3300001117: Marine microbial communities from the Deep Pacific Ocean - MP2098

Overview

Basic Information

• IMG/M Taxon OID: 3300001117
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053074 | Gp0053955 | Ga0000764
• Sample Name: Marine microbial communities from the Deep Pacific Ocean - MP2098
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 71695887
• Sequencing Scaffolds: 29
• Novel Protein Genes: 30
• Associated Families: 27

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → Candidatus Pelagibacter ubique	1
Not Available	16
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → Viruses → Predicted Viral	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → sulfur-oxidizing symbionts → Candidatus Ruthia → Candidatus Ruthia magnifica	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → unclassified Candidatus Pelagibacter → Candidatus Pelagibacter sp. TMED203	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → Streptomyces scabiei	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Pelagibacter phage HTVC034P	1
All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Deep Ocean Microbial Communities From The Global Malaspina Expedition
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Oceanic → Unclassified → Deep Ocean → Deep Ocean Microbial Communities From The Global Malaspina Expedition

Alternative Ecosystem Assignments

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

Location Information

• Location: North Pacific Ocean
• Coordinates
  • Lat. (^o): 14.53
  • Long. (^o): -118.77
  • Alt. (m): N/A
  • Depth (m): 294

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003103	Metagenome	507	Y
F013359	Metagenome	272	Y
F015152	Metagenome	257	Y
F018382	Metagenome	235	Y
F021185	Metagenome / Metatranscriptome	220	Y
F023366	Metagenome / Metatranscriptome	210	N
F025152	Metagenome	203	Y
F028834	Metagenome	190	Y
F037771	Metagenome / Metatranscriptome	167	N
F038406	Metagenome / Metatranscriptome	166	Y
F041431	Metagenome	160	N
F047723	Metagenome	149	Y
F049233	Metagenome / Metatranscriptome	147	N
F057762	Metagenome / Metatranscriptome	136	Y
F065856	Metagenome	127	N
F070936	Metagenome / Metatranscriptome	122	Y
F074036	Metagenome / Metatranscriptome	120	N
F084730	Metagenome / Metatranscriptome	112	Y
F086697	Metagenome / Metatranscriptome	110	N
F087030	Metagenome / Metatranscriptome	110	N
F088704	Metagenome / Metatranscriptome	109	N
F090851	Metagenome	108	N
F101292	Metagenome / Metatranscriptome	102	N
F101350	Metagenome	102	Y
F101850	Metagenome	102	Y
F105497	Metagenome	100	Y
F105888	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI11785J13272_1000476	All Organisms → cellular organisms → Bacteria	8121
JGI11785J13272_1000912	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → Candidatus Pelagibacter ubique	5392
JGI11785J13272_1001167	All Organisms → cellular organisms → Bacteria	4672
JGI11785J13272_1002363	All Organisms → cellular organisms → Bacteria	3054
JGI11785J13272_1003182	Not Available	2546
JGI11785J13272_1005600	Not Available	1792
JGI11785J13272_1006495	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1626
JGI11785J13272_1007006	All Organisms → Viruses → Predicted Viral	1549
JGI11785J13272_1007749	Not Available	1453
JGI11785J13272_1008003	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → sulfur-oxidizing symbionts → Candidatus Ruthia → Candidatus Ruthia magnifica	1423
JGI11785J13272_1008836	All Organisms → Viruses → Predicted Viral	1330
JGI11785J13272_1008982	Not Available	1313
JGI11785J13272_1010467	Not Available	1183
JGI11785J13272_1011702	Not Available	1094
JGI11785J13272_1012337	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → unclassified Candidatus Pelagibacter → Candidatus Pelagibacter sp. TMED203	1050
JGI11785J13272_1012733	Not Available	1026
JGI11785J13272_1013770	Not Available	971
JGI11785J13272_1017932	Not Available	802
JGI11785J13272_1018605	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → Streptomyces scabiei	781
JGI11785J13272_1019009	Not Available	769
JGI11785J13272_1020088	Not Available	740
JGI11785J13272_1021053	Not Available	716
JGI11785J13272_1022323	Not Available	685
JGI11785J13272_1023285	Not Available	664
JGI11785J13272_1023477	Not Available	660
JGI11785J13272_1023615	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → unclassified Caudoviricetes → Pelagibacter phage HTVC034P	656
JGI11785J13272_1023985	All Organisms → cellular organisms → Bacteria	649
JGI11785J13272_1028816	Not Available	567
JGI11785J13272_1029392	All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon	559

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI11785J13272_1000476	JGI11785J13272_100047612	F101292	KNANAVMAHVPAKDVKRVNPATATVIVPAVKKNAAVLNKIELL*
JGI11785J13272_1000912	JGI11785J13272_10009127	F057762	VPQVGLPQIEPVTSAIILNTNPEGAKLLVINEKFLFLKIKITKDKIEIIEKIPKEIQAAGT*
JGI11785J13272_1001167	JGI11785J13272_10011671	F105888	MIWESITIDNLILVYVVGLFALIIISLYALIQSKANKLYTFILIPLALIITSMTWQGIKMLQGMPVYGLPIDEKIEVLYVQNDEPWIYVLLNSIETQRGPVFYKIDWTVENE
JGI11785J13272_1002363	JGI11785J13272_10023634	F101850	MHKFYINSVGFPTTTINEFRNKHCGRGGSTPPPPFTTSGGELGSTSAKGYSFVRY
JGI11785J13272_1003182	JGI11785J13272_10031824	F086697	LMYIDIFEQDLFNKYTKLWYENNLDDTTKSDDEINNEALRLLKYEVLGFNLINGSKEEPIKELKEVVSDSFDEAMFNTKSDTLPLLLKAWKALEEKVLLEDKEKLKVN*
JGI11785J13272_1005600	JGI11785J13272_10056006	F088704	MMSNEDCEIENLKLENQKLGKQIEFLKMMVNAASLKLTEEKKRRQFAEQEVTNIKKEMRKEL*
JGI11785J13272_1006495	JGI11785J13272_10064951	F074036	LETYKQEIFHTSFADDDKRKSLWMAYNMLDKIRGHLQTIMESGKLAQKDLELLNKS*
JGI11785J13272_1007006	JGI11785J13272_10070061	F049233	TETDYQRKVLGDIGEKIVGNYMSRIGRTVEMSTDPFDSEKDMIVNGKPLEVKTQVPYCLEKSFTIRKNQLNKCLNVDYFVIVQAPCEYLNEAAIWKVKKGFTYNTVKLKGGGERLSIPMYQTNVIKKMDIVGEDKDLLRKYSTDYGG*
JGI11785J13272_1007749	JGI11785J13272_10077492	F065856	MMNRDKKGQNNQEIGKTEQSSQGDQFRQPSIYSRHDDVCFLDQADHQNSDN*
JGI11785J13272_1008003	JGI11785J13272_10080031	F084730	NDLHSNCTVAILDTVEPVFAVGYFSYLNRITSGIYIYDLSDRLYGYGAPKGALIF*
JGI11785J13272_1008836	JGI11785J13272_10088361	F070936	EFEGEELSEAWNEKLSIKALGEYRKVYNMMKKTGVDKKFIKSMEKFYDDLVIGGMYTSRGAEEKGIVKIDGKTKYKNANW*
JGI11785J13272_1008982	JGI11785J13272_10089821	F047723	IKAALNVPSANNLLNVLGNLKATKKASAKRLVPKKIAINISLA*
JGI11785J13272_1010467	JGI11785J13272_10104672	F018382	QINIDAAKVNLKPIKRKGGKCSIAGLAITKPKPKKIGTSEAKNVSLRLKIYSH*
JGI11785J13272_1011702	JGI11785J13272_10117021	F087030	MLIVYICASIGGTCDTWVKETHFDDWDSCMRAGYTTSLDLIKEAGPEYVNKSRMYVKFRCREVPIREEKI*
JGI11785J13272_1012337	JGI11785J13272_10123371	F101350	DGSGITISSGAGDVNVITWNAIDPDASQTWTNIDPL*
JGI11785J13272_1012733	JGI11785J13272_10127332	F038406	LNDFISFKKEDINKTVINLPFVCACHLNRKIGACGAITVIAFIVMFLILYAPEISTIGEGIGLDYNLVH*
JGI11785J13272_1013770	JGI11785J13272_10137701	F101292	VIKNANAVMANVPVKDVKRENLVTATVIVTAVKKNAVALNKIELL*
JGI11785J13272_1017932	JGI11785J13272_10179322	F025152	MSNDLYIKXLMRRLIKYLNENQKGKVDEMIQKIMEELS*
JGI11785J13272_1018605	JGI11785J13272_10186051	F105497	NIADEFSRFMKESDPQGYKDLEQKIQLSDFDTKGKKGHAEGGRADFIFGGSAGLKGMWKQMMKSINKGRDKPVTKLFPKLSVRDKEMEKLVVGTPAQKAFRAGETEHKIEGIEILINRLKHDKKILERQAKNKAMGDSGLDFLMKDLEKSFSDVYGPHLKKYTDIDKDILQMENIKKNVIMKDRKLNATGGRIGYSGGGKAGLPAITRGLPQGPGMQGTPVPAGPQPAGTSGGDLLVQNQMQQNPWMGAQKPPMGGQPP
JGI11785J13272_1019009	JGI11785J13272_10190091	F013359	EIQSEMIANGRPSAARIRNAMSNPHTWNALKQVGLIPKQNKILEGNINPQLKIELTGVEDETV*
JGI11785J13272_1020088	JGI11785J13272_10200882	F090851	LYFLLISTIRSLITSKNKISVKNFFFKQILGYFILTPLDNVIRLNIKTRYRFHKK*
JGI11785J13272_1021053	JGI11785J13272_10210532	F090851	LYFLLISTIRSLITSKNKISVKNFFFKQILDYFILTLLDNVIRLNMNAIYRFHKK*
JGI11785J13272_1021922	JGI11785J13272_10219221	F037771	VRTSAPALIIFDGYRGLHEGHATAAGGLEALIGSRVSTYWNYCLKGGDSLRARLDRALEWLEVRRNDITEINVIGLSMGCQVAVRFVNQASTTDASIEFGELVLVAPDPKYRPVGRDAEEIGSGTPSAFDEAEALWGNSGLAGPRFVAGLLDSANRMHRTRIVYCRSDGVAEWN
JGI11785J13272_1022323	JGI11785J13272_10223233	F021185	ADSEASDLSLTGKGKYGLRPDQLKFGNDKQILLTTDSNVESYLLVTEFRRNN*
JGI11785J13272_1023285	JGI11785J13272_10232851	F086697	YENNLDDTTKSDDELNNAALRLLKYDILGFKLINGSKEEPVKELEEFARDIFDKTGLNSKSDNLPLLLKAWKAYEEKVLLEKKKN*
JGI11785J13272_1023477	JGI11785J13272_10234772	F023366	TINLDVDGAXANVSIEQTSSGTVSIDAAGASFTADIDQDNASTLELHHDGASADYVILQTGGSGDIIDLEVNGASANVDIIQRD*
JGI11785J13272_1023615	JGI11785J13272_10236151	F028834	MKEKNKMIKIDIRAKNVAYITIGKWVIYVDDSTGERIIDSWEE*
JGI11785J13272_1023985	JGI11785J13272_10239852	F041431	KMGIYLNQPKAVELKIIYNKRDAAKVKDPSKILKVNRDNVKFGKSKNLDARHREYKEIFGENTNFKIILQINDYEKLVTFENQLKNVFEPFCLRSPSNGVQMEWTEKISFEDAEKTINEEYKKFLSS*
JGI11785J13272_1028816	JGI11785J13272_10288161	F003103	RIERDVVTLAQTPSCDAFLYLSKDAQDGLELLDSAPSGFDFTYCQEWGLTVXDDVIDRVILDLRKKAYPSWEDQLDYIYHNSVEDWKTNIITPIKEKYPKR*
JGI11785J13272_1029392	JGI11785J13272_10293922	F015152	NQVFKTMTELCKHHDPLAVSGVLLAQALRLYKTSLPIEDFDLLIDEILETVKEDVRPFDTPTLN*