

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0008451J51688_100052	Ga0008451J51688_1000522	F098669	METATRGRKQKWRLKEAEGLGRKRRIGEAEGREPHESDQGLDSGPGLNPGRKVRRIDQAMEGSPEIVPAKIRKKPCLG
Ga0008451J51688_100304	Ga0008451J51688_1003042	F019484	APNTMYSFFYFLTILGGSLKKIAKKITTNVPISKKVYTNASII*
Ga0008451J51688_100540	Ga0008451J51688_1005402	F059360	MIMTIFKEVLVPANLVPAAAVIREGQALSVITGRTESVDCNISYMLKFKA*
Ga0008451J51688_101671	Ga0008451J51688_1016712	F013645	MKIEVNKIMNPAFLLGTAFNIAYWHRKYHSGTICKGVSNAQASNALSGCEREEIPK*
Ga0008451J51688_102517	Ga0008451J51688_1025173	F024806	MVKNSDFNFTDNTTITLELPFSEHIEELRQRFLHIFWIILLLTVVAFVE
Ga0008451J51688_102867	Ga0008451J51688_1028672	F085780	MRSKLKSLKIVQVLPNGCVHFDHLVYLKTYTRYNFSKKSLFFSLLDKKKLFFENSNFFYKKYRNQS
Ga0008451J51688_104859	Ga0008451J51688_1048591	F081198	AERIEKSNSETLKAVIETVKENWNPKSEVAESTNSGYVEEAYTEEQGQAFMDKLFETGYNKLVLEKEGWIESHSFTKQTGNGEVQEAVSTSGTVPGVKQSSNISIQLGSKTAIPIRQYGQFQAVPTGQNTARFYRITVPDAGAITESPTTDITAVTHTLTAIDVTCNIRGWRQVVEKANLEDYPASFLNAIRETARLEAIRDEHKLILQDLGALDHDFGGVTTAPYHIGGSDGAATSNPTEEDADGELDEDGLTFSKRYLEELGQDTSPGNLIAFISPRAFESLISSTSLSEYTQIGNAGITRLGQMERLYGIDIIVTNELLSANNASRNLVCVKGKCWGLASQRKMEIEFQKNIAGQYWDIVWTHRVGVDILDPNTYVIVSTVN
Ga0008451J51688_105043	Ga0008451J51688_1050436	F001488	LFLQEHLNHTLKPIKKQNVKEKLNMARLELTLNFPKNFEIKTFNVKSEKKLSPLAKLILQSVQFKHFYYVRDDIFYLLKSNPIERDFLLQALYSIVISLQNNLSINFFDMWIYEIYINKVSINNKFMNQKFQNLESGEYITIKLAYGNNVSQEKK*
Ga0008451J51688_108204	Ga0008451J51688_1082042	F082730	MPSIPKVKFKFKKSIHNIWLTN*KEPIDLLKKTHKNKEITYDKQDTFKATNFNNE*FEAGTNNKKKVPVNGNTKNNTE*IEFWLRMIIKELLSI*
Ga0008451J51688_108476	Ga0008451J51688_1084761	F046638	MIKTLKNSIFKNLVVLIHGPIILLNNPNKKLTFKELESINPFISLLGFRLNNKIYSRKQIKNLKKMSYIENISIFHNSIKTFTKLPY*
Ga0008451J51688_109771	Ga0008451J51688_1097711	F063612	SAHGVAGGSPADKVTSVAEESGLKIPGRETSSKEGVNSSVL*
Ga0008451J51688_110582	Ga0008451J51688_1105821	F016399	SGRARSGGLKIGNSLKTGIIGEVVKGIGAGSLVGMVMNRVVPNSNITPIASTAAAFLAGGVTGGAAQVVLSGGLANFGGMFGGSNQNVTAQVEHGV*
Ga0008451J51688_112589	Ga0008451J51688_1125892	F028939	MKTHKIKVQKYKLFKYNLLKLQTYSKPPAFDTSNFLSGLLEQIEAYLKQVLKIIFEYHVSHFKILFIGFPLISKIR
Ga0008451J51688_113996	Ga0008451J51688_1139961	F015413	DLLTTPSFEQPAFEQSMLKDVFSKNMLVSSAGTALSVNIGAALGNVLPIAALPTGVTSILAGLVLQKFGGSNKMLKDFGMGVIQGGMATAMLPLTDKLTMSGFSQERKEVSTEELNPMVKGVMW*
Ga0008451J51688_113996	Ga0008451J51688_1139962	F012639	MSANNSGIVLTCSAAFAAAAPVATVISATMQTSPTVTAVTELQVPLTENWIATDVYILAAAGAGTPTVINPVVSMDKNRGRQLVQTPPLSSMLITNNTRPRFSPQPIGFEGGSIIRMFATSTV
Ga0008451J51688_114527	Ga0008451J51688_1145271	F072740	MVDGSGYTRVTTARFAADSDDIFMRSMIEAYAVEGKTFGGEPSGQFYMNKSTSRAASEEVLATHKGLAGGALSSYMDTYFEKTFNHFDVNRTGEIEVIKMPQFMRFLCSDQYMQLGESGQK*
Ga0008451J51688_118387	Ga0008451J51688_1183871	F012917	KSMDKILNGMILFKFLRFPLNDCGYYEKYSSFSEVSQIWDRKKHLKRKRWSQE*
Ga0008451J51688_121065	Ga0008451J51688_1210652	F052640	MVKIQTIDELEALYYGYNRNSLRKADAPVTTSTTGTFNAVFG
Ga0008451J51688_125459	Ga0008451J51688_1254591	F008361	SVLVNDVEELVSVELNEATKELEKATSAIEKAETSKARLDASVELKKATARLEGINYLS*
Ga0008451J51688_130443	Ga0008451J51688_1304433	F093912	LINVNSIKGNPKFFYSAGMFSLQKNQKTRQPKAIITILRALLAKSKIFKVKPVAVHFNNVFFNHQSYIFKKLKQKIFMKLVTSYNFRSHNGCRLKKKKRIKIRTRTRKL*
Ga0008451J51688_133050	Ga0008451J51688_1330501	F094427	LHLLQHPNPAHHISSAEYLQVELLMLYGESFDIGEGKHYTSLTKRGYKRLLKDMHHVQQHLKTLQSTYLIDADGDKLVTVGQRFNGHPSTQGARRASH*
Ga0008451J51688_135089	Ga0008451J51688_1350894	F093912	VNVNNIKGNPKFFYSAGMLNLQKRQKIRQPKAAITLLRTLLLRSKPLKQKPVAVHFSNLFFNHQSYVFKKLSKKIFAKLAISNTSRPHNGCRLKKKKRIKIRTRARKL*
Ga0008451J51688_135090	Ga0008451J51688_1350901	F093912	IKGNPKFFYSAGMLNLQKRQKIRQPKAAITLLRTLLLRSKPLKQKPVAVHFSNLFFNHQSYVFKKLSKKIFAKLAISNTSRPHNGCRLKKKKRIKIRTRARKL*
Ga0008451J51688_136461	Ga0008451J51688_1364611	F065810	KYLYYAVDDISYLLKSTPIERDNLLTILYSPVLSLQNNLSINFFDIWIHEIYINEIKKVNKFLVNNSQNLECVNYVTIKLLYRTKIPVKKQESLW*