3300013556: Assembled human viral communities from clinical and cell-culture passaged samples from San Francisco, USA - NIBSC_BSRI

Overview

Basic Information

• IMG/M Taxon OID: 3300013556
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118571 | Gp0137191 | Ga0119859
• Sample Name: Assembled human viral communities from clinical and cell-culture passaged samples from San Francisco, USA - NIBSC_BSRI
• Sequencing Status: Permanent Draft
• Sequencing Center: Blood Systems Research Institute (BSRI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 1121952
• Sequencing Scaffolds: 12
• Novel Protein Genes: 19
• Associated Families: 19

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	5
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium	3
All Organisms → cellular organisms → Bacteria	1
All Organisms → Viruses → Predicted Viral	2

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Assembled Human Viral Communities From Clinical And Cell-Culture Passaged Samples From San Francisco, Usa
• Type: Engineered
• Taxonomy: Engineered → Lab Synthesis → Unclassified → Unclassified → Unclassified → Assembled Human → Assembled Human Viral Communities From Clinical And Cell-Culture Passaged Samples From San Francisco, Usa

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: San Francisco
• Coordinates
  • Lat. (^o): 37.77
  • Long. (^o): -122.44
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F042095	Metagenome	159	N
F050794	Metagenome	145	N
F057001	Metagenome	137	Y
F058555	Metagenome	135	N
F064725	Metagenome	128	N
F075481	Metagenome	119	N
F076653	Metagenome	118	N
F077313	Metagenome	117	N
F078006	Metagenome	117	N
F080673	Metagenome	115	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0119859_10001	Not Available	16335
Ga0119859_10003	Not Available	13292
Ga0119859_10005	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	11448
Ga0119859_10007	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium	10665
Ga0119859_10008	Not Available	9283
Ga0119859_10009	Not Available	7954
Ga0119859_10013	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium	7279
Ga0119859_10015	All Organisms → cellular organisms → Bacteria	4857
Ga0119859_10021	All Organisms → Viruses → Predicted Viral	3354
Ga0119859_10104	All Organisms → Viruses → Predicted Viral	1285

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0119859_10001	Ga0119859_100015	F050794	MMLYTSNYFVNVRQKQLLDHTYALSRDQAFDYMTEFNKRLSDKVGIKCTMDVLLPTDDDNANIIIEHNGIIKKLMKEAEKLELDTDAIKAMMRDLLDELKDDIDLNILIFDVSQLLIKYNLFRLEAITEQEFKNSFVRMDSRNMEIKKLTLSDIKKVVMMMEDRYDYALYMTEEYN*
Ga0119859_10001	Ga0119859_100018	F077313	MRSEGYGDLSTGAKTANTITTIASGISGIMGLARNVVSGIASEKGTRTNIRLAQEREARQRRQSQMQYKDGGGVYLGPNNRFDSGSLTGEYLYPLPKSMEDQANVEVEKGEYVEQPGEAPMEAMGQKHADGGTPVSLEEGTKVITDDTTIEPDFAKYIRDTYGIKATPKDTYATLMDRYKAKIGLKSAYDDQKKALEKLKKNDKIDDENTRRLNASVLSKAINDSNDTVNGLEGRFTDFANVIYKEQEDRKMKKDEDTYFAKGGEIDNIISRSMKEYGLTEEDIADAKKELLKKVAGIRQKMEIGGTSLFGRKLTFRPIENRFNNDPNYFGYQRQGTDGSYGGINTDERLNYYKTFNPVAYDAYMGASEGTRARALQDAIYGQTSSWMGLATAENPIIANAEALRDYTTLVSFGGEDSQGNYPEDKKAAYHDRMRDNKFGQYSSSRPMIGLDVVTEEQHKALNDAGITHFSQLFSDKNKDVVNKILGEDMLKMQALRSMKGMEGLDFILDPHKVVPGPMDIGDVEEPDVKLDMPELIDPNTLPKTNTNAGKSNSGNGGRNIVGGGLDFPEVFRMTPGAVTTEGLERHYAPTVDPVLRSADQYMVETNRAFQSQLDQMGNVPDSQRGALSSNLQAIMSSNIGRYINEVEQGNVAQRAWADNVNARTWADTYDKNIAQRQAYQQRILQGLAINDENWARYFDSVNDEIQQKWNTATTMNTLRSIFGDVKIGPNGQLIADPQGDILSYRRLYPAQEVTKGKKG*
Ga0119859_10003	Ga0119859_100032	F064725	MTIKGLLAEIKADLHKYDDSGAIDTSSVYRWAEIALKRFGGVIAVMSEAVVKTSNKQAVLPSDFFDMLDAYRCEPLVCEIPGGDKAKADLQHEIGWVERTERGFRWNSCTECCKEEFEKTITERIYIGSHEVRFHYHHPVRLSIGRGLRRDCAADKYRDKYDWDNYDITISGNTMYTGFEGFIYIIYRATPKDDDGLPYIPETALGYLEDYVETYIKMKIFENAAVNGLIQGAGDAYKLYAQQEPGKFARAMKELKMSMITLNDYRELAEDNRRRMLSYERMWPNAFDKYIKMV*
Ga0119859_10005	Ga0119859_100055	F042095	MAKTLYKYEASSNKFVWFTTWDRALRNYYTDDYNYVPDPVVDNPFNTYVEFRSRKPGMANVDWGDGIKEQFPMTKVQGGDGYCIIFRSLAIKHRKNPNTTWWFRKEDGSQYVPIDNHAYADGRRDVQRAVSIDFTCDIYYANIQVCKMTSFPIVDIPGLEFLIVSHTLYVNDGIPVDKLSRSKKLIYIDLQNIGQRMTVIPEAITSKTDVYYLNMFNMLDLRDIESSGIRNIKNMKKLNTLNLSSCYLDRYIKEFNDLPELRELKISPGPTDMWNYFDLNTVPSFEVDKINPTITTFSFLEDWMASERRTGWNDDNMSGRGLEYITGFSAFSSNSLNMDKLPDYIYEMRSITWFDVNASTHSQKRSDDFVNSFYDLVVGWDQITMASVAKDGERNQFYGLAVLMYSSLYPDENQRPSGTEQAPEGFVKGSSNGSPATPMEKIYVLKNNYAQRWTIKPA*
Ga0119859_10005	Ga0119859_100057	F089590	MKDKDMIERVGALWNIALAYGASCWAYFQPVHHLLIVLLIVLIANFLARLAQSIRGWKLRRSRRRRFSFKRWFREVRFTDILKEFALSCFIVMTLCVIYKTLYPIEEEASMILTVTKYGVYIALVGYVMLFLDTIGDAFADAYLVKVFKAVFNRINVFKIFGFSKNIPDETFDDIKKIADDEVKDKS*
Ga0119859_10005	Ga0119859_100058	F075481	MRLRISLRAVFCLGLSLFLSSCGSRRQVSDTSIDSRLISRIETMIDEVMDRRIVEIKTSDLNADIVITERKFDTGKDVDPATGERPVSSVTDAHIVIGRRDSTVTTDSLGVDKTITGIEDIDKKTDIKHKDIDDKEESRWPMAIIFMSILGILVVLFVLLKRLGLIK*
Ga0119859_10007	Ga0119859_1000714	F085718	MVIEFDFEIYKNGDYDKVYLRNGKEARVLCDNGKGDRