3300003596: Marine microbial communities from expanding oxygen minimum zones in the Saanich Inlet - Saanich Inlet SI073_LV_135m_DNA

Overview

Basic Information

• IMG/M Taxon OID: 3300003596
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0046785 | Gp0091328 | Ga0008669
• Sample Name: Marine microbial communities from expanding oxygen minimum zones in the Saanich Inlet - Saanich Inlet SI073_LV_135m_DNA
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 206167223
• Sequencing Scaffolds: 33
• Novel Protein Genes: 35
• Associated Families: 34

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Thiotrichales → Piscirickettsiaceae → Methylophaga → Methylophaga aminisulfidivorans	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → Candidatus Pelagibacter ubique	3
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	2
Not Available	10
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → unclassified Nitrosopumilus → Candidatus Nitrosopumilus sp. SW	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae → unclassified Methylococcaceae → Methylococcaceae bacterium	1
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Porticoccaceae → Porticoccus → unclassified Porticoccus → Porticoccus sp.	1
All Organisms → Viruses → environmental samples → uncultured marine virus	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → Candidatus Pseudothioglobus → Candidatus Pseudothioglobus singularis → Candidatus Pseudothioglobus singularis PS1	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Intertidal Zone → Unclassified → Marine → Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean

Alternative Ecosystem Assignments

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

Location Information

• Location: Saanich Inlet, British Columbia, Canada
• Coordinates
  • Lat. (^o): 48.6
  • Long. (^o): -123.5
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F004164	Metagenome / Metatranscriptome	450	Y
F007004	Metagenome / Metatranscriptome	360	Y
F009761	Metagenome / Metatranscriptome	313	Y
F013764	Metagenome	268	Y
F015265	Metagenome / Metatranscriptome	256	Y
F016736	Metagenome / Metatranscriptome	245	Y
F016995	Metagenome	243	Y
F019751	Metagenome / Metatranscriptome	228	N
F025596	Metagenome / Metatranscriptome	201	N
F029342	Metagenome / Metatranscriptome	188	Y
F030561	Metagenome / Metatranscriptome	185	N
F031925	Metagenome	181	N
F034189	Metagenome / Metatranscriptome	175	Y
F036977	Metagenome / Metatranscriptome	169	Y
F046643	Metagenome	151	N
F058538	Metagenome / Metatranscriptome	135	N
F059474	Metagenome / Metatranscriptome	134	Y
F061863	Metagenome / Metatranscriptome	131	Y
F066454	Metagenome / Metatranscriptome	126	N
F068920	Metagenome / Metatranscriptome	124	Y
F073088	Metagenome	120	N
F077377	Metagenome / Metatranscriptome	117	N
F078539	Metagenome	116	Y
F086145	Metagenome / Metatranscriptome	111	N
F087024	Metagenome	110	N
F091007	Metagenome / Metatranscriptome	108	N
F092698	Metagenome / Metatranscriptome	107	N
F092725	Metagenome / Metatranscriptome	107	N
F094606	Metagenome	106	Y
F097392	Metagenome / Metatranscriptome	104	N
F099485	Metagenome / Metatranscriptome	103	Y
F100059	Metagenome / Metatranscriptome	103	Y
F102550	Metagenome	101	Y
F105866	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI26255J51710_1000663	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales	13100
JGI26255J51710_1001638	All Organisms → cellular organisms → Bacteria	7773
JGI26255J51710_1003344	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Thiotrichales → Piscirickettsiaceae → Methylophaga → Methylophaga aminisulfidivorans	4957
JGI26255J51710_1004514	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → Candidatus Pelagibacter ubique	4109
JGI26255J51710_1006955	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → Candidatus Pelagibacter ubique	3094
JGI26255J51710_1009582	All Organisms → cellular organisms → Bacteria → Proteobacteria	2480
JGI26255J51710_1009737	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → Candidatus Pelagibacter ubique	2456
JGI26255J51710_1011478	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	2197
JGI26255J51710_1011541	Not Available	2189
JGI26255J51710_1011696	All Organisms → cellular organisms → Bacteria	2168
JGI26255J51710_1014473	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus	1855
JGI26255J51710_1014699	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium	1832
JGI26255J51710_1015823	Not Available	1730
JGI26255J51710_1017762	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus	1579
JGI26255J51710_1018990	Not Available	1497
JGI26255J51710_1019082	Not Available	1491
JGI26255J51710_1026854	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → unclassified Nitrosopumilus → Candidatus Nitrosopumilus sp. SW	1151
JGI26255J51710_1028660	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae	1095
JGI26255J51710_1035421	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae → unclassified Methylococcaceae → Methylococcaceae bacterium	935
JGI26255J51710_1040193	All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon	856
JGI26255J51710_1049896	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Porticoccaceae → Porticoccus → unclassified Porticoccus → Porticoccus sp.	737
JGI26255J51710_1051107	All Organisms → Viruses → environmental samples → uncultured marine virus	725
JGI26255J51710_1052813	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium	710
JGI26255J51710_1059821	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae	654
JGI26255J51710_1062682	Not Available	634
JGI26255J51710_1065569	All Organisms → Viruses → environmental samples → uncultured marine virus	616
JGI26255J51710_1070623	Not Available	587
JGI26255J51710_1071574	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → Candidatus Pseudothioglobus → Candidatus Pseudothioglobus singularis → Candidatus Pseudothioglobus singularis PS1	582
JGI26255J51710_1076229	Not Available	559
JGI26255J51710_1076476	Not Available	558
JGI26255J51710_1079882	Not Available	543
JGI26255J51710_1086872	Not Available	515
JGI26255J51710_1089425	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	506

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI26255J51710_1000663	JGI26255J51710_100066310	F016736	VLTLFSIGVYLIDQLGPTYKQLQTGVREKEKAETKGESDT
JGI26255J51710_1001638	JGI26255J51710_10016382	F077377	MKTLENFACFEQFKKTIQGMRATRKEFEDGQQDEVLTNQRDGRVYKKLKWTALHTSKCIQEAVFLLKEEEPSLSKEQLKKMLQAESVSIWFPYGVRKVEKALSVNGSAFHQRGWDRLGRGEPRFSGDSSTWPANHMAAVSLNSNCFKKE*
JGI26255J51710_1003344	JGI26255J51710_10033446	F004164	MAYLHTXRLIFFLLLPIYXQAEEDXKYSYEHDSIGDKYDAEGDITFXXHKDNGVVFEYAHVNINWKGGFFKSSITDDFIQKKPIQNGLVLYDIVEGNQIKGYSVFARHIQVKNYSVGFETKKITVDEGRHPDFSDYDWIFKFKVASMENLKMNDQSHQAIYTKLWGSRPTSTTNCKPTQPGMNFSNSTGEIYVESWFDLKDNKLLKQVFTKYGCVPSKRLISKETWILIN*
JGI26255J51710_1004514	JGI26255J51710_10045141	F068920	GSNFLKRTLKPLDCNKYAREAEERPFPNEETTPPVTKINRAMVLSYSD*
JGI26255J51710_1004813	JGI26255J51710_10048131	F094606	SSIPIDAKKVARSIQRKPFTIPESNDHSVLLISFENIIDNPAIPTIAPNNIGNLIGFLKKIKPLKTVNKVSVEKIRQTTPVVK*
JGI26255J51710_1005251	JGI26255J51710_10052513	F097392	MPDIMLLGVEKQVLSLEIDENPADNFPCMPSEGIDSEMRVLLYALLMGIFFDEAQSMEQLVLEYGPEGPWVFKLDFTITERLAEVEEDDIDGIALNWSQTGEMSALNMEASDLQEVLARFLFNLVHXCMLVRXEXVLSVFIYSE*
JGI26255J51710_1006955	JGI26255J51710_10069551	F092698	SIIGCCGFRKNIKFAVSLETKRSTLVSEASPTSAITAVRNKYV*
JGI26255J51710_1009582	JGI26255J51710_10095821	F102550	AKRSLCRYLMVETTAAHFSLRQQKSTLPNRPSPGQPITTNNKKLGSV*
JGI26255J51710_1009737	JGI26255J51710_10097374	F100059	MKNSFFPIIILFEKAVKEIQHGPKRKFVAKNYVRDNFFYGPKS*
JGI26255J51710_1011478	JGI26255J51710_10114784	F046643	GDTKLDRQGRTIYFIEYANQTDSKGNQIELWEPEDIFLARSPNYLKSVKYFLSILYYCCVYLVVAYIVLSVSVHFFDSISDDGLIETFKQILEGCGVGCRPMR*
JGI26255J51710_1011541	JGI26255J51710_10115413	F061863	MKIDTNLLIQTSIAACLVIFGVVTKNSFEQLGFPNHPIGKPLGMGMFIMGWIYXAYIFSINKPNKLAFILPSIGIVIAVMMMKQYMVKKQTPPMVFPVIFALSWIILGLNAGNHLSGNQKYLGLFASFLVLLSMMQILPYQRTHNIVDGPGQPLFVIAWGILIMLNSNR*
JGI26255J51710_1011696	JGI26255J51710_10116963	F086145	MRRIACKGCAGYLGGIFYTQAASRGYLKLLVFFLIWQKKTTVSLKISIIVRV*
