3300025733: Metatranscriptome of freshwater microbial communities from St. Lawrence River, New York, United States - Law_Law_RepB_8d (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300025733
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0133460 | Gp0293455 | Ga0255262
• Sample Name: Metatranscriptome of freshwater microbial communities from St. Lawrence River, New York, United States - Law_Law_RepB_8d (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 13478567
• Sequencing Scaffolds: 14
• Novel Protein Genes: 16
• Associated Families: 15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Fragilariopsis → Fragilariopsis cylindrus → Fragilariopsis cylindrus CCMP1102	1
Not Available	9
All Organisms → cellular organisms → Eukaryota → Cryptophyceae	2
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Perkinsozoa → Perkinsea → Perkinsida → Perkinsidae → Perkinsus → unclassified Perkinsus → Perkinsus sp. BL_2016	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: New York
• Coordinates
  • Lat. (^o): 45.0061
  • Long. (^o): -74.7949
  • Alt. (m): N/A
  • Depth (m): 5

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000191	Metagenome / Metatranscriptome	1666	Y
F023359	Metagenome / Metatranscriptome	210	N
F023532	Metagenome / Metatranscriptome	209	N
F029333	Metagenome / Metatranscriptome	188	Y
F032540	Metagenome / Metatranscriptome	179	N
F037068	Metagenome / Metatranscriptome	168	N
F039170	Metagenome / Metatranscriptome	164	Y
F044534	Metagenome / Metatranscriptome	154	Y
F053640	Metagenome / Metatranscriptome	141	Y
F054052	Metagenome / Metatranscriptome	140	N
F071977	Metagenome / Metatranscriptome	121	Y
F082152	Metagenome / Metatranscriptome	113	Y
F082153	Metagenome / Metatranscriptome	113	Y
F086577	Metagenome / Metatranscriptome	110	Y
F092088	Metagenome / Metatranscriptome	107	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0255262_104318	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	688
Ga0255262_104851	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Fragilariopsis → Fragilariopsis cylindrus → Fragilariopsis cylindrus CCMP1102	653
Ga0255262_105176	Not Available	632
Ga0255262_105217	Not Available	629
Ga0255262_105714	All Organisms → cellular organisms → Eukaryota → Cryptophyceae	604
Ga0255262_105998	Not Available	591
Ga0255262_106222	All Organisms → cellular organisms → Eukaryota → Cryptophyceae	580
Ga0255262_107106	Not Available	547
Ga0255262_107165	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Perkinsozoa → Perkinsea → Perkinsida → Perkinsidae → Perkinsus → unclassified Perkinsus → Perkinsus sp. BL_2016	545
Ga0255262_107627	Not Available	530
Ga0255262_107795	Not Available	525
Ga0255262_107807	Not Available	525
Ga0255262_108005	Not Available	519
Ga0255262_108031	Not Available	519

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0255262_104318	Ga0255262_1043181	F053640	QSKRSGLKDVAESTAGIIPGDRGMVGDSWCRPPLQMAQAVERHISPVPLAGVVSGQFTHESGTERQGAIRNRVEPSQAHGKFRPVRRRSYPRGFRLLLRRPERSHGFRRANPAKRPRSQHEGGAQGNRDSGERADLAKSVKPPQRSGVTNHVAPLQKRKQP
Ga0255262_104851	Ga0255262_1048512	F054052	LLAALLGVASAIYPDDHWSYSTKLSASNIDDEIKSAVDGGKTMFVRLIASAG
Ga0255262_105176	Ga0255262_1051761	F086577	SKVLNPGVAGLPDFGSFGLTDLVTEMAAPANGSSFARLKTLGATVIATQSWTVIGDVRVVSFAFSVLMETDAAGNRKFSGSVQGSISIGRFTFGAYVPFNKPGSQMEFVLPEVTVNGVNVNELFGVGTTVSVGADDVENLLAGAGAEVTARVKAELAQKAAELKALAKEQLRANLLAPLQELQARAELMRQQAQNGSVLLLGNVVDALRI
Ga0255262_105217	Ga0255262_1052171	F044534	GNGWWQLVPPSPPNRVSGMAGIYHQFLWPESCPVSSHTNQELSREERLETAPNGVRPTGSFDPCADAVTPEGFGCYCADQNAVAISGGTTPPKGPARSTSRARKEVVTAGSERT
Ga0255262_105714	Ga0255262_1057142	F092088	RMVLYLIYEKHNPDSFWKPYIQVLPTDYNNIMSLTDAELRKLLRRPGCENTHNLGVQMRRTFNRFFNQYKSLVEPNYPEMKFSREDLLWGFNTLVACGWGSGTDGTGDKMMVPFSELPVHRRESAQKATNRGFISAAKEYQAGEELTFDYGLLNDAVLAFYGIPTPDCRGLRR
Ga0255262_105998	Ga0255262_1059981	F029333	MTIWVVVGVATLPVGGPVPLICTPGVPVLEKKPVGYVNVMLLPISSLPPAVVVNENVAAAGVLPATRSDVAIANEGSVARPPITPELTPEDAV
Ga0255262_105998	Ga0255262_1059982	F082153	MVRPVTVTVTAVLAAIDWAAMVMTIWVLVGVATVPVGGPPPLICTPGVPVLEKKLDGYVSVMVPPVASAPPAVVVNENVAAAPVL
Ga0255262_106055	Ga0255262_1060552	F000191	FLAASGYTVGNLVNQHVRFIESGEKDPLMTYEKALITQSRALEIPELD
Ga0255262_106222	Ga0255262_1062221	F032540	RGSVAVVPELGLATGADQLGGRSLRKRVVVAVVMLALGCVAVALAVASASGDAELRDTSVLKVGVSDRLDVWRQYENDEDINPRKKTGPKADWEKQRSIPDFVDGIIGPSPTAMDEGGGKSRGSFNVQKITDKTDFYYLRVSDRSGNGDRIRAELVGSDGYRLDWVGFGEIFTGPIHEGNLGETDYLRVEDLI
Ga0255262_107106	Ga0255262_1071061	F039170	DIEVQTATVPWFHNSWSESEHGHGGAKGNTGLAISAWGNVIVFYARNQLNSYFMNGQERTWHNHGWTTLSTGIQCAKSGAHYNFLIDHGTGYLRIWGYMVGGNNMDVYGHASGSWATGKSLSGAWGDWDGNAGNDQHHVNQLNAAGRLSVLGTPRSYFKNKAPRTSTNGQFMLAFDMELDES
Ga0255262_107165	Ga0255262_1071651	F023359	VRNWFIFSIGMSFTRIAITLLAALVVLSSVIAFLSFLGLPQAFKDEIPNCVDGPCREFSNSIKLSDLLEVQGANTYSLVNTRTWGPVEGWFIVLGIIPVSVVLLALIVLNKFPLPIDSEASSGEAL
Ga0255262_107627	Ga0255262_1076271	F071977	LGTDMFSKASNAVHDFVGGGIKNAVNQVVDFGSVAMVGALKHVNDRITDFFDPNKSKREYMNSQEYKDKMAAKAIFQTFSTKLGLPSNMPKYLTDSLVQWIIGEMKVTPLRRQPFLTNLNSDDQCVSEKAPDTCTEDDIKCIVLANKCFLDDEGCVRAALEKVPTSALEKYAAANR
Ga0255262_107795	Ga0255262_1077952	F082152	LIDTPGVPVPAKKPHGYVSVMVLPVASAPPALVVNDTVAAAGVLPATRSDAAISNEVFVT
Ga0255262_107807	Ga0255262_1078071	F023532	VDDVPVNPTVMVEEAETRLLANETEADDKAPANMAGTDTLATVSTGAKPGFAPYVDIVEVVAAAAALGIVRAEMTHTMTPFKAVAVPRASFTLGEEYVAVIVPDEMAVPPLLHVAVGLLPPKEVKPDIVITSATVDDVPVNPTVMVEEAETRLLANETEADDKAPANMAGTDTL
Ga0255262_108005	Ga0255262_1080051	F029333	PLICTLGDPALAKKPDGYVSVMLLPAASAPPAVVVKVNVAAAEVLLATRSAKATTNVTEVTAPPITPDA
Ga0255262_108031	Ga0255262_1080311	F037068	TVSGLLLKVADFEGVKPAVQADMERLQKQMSEEVQGLASRVETLQAAVEQSGKESEGLLLASLMKLQEEVDGKIGAVKGEVDVQGKSMLEVLETLSAERKAADDDRKQVQTRLQGVSSDVEAVQAQSAKQAETVSGLLLKVADFEGVKPAVQADMERLQKQMSEEVQGLASR