3300013958: Human gut microbial communities from patients with symptomatic atherosclerosis - Chalmers University of Technology - 641

Overview

Basic Information

• IMG/M Taxon OID: 3300013958
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118643 | Gp0137854 | Ga0117815
• Sample Name: Human gut microbial communities from patients with symptomatic atherosclerosis - Chalmers University of Technology - 641
• Sequencing Status: Permanent Draft
• Sequencing Center: Chalmers University of Technology
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 200259496
• Sequencing Scaffolds: 13
• Novel Protein Genes: 31
• Associated Families: 31

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	2
Not Available	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → unclassified Oscillospiraceae → Oscillospiraceae bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Lactobacillales → Carnobacteriaceae → Trichococcus → Trichococcus palustris	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → unclassified Subdoligranulum → Subdoligranulum sp. APC924/74	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Human Gut Microbial Communities From Patients With Symptomatic Atherosclerosis - Chalmers University Of Technology
• Type: Host-Associated
• Taxonomy: Host-Associated → Human → Digestive System → Unclassified → Unclassified → Human Gut → Human Gut Microbial Communities From Patients With Symptomatic Atherosclerosis - Chalmers University Of Technology

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Host-associated → Animal → Animal distal gut

Location Information

• Coordinates
  • Lat. (^o): N/A
  • Long. (^o): N/A
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F029444	Metagenome	188	Y
F032312	Metagenome / Metatranscriptome	180	N
F042095	Metagenome	159	N
F042936	Metagenome	157	N
F044555	Metagenome / Metatranscriptome	154	N
F047126	Metagenome	150	N
F050794	Metagenome	145	N
F055715	Metagenome	138	N
F057001	Metagenome	137	Y
F060985	Metagenome / Metatranscriptome	132	N
F064725	Metagenome	128	N
F075481	Metagenome	119	N
F076653	Metagenome	118	N
F077313	Metagenome	117	N
F078005	Metagenome	117	N
F078006	Metagenome	117	N
F078822	Metagenome	116	N
F080673	Metagenome	115	N
F083451	Metagenome	113	N
F083452	Metagenome	113	N
F087334	Metagenome	110	N
F087336	Metagenome	110	N
F089005	Metagenome	109	N
F089590	Metagenome	109	N
F089591	Metagenome	109	N
F089592	Metagenome	109	N
F092228	Metagenome	107	N
F101355	Metagenome	102	N
F102167	Metagenome	102	N
F105375	Metagenome	100	N
F106193	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0117815_1000077	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium	108999
Ga0117815_1000150	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	83045
Ga0117815_1000210	Not Available	68644
Ga0117815_1000512	Not Available	39226
Ga0117815_1011028	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	2474
Ga0117815_1013012	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	2107
Ga0117815_1016258	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1699
Ga0117815_1029042	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus	985
Ga0117815_1031629	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	915
Ga0117815_1037449	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → unclassified Oscillospiraceae → Oscillospiraceae bacterium	787
Ga0117815_1043771	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Lactobacillales → Carnobacteriaceae → Trichococcus → Trichococcus palustris	690
Ga0117815_1049840	Not Available	619
Ga0117815_1057425	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → unclassified Subdoligranulum → Subdoligranulum sp. APC924/74	550

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0117815_1000077	Ga0117815_1000077104	F083452	MSGRIKIKPKNKDKKPKIDVFKVIENRFKNMNELRDLIDMDPRKGLVRIRDGAGFREVERGGCLHRNYLNLLEEELGAKLSIDLIDKYVKRK*
Ga0117815_1000077	Ga0117815_1000077107	F102167	MDINQIKKYLPAGWDVVDLIDHGIIDLDIMNGKMMDEYVAVLMIKSYDKINGHILTTFSFHDKDMGGLRRLVSNAITAVGLRNNPLTGDGNTAIK*
Ga0117815_1000077	Ga0117815_1000077135	F089592	MKDILKSKEVLVEVNGFNIMSDTLYEVVGKHDGSAPQAFQDANIAKAPFPENATHVCCPWDDFSEVYNTGFYPRSRCYNGMDKDEVDKLVDQRVNNIMKPFENISQKDLSQTNFEFWDDAKDKIYMGKVYNTANIVELFYLYLAVFSGMLTPQEMDGDPIFMNSMFCFIEKDNAKDFVQQREINKMNISYKFINALKKGGKERQAVIDLLLYIGIVTRPDFTEDDYYTGSLSNWMNEKKTNIDYLLDIWDRSLEGDFKEVLEFYRIVNVLQRNGRINMTPSGLQYNGQIIGPDTRTSAEFLATKKDLISVKANVLDEYEELMSISNIDDKTKTKKVKDVKKKEDVDEGDKVNTEE*
Ga0117815_1000077	Ga0117815_1000077136	F089591	MTMTIQEAYLRSLQKNEQNLANGGIKLDPGRFVLLFNEAQDRLIRYYLNRKDDETIRSIQTLLVYWKSLNKINHIDDPESTSFGLPDDYLWFSNIKGSFSYNGCEVGDFVMWEAKNENVHELLGDDNNKPSFDYRETFYTIGDGKVVVYEDGFRTDEVRMTYYRNPVRVDLAGYINAAGERSTDIDPELPDPLVEEILDMVAKQFNLNENELSRYRMDKDNVASFK*
Ga0117815_1000077	Ga0117815_1000077143	F042095	MAKTLYKYEASSNKFVWFTTWDRALRNYYTDDYNYVPDPVVGNPYNTFVEFRSGKPGMANVDWGDGIKEQFPMTKVQGEDNYRIIFRSLAIQHKKNPNTTWWFRKEDGSQYVPIDNHAYADGRRDVQRAVSIDFTCDIYYVNIQVCKMTSFPIVDIPGLEFLVVSHTMYVNDGIPVDKLSRSKKLIYIDLQNIGQRMTVIPEAITSKTEVYYLNMFNMLDLRDIESSGVRNIKNMKNLQTLELSSCYLDRYIKEFNDLPKLTSLRIHPGPSDMWNYFDINTIPFFEVDKINPNINNFDFLNDWVSGERRTGWNDDNMSGRGLDHLTGFFVYHSNSIRVDKLPDYIYEMRSITWFVMDYSTHSQKRSDDFVNSFYDLVVGWDQITMASVAKDGERNQFYGLAVSMYGSQYPDENQRPSGTEQAPEGFVKGSSNGSPATPMEKIYVLKNNYAQRWVIKPE*
Ga0117815_1000077	Ga0117815_1000077146	F089590	MKDKDMIERVGALWNIALAYGASCWAYFQPVHHLLIVLLIVLIANFLARLAQSIRGWKLRRSRRRRFSFKRWFREVRFTDILKEFALSCFIVMTLCVIYKTLYPIEEEASMILTVTKYGVYIALVGYVMLFLNTIGDAFSDAYLVKVFKAVFKKINVFKMFSFSKNISDETFDDIRRIADDEVKDKS*
Ga0117815_1000077	Ga0117815_1000077147	F075481	MRLRISLRAVFCLGLSLFLSSCGSRRQVSDTSIDSRLISRIETMINEVIDRKMVEIKTSDLNADIVITERKFDTDKDIDPATGERPVSSVTDAHIVIGRRDSTVTTDSLGVDKTITGIEDIDKKTDIKHKDIDDKEESRWPMAIIFMSILGILVVLFVLLKRFGLIK*
Ga0117815_1000077	Ga0117815_1000077151	F106193	MGCNTCKEKALKAERERIERSMMNRPSSTVVSDREYVSRSTAGCMVMLDPLQTMERDVVSIYKQVRTKGDGVGVSYLNMQKKIREWIKNLPYGCPPDEEVQEMRKEILDGRAEHIKP*
Ga0117815_1000077	Ga0117815_100007729	F076653	MTIRDKYFGWKDIFFSRFVHCCNEKSDQPQGSNIPLAKINFDNKTGYVEDGTINIAELLQYLWINNKVYRCEYAPIDISSVLQTLIRLTENAKFIFDDQPGIHDMIPYRGFFLRDDFLPGKDYSLDLDKIVSGMGGWYGEDEDPCYSMFVSQDQIWNLNPILKVLADEGSILAKELGYDMNSYVSDNGYTIYNPYLSWINHYYHYCPTFNEDKLKPWDRVEDRKNKFKMTDKVKRGANNWYYSGGTISCVDNFLGKEYRKNLRTFIYRGIVFFLDRIWHTPLFEKMGVKMKYNAYYCYAATSGIWYDKGFKKRLAKRFNKSLGGDGELFGANLACMVCDRKDIDWESLRLWLDKYDDPTDKGMVNSPIQFMYLYLYYTFNK*
Ga0117815_1000077	Ga0117815_100007739	F083451	MVKSEKEKQILDLLMSRKDIRKLVEKSNECYSKMDFVGAMKCRQEIKDIVDRESKIMLTKSESLVSLMNNADNEYKFNMLVWLHSMMCMADVFNGILEDFKDGVRKANGNSKFVKFDNLDRLMTECKKEIDYLMKGTSKSFQISFAVRSDELREMIENMVGNNIREGYDIFKEEAKMTKETDRSKIEEFNKRLDHE*
Ga0117815_1000077	Ga0117815_100007757	F078005	MKKSEFVKELEKIIDMVKIEDDGFEYGGKVIFYKKDDDNYEITVKNIEMDLMVEASAMASMDDRTFDCLMSEVYKQKFTKTITMPEDEDDEDN*
Ga0117815_1000077	Ga0117815_100007786	F078006	MEDNILKRAAAELKEAGCRVFAWQDDTYNRGWSKGDYIMLYYAFPDSPNIGYLSHGEYGMSVAYSRAYIPSRGSGSGCGIKEEATFDLATALDVLNELLPRWCKSYGVYPEQYKDIDRWYNSDNYNKKIFKEI*
Ga0117815_1000077	Ga0117815_100007791	F080673	MDEIMKLQDEALLYLRDNITREEAYYILTTENEMTEVLIAKKEDGGKRVKILDMEYTIEKDDMLLLFDTDGIIDECLLTYSHIGINMYFRRQDIRDILSKKLEVMEYRYIKIQVDNIPVVEKRRVILDLTGHRVDRNDRDKIDFMFIYYMARLCE*
Ga0117815_1000077	Ga0117815_100007797	F057001	MTSKEINKVQNEVKKASEKTLTGAVKAWCNLFKSGKEINDILKENDIKADKSIVPALVNLAKDKEIVIQLCKEILPRVNNTFCSYKEVEREYYDKNDQDKNKKLKMNEIEDVAILGSCHKRFGYNEPIEFDFGIYYETFHGADKRIVKCAVPIKRYTFSLIAKCITYYLTHPRNDR*
Ga0117815_1000150	Ga0117815_100015070	F092228	MKKKCTLVLISVLTVACIVFAYLLFFYNPSFNMVYDSDTDSYFNNSYLSYNDGTLAAADYRKTKVTAYDSKNNSTVKLPSNGCLINDNLFYINGNKLCCLDTTTNTRKIIDTDCRSFVCNNEVIAYTKNDSVILKDSDTLENIGDIKFDNQIYYINISDGNLYIAERIFEDKTDEYGYSFKVGKQYIFKKYDLKSCKLLKSKNANYVNGIRYVTVCKDTFYFFCDETQTVNNVCLDKDVNYPTIQHPDVKFITSNNDCVYYISEKTESAIIRKTVESPYNGIWKLEVGSNKPAKIAGKCDCDELLATKNFLYCYTINYILPRGLANSWVKGYLIDQLAIS*
Ga0117815_1000210	Ga0117815_100021052	F105375	MKNNETFQTTQHLDKLVTNLGLQIQELFSLDLEEILNYSNNLMNLLVNAYVENQCLALSAMISKQDGFAIYSFLFQTSDTSNGTADALVNFAMNFTDGEANIKSINRISSNILQITFTI*
Ga0117815_1000210	Ga0117815_100021057	F044555	MKTTNPSSRITINQNGNQILTCKVYKEPIAILHMSNEEILEFISGLDYMGNLPTVPDLVSPIEIQVSTTRQIPLEQNKEVQTKIKEIIYNNLYDTLVEELKDTISRFQAQYNIQEINPYLQDILQNPEDLVSLSQHYKR*
Ga0117815_1000210	Ga0117815_100021063	F060985	MSNIDEKAKNNFIIEMRIFENYEKVKHEIIKVIDFLRHAETNLGMCKIFDNQNHEFWHSVIKPWFQPERFGITHLWLWFSSGFSHIGYGEYHIIRGDRWLKTPIDKIDREDRRFGYWFPPYKKYIPHRIKVLKLALKDLERIKEEYGKD*
Ga0117815_1000210	Ga0117815_100021064	F032312	MPKIKDYDEDLSAPKLLRERARDSKGRFIKKDLPPYLGAEQVLKPKNYYHFDSHGNHKGSSMNFDALVCLGFTWFKLLGVALMMLLWPIVFIYALHDGIEGYSFKKYAIPYIFILVAWFIIFLYGLVS*
Ga0117815_1000512	Ga0117815_100051211	F077313	MGKYVIKRKIPKYQEAGEVTPIMPGNVVGLQGIGVEPLVSSTQIGFDIQQPDINTIDTSDLSALVDSNKKVDKSGSTDVFDFTTIPYYGADDIGSRLTQMGRGIGRMRSEGYGYLSTGAKTANTITTIASGISGIMGLARNVVSGIASEKGTRTNIRLAQEREARQRRQSQMQYKDGGGVYLGPNNRFDSGSLTGEYLYPLPKSMEDQANVEVEKGEYVTQPGEAPMEAMGQKHADGGTPVSLEQGTKVITDDTTIEPDFAKYIRDTYGIKATPKDTYATLMDRYKAKIGLKSAYDDQKKALEKLKKNDKIDDENTRRLNASVLSKAINDSNDTVNGLEGRFTDFANVIYKEQEDRKMKKDEDTYFAKGGEIDNIISRSMKEYGLTEEDIAEAKKELLKKVAGIRQKMEKGGSSLFDYLLTFRPVENKYNNKDNTFGYQRQGQDGSYGGINTDERLNYYKTFNPVAYDAYMRASEGTRARALQDVIYGQNKGWMGLATAENPIIANAEALRDYTTLVSFGGEDSQGNYPEDKKAAYHDRMRDNKFGQYSSSRPMIGLDVVTEEQHKALNDAGITHFSQLFSDKNKDVVNKILGEDMLKMQALRSMKGMEGLDFILDPHKVAPGPMDIGDVEEPDVKLDMPELIDPNTLPKTNTNAGKSNSGNGGRNIVGGGLDFPEVFRMTPGAVTTEGLERHYAPTVDPVLRSADQYMVETNRAFQSQLDQMGNVPDSQRGALSSNLQAIMSSNIGRYINEVEQGNVAQRAWADNVNARTWADTYDKNIAQRQAYQQRILQGLAINDENWARYFDSVNDEIQQKWNTATTMNTLRSIFGDVKIGPNGQLIADPQGDILSYRRLYPAQEVTKGKKG*
Ga0117815_1000512	Ga0117815_100051221	F064725	MTIKGLLAEIKADLHKYDDSGAIDTSSVYRWAEIALKRFGGVIAVMSEAVVKTSNKQAVLPSDFFDMLDAYRCEPLVCEIPGGDKAKADLQHEIGWVERTERGFRWNSCTECCKEEFEKTITEKIYIGSHEVRFHYHHPVRLSIGRGLRRDCAADKYRDKYDWDNYDITISGNTMYTGFDGFVYIIYRATPKDDDGLPYIPETALGYLEDYVETYIKMKIFENAAVNGLIQGAGDAYKLYAQQEPGKFARAMKELKMSMITLNDYRELAEDNRRRMLSYERMWPNAFDKYIKLV*
Ga0117815_1000512	Ga0117815_10005128	F050794	MTEFNKRLSDKVGIKCTMDVLLPTDDDNANIIIEHNGIIKKLMKEAEKLELDTDAIKAMMRDLLDELKDDIDLNILIFDVTQLLIKYNLFRLDAITEREFKDSFVRMDSRNMEIKKLTLSDIKKVVMMMEIRYNRFVW*
Ga0117815_1011028	Ga0117815_10110283	F101355	MIEPPFQHGIADMAFGFIQWYLPSAQPPQPKGAGAVFPYVLPRCSYFFKIFVTEMSIFICMHKCLAQTGRLRGSSCYIVVAAKRACACTLLWISDHFYKKLLPYVLFFFFKIYLKKIDFFQNIA*
Ga0117815_1013012	Ga0117815_10130121	F029444	MEVSEQLTVFELEDLMSWTVSALRRPFREDFSLQKSGIIAEKESQILGRRFVGFDS*
Ga0117815_1016258	Ga0117815_10162582	F047126	MTNILQTQAGFKSKSLGSLCGFQGSLTQNPAALVETDDIFDVSDTPYGFSGLNTLRAAGVPNPPPPFAQRFIACFCSQTAAASQSKSAHILSPLESPCILCSLLRYFHILSKKLQKTC*
Ga0117815_1029042	Ga0117815_10290421	F089005	LTKSKQCSIIALALLRLATSNEESKQALKVRRTLKIEQRENSKETRNDFEESSKNYSEMYTKKHQELRI*
Ga0117815_1031629	Ga0117815_10316292	F087336	MHCLLRGMVAELEQVPKAFRAAGNQRRAAAKERIKDDAIGHGRVSDRILAEIEDNHMRERDTKIGLAEQRQVAFLGIAFQILPLKSKQKKSTLRGKLSKCSFRKQTAN*
Ga0117815_1037449	Ga0117815_10374492	F078822	FVKHFFDIFLSLPNAFLKAFHPHAVRFPAAFLLVYRFYLAFEELLSCATAYL*
Ga0117815_1043771	Ga0117815_10437712	F055715	NEFDKINELLIERTAKKFERASKNKLKKFLTNEKFCDKINELIRVGTAKILDN*
Ga0117815_1049840	Ga0117815_10498402	F042936	MGRGGGKGRVWKTKEGIMKTSGIVDRGEDTIRNFEKMEQEGALTPPYLGKVYFRSRLRGKG*
Ga0117815_1057425	Ga0117815_10574252	F087334	MASRYPFVGAAAHLFPKNAIKMLSFSTSGKGSILLYSFRSSPLLAITFLYHPKDFFLYRAAALFEYREKHQ*