3300028118: Metatranscriptome of freshwater microbial communities from Mississippi River, Louisiana, United States - Miss_Cont_RepB_8h (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300028118
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0133460 | Gp0294640 | Ga0256351
• Sample Name: Metatranscriptome of freshwater microbial communities from Mississippi River, Louisiana, United States - Miss_Cont_RepB_8h (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 14604417
• Sequencing Scaffolds: 19
• Novel Protein Genes: 20
• Associated Families: 18

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	1
Not Available	12
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Postciliodesmatophora → Heterotrichea → Heterotrichida → Stentoridae → Stentor → Stentor coeruleus	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Urostylida → Pseudourostylidae → Pseudourostyla → Pseudourostyla cristata	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: Louisiana
• Coordinates
  • Lat. (^o): 29.8571
  • Long. (^o): -89.9778
  • Alt. (m): N/A
  • Depth (m): 5

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001296	Metagenome / Metatranscriptome	728	Y
F001583	Metagenome / Metatranscriptome	668	Y
F001633	Metagenome / Metatranscriptome	660	Y
F001758	Metagenome / Metatranscriptome	640	Y
F004323	Metagenome / Metatranscriptome	443	Y
F010923	Metagenome / Metatranscriptome	297	Y
F014854	Metagenome / Metatranscriptome	259	Y
F024104	Metagenome / Metatranscriptome	207	Y
F034947	Metagenome / Metatranscriptome	173	Y
F037756	Metagenome / Metatranscriptome	167	Y
F049019	Metagenome / Metatranscriptome	147	N
F051728	Metagenome / Metatranscriptome	143	Y
F060937	Metagenome / Metatranscriptome	132	Y
F076149	Metagenome / Metatranscriptome	118	N
F079656	Metagenome / Metatranscriptome	115	N
F089936	Metagenome / Metatranscriptome	108	Y
F097458	Metagenome / Metatranscriptome	104	Y
F099393	Metagenome / Metatranscriptome	103	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0256351_100874	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1355
Ga0256351_101900	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales	998
Ga0256351_103127	Not Available	800
Ga0256351_103167	Not Available	796
Ga0256351_103319	Not Available	781
Ga0256351_103565	Not Available	758
Ga0256351_103631	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	753
Ga0256351_103865	Not Available	734
Ga0256351_103986	Not Available	725
Ga0256351_105167	Not Available	646
Ga0256351_105719	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Postciliodesmatophora → Heterotrichea → Heterotrichida → Stentoridae → Stentor → Stentor coeruleus	615
Ga0256351_105919	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia	605
Ga0256351_106786	Not Available	571
Ga0256351_107078	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea → Stichotrichia → Urostylida → Pseudourostylidae → Pseudourostyla → Pseudourostyla cristata	560
Ga0256351_107237	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Postciliodesmatophora → Heterotrichea → Heterotrichida → Stentoridae → Stentor → Stentor coeruleus	554
Ga0256351_108124	Not Available	526
Ga0256351_108417	Not Available	518
Ga0256351_108664	Not Available	511
Ga0256351_108833	Not Available	507

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0256351_100874	Ga0256351_1008741	F049019	MRTSRKLTHVLFAVFTLAIMSMAALAADPGTSLPASSQASDQKQGSLLIYSHYGSVTSNVSANDTRINITNTHVTSSVVVHFFFVSQACNVADFKTELTQSQTYSFLVSDFDPDTVGYIMAVAEAEDGLPIAMNFLIGDLFVKSSTGPFSANLGAIAFAALWDGTNNGNNPNESGFWRIPGGDATTPSVNITFGSAGNYNALPRTLAVDNIPSFAGGDRALLILLTPVQSFVTGGGAVGTLFGLLFDDAEQSQSFQISGGSCQSTNIISDSYPRTAPRFTTVVPAGRTGWMKVYKTSDLGILGSVIVYNIGGRDVNFHGGHNLHHLTLSGTQTATLPVFPFELQ
Ga0256351_101900	Ga0256351_1019001	F079656	NNWPTATEWNSVLRKDYVDYHRVSQTDVPTAFSYDASLTGIDTVGTGNNAVYYLNGNVLLYNDSTDTDNDNYQITVKGANFQSLLTSAGASAEVSAQLWLENNSLDLSIASHDFDVVDDNTITFKISYDDIDPLTDCTSGIVRPTLALGTATGGFHMTGLHFFFDIIE
Ga0256351_103127	Ga0256351_1031271	F097458	ELNHTLHRSYKLPPISLSLTFAALLPRRGIFALADILKLIFQYRIPIDSRYELLGSPILFDTRTLEVRRQKTNN
Ga0256351_103167	Ga0256351_1031671	F037756	GVRQALFPVPTFGAHLAAAAGFPTPFSAANGVYGLVAGPSNLLQG
Ga0256351_103319	Ga0256351_1033191	F034947	LLLCISTGRATLAEAINRLPPPEENHRKVDKRSARTGENTQTRQVA
Ga0256351_103565	Ga0256351_1035651	F076149	MNKLLLTTLGMVAAVSAAYAQGTFNANNNYTPAGASAKAFVLDLNGNPLAKANGRVEILSGGTSLSPNGSAGVALTLDGLFFINGLVAPGAGLGGTANLVVRAWDVTTGATYADATSRGSVNVVISSLGGGTTPPATFGNNSDFKGL
Ga0256351_103631	Ga0256351_1036311	F004323	MPLAGLRRLEGRATPAVADLSPVTRDYPSRALSDVFQAAA
Ga0256351_103865	Ga0256351_1038651	F089936	HNRKAYFMKKALIGMAVGAMALGASVVPASAGYFDETETLWDGIAGTDGGSTDVAQSPASALCNDGQDDIFEAMVLTGGWAERLDTDGNGKPRYTVFQPYDVILNGLLGALGLEISDLNSQPAVVQGVLADHIANGSFDENELEDADLTRITMRSGFVATLSNSEYDIPGALLAGTFGERSIYDNVYIEGSKIQDGDQYSNGWLYCIAGIIDSTPQVSHEGLNSEDTPNDGTPGGTNSLPDTL
Ga0256351_103986	Ga0256351_1039861	F089936	MKKALIGMAVGAMALGASVVPASAGYLGSSDDLTLWDGIAGTDGGSTDAPQGPEALCNDGQDDIFEALVLTGGWASRLDTDGNGKPRYTVFQPYDLILNGLLGALGLEISDLNSQPAVVQGILADHIANGSFDENELEDTDLTRITMRSGFVATLTESEYDVMFPPAATFGERDMYENVYIEGVKIEDGGQYANGWLYCIGGIIDSTPQVSHEGLNSEDTPNDGTPGGTNSLPD
Ga0256351_105167	Ga0256351_1051671	F099393	MLVERGMPMRRFFPHCETQAPDSACGQVTRSGLVASRVRKVVFFSVCLPALLIALGAGDSLNLAYGQSESNAAVPTAVRATESGLSDQNRPTRDRSEPTVTGAAMHVALFVPRN
Ga0256351_105719	Ga0256351_1057191	F051728	AKLLNCLSRIPTRRMKDASQRILGGGNKIKGCLQNLVNGLKNIPKNALKTWRNYVQAVKDKKLYDGARSAKLLNSLERIQRRTLKESHERIRGLIFASPAVKAVIKRMDGLLKRKPKQAFDKWRKYVQAVNNNELLDGVRSQKLLVVLSRVPVRRLKDVSERILGDGSKVKGAIKKIYATLQRMPKTAIEKWKKYLQGLKDKSFF
Ga0256351_105919	Ga0256351_1059192	F001633	GGTRLGALAFAGGVLPDATLRGMRMSRSHGGTVSTVTGRDLSSEASSPGSDAPCRERRAGRGADTPAIFIVSRRHPYHEDGSGF
Ga0256351_106786	Ga0256351_1067861	F024104	VPGPPFGSTTANSVAPVAAASLPGARCTSTIRPGLPLLLSPLPSGTFTSLGIKAFNNARCLPVHLANPPDSLSLPAARPNKSWDCGSSFQGRYVSAGLLFLK
Ga0256351_107078	Ga0256351_1070781	F001583	RLMVLHYFTPXYYLYLVKLHILFCHESXDTDSGENILEDKSGTYVSXFYDAMLKEFQDAXYXTLLVFSYFIEHHFNPSTVNYFFFERXNISELEEIRFYGVAPHXYFRPLMGLLVVSPSHYEGLMXLALXFVLLAILPMTYNFYNSNNSYLPIVPMQSSKLQTICFMLFMFSVYCASSMLPCGRYY
Ga0256351_107237	Ga0256351_1072371	F051728	KSQKLKALLDKAVRRTLRDATERILGDGSKVKGAIKKIYSAMQKMPKVALEKWRKYLQGLKDKSFFDNLRSAKLLNCLSRIPTRRTKDATQRILGGGSKIKGAMQSLINGLKNIPKRSLKKWRDYVQAVKDKKLYDGARSAKLLVSLERLQRRTLKEAHERVKGLIFASPAVKAVIKRMDGLLK
Ga0256351_108124	Ga0256351_1081241	F060937	NGREIERRIAGIIPGDWGTVEPGWLVQLLGSRIARFGEWRQNSPAPLAGVAARHNAIEELGGQER
Ga0256351_108417	Ga0256351_1084171	F010923	SSQLLLERAAGSERKSGGFARWTGRQQRPLNALIPKDVRILEGSGDGRRGRPNQVEEGQRASGYDPAPTGAIRDAAEEPKGRTGTDIYLGGSEVAGWEL
Ga0256351_108417	Ga0256351_1084172	F001296	MEAAERRQLLRESKKPLRATGSGQEAVRGEPGSIDPAAGENSHRGAERRNVRRSCLQCSMPCMPVESRAG
Ga0256351_108664	Ga0256351_1086641	F014854	LRWTAVIERKALVVSKIIPGNWGKVEPGWLARPLLERIARFGGGGRIHQFLWSRSHAVSYAKRNLAARGDKKPLRVGSSSSGRFRAWANRSYPEGKWLLLCIGTGRVTLADSINRLKPPNESHRKVDKGSARTGKNTQTRQFV
Ga0256351_108833	Ga0256351_1088331	F001758	VTGEKLDQAGWFNSSKAAPQGAGAEAGFTSSSGGVRAPSVNAKKELGSEERLETAPSWVK