JGI26255J51710_1014473	JGI26255J51710_10144734	F099485	MKQQIIRNWQHSPSKTQVAXTPVKAVSKSLQQSQTFTHEDLMGLSWMLSEEGD*
JGI26255J51710_1014699	JGI26255J51710_10146991	F034189	MTTNLAKWASNDGQITKSGLPNDRRAKFLPSVVGFAYDLLRYEYYLGNIGX
JGI26255J51710_1015823	JGI26255J51710_10158232	F073088	VFLNNTYYLKPEFQSTQKNVIENELNIFIGFKEIGTIVGVKIIKYRRIKEIHKI*
JGI26255J51710_1017762	JGI26255J51710_10177621	F015265	SSIMYPDHITKNPKLIEKNAIVNLNNVGLPVFLNPIYAIIPMASPTKKPTRLSIFSNKNSNYV*
JGI26255J51710_1018990	JGI26255J51710_10189901	F009761	KKNITPKPIVNEKPIKGKKYFLSGILNLQNGMRKIKSMNILKDPANMGGKDVFKASLFTGYELPKINIINKTKK*
JGI26255J51710_1019082	JGI26255J51710_10190824	F078539	MINFNFIYRLDFLVSMTAIRPFTDRENFIVASTIMVVSEKMKSISRETRQSILQFIREERYPAVTDQDWKEIANGIDSHKKNIFGLMVKAFNESSEAPETFAGKSMANLDSSVKDDIESINFDELKEIVDESEDPKLREYYLTMKQLLRDYKDEKENN*
JGI26255J51710_1026854	JGI26255J51710_10268542	F013764	PMSMSTPSFFFFRTNSKKSKSSGLPPYTKRALIAVTVAIPMAFGLNIPLNTFGAFVPVWGLIMINAIVIPSYMTFIIPRASKVFASWLNSTTVKGVN*
JGI26255J51710_1028660	JGI26255J51710_10286601	F016995	MFPKSINIESLKREKRILKRLNLKELPFEVSLDEFCGKYIEMISDLKESFIFGSEKPGMQWCLSTIKRFKVFLLIFEANELGFEVYKESISSKLPEYSYKTIAQIIDEGLEKGFFIKMPARIQKKHDLKIRNIRPSEDLTVEFIXSNIXMISSFMKFLGKHK*
JGI26255J51710_1035421	JGI26255J51710_10354211	F058538	MGEGKVYSQYETTVMNRRRLHHLLSWVNHELHLDYEVIQENRDVFYVIFHDLDILKTVAIQKHLKRSLHTTN*
JGI26255J51710_1040193	JGI26255J51710_10401931	F029342	MNDPLPGFPTHGFDSPHKITDSIEIIPSPEPDTHIISYGPQDVSSRIIGSIIYVVFASIFSGVPLYFGIRGWSKLFERPFEEAGMVIAGALLIGVGLLLYFVREILWILFGSTFFTASKQGLEIKKRFLWFSTKKFIEHHEMKCFLTHVKRTSHSEGGGSSKWYTLWVVGKKKYKLDSKTPSRESIVWLSETLSEWFGV
JGI26255J51710_1049896	JGI26255J51710_10498961	F025596	MSKYTNTLVNLSYLFGIAILILGLVDRKMRLMDVSDAQWVILSSVLGIFFPILLNALFFKKFS
JGI26255J51710_1051107	JGI26255J51710_10511071	F087024	GLKKDPKTKSSIFSPRFLEEAGKARSYEREYLGVWGKNVGDIFSPEGIELCCAEQYTWTANDDSNDRVIGIDPGFGSSEFGICIMQKRKGKKSVIHAEAFERASYIDIINKVKNLSMKFKTKRCFVDGSWPEGIRDLRDKEHMNVQSINFNQYGEKMLNYAANSIDFQQVEIHPIFKKLKMQLMTIKFNSKGGTNKTTQNPFDLGDAFLLALYYYKMGSGTLAGVG*
JGI26255J51710_1052813	JGI26255J51710_10528131	F066454	MSIRLDVLILINSGVTDRSEIMEKLGINIMSVSNCFRFLIKEGWVEYSREPVSAVGSVGYRITQVGIDKIKALTVDDYRKSPQRKIPAYEVMRSHLGVGGDVTRSELVNLWNELTDYYLPYEGDKDFTEIV
JGI26255J51710_1059821	JGI26255J51710_10598211	F015265	LSMLPDFIRKSSIMYPDHXTKNPKLIETNAIVNLNNVGLPVFLNPIYAIIPMTSPTKNPTRLSMFSNKNSNGV*
JGI26255J51710_1062682	JGI26255J51710_10626821	F091007	MAKVFNTKKADYNGMQLWLNPVDKTVYATEGAPTHSFAEANGYAIYDFSKHFTNQKNAKDDFGNGAYSHDAFVDSEFKSLAEDYVSDVKAGGRQRQAALRSNTNAAVDIVNVWETVLGKQDRTYAGKNLAKEIAVPNLLISIDTATKFSGMTQLDEGQLGQLKELSYTRSNFEA
JGI26255J51710_1065569	JGI26255J51710_10655691	F019751	AASQALPSGAWYARSSRGTMTRTRGPELSKEFHDYIFNQWMFFSENAYGIAQKINKDTSLMSQFGKTTPAGVHYHIKQIEKEMEDNISEDAMDTYIGEFMRARTGFENDVTDIQILMSHEKEKGLEDMDKDLYLRLARFRHEIKLDSFKMLQDSALPLQVKKLKLEREKLRPAKAIPGVINNERSGE*
JGI26255J51710_1070623	JGI26255J51710_10706232	F031925	MRLNLEINRIQTRNLFFLIQYPKLNRNFVILIMTDQKTDETTLQFVAAFLKSQKGKYDDTHKHLDKILGSHGNQNEELVWFFKACMFQKRGKIEQSNDCLKIALMSFDYPPNITSPTMEF
JGI26255J51710_1071574	JGI26255J51710_10715741	F030561	AKPIDFIIGSMTIKAKRFLKKTTSRICKLSDAFLIKITMIEKRTIEEIFKMIALV*
JGI26255J51710_1076229	JGI26255J51710_10762292	F036977	MSLDLTKQRLQSAKYRINTYIDQNIMNWAMETILLPARTDLENSINNRAAEALRLEKTGFMKVDLVWDLRSEEGAPLHFYLEYGTGPHIIRAKGKEHGGADALHWTGPSGESRFAKVVQHPGSQKHVGLVDGIKEERLP
JGI26255J51710_1076476	JGI26255J51710_10764761	F007004	MKNVMLGFCLIVLIGCGTSNAYQKPSVRIVGEAQMTKLPNGNYEVTPRWIKDRFNAENSM
JGI26255J51710_1079882	JGI26255J51710_10798821	F059474	QNNSDIEAYKDSHDIKHLSFIEGEQPTVFHIGTISFMKFAEIKDKHISFDLGGEGQEIKTNLFGLTADALRYSLKKADNLPFKIKIERNRLSDTTMDKLARLGIVEELGNVALNVNGFGDEEEKK*
JGI26255J51710_1086872	JGI26255J51710_10868722	F105866	MATGTTTIPYVRKDETFKTWRERTNIMIQQQNNFVRMQEFEMLGVSDPYVTTSMQLNYTS
JGI26255J51710_1089425	JGI26255J51710_10894251	F092725	LHDISEHKQGLLDDGDYRLYFEGAEGPIEEEEEEEQGYLCDLPLNVRNGHFNIEEFEQILDEIMTFEGAIEDTYYIEELIDNGRTYTEDGETFKVLDCSHNN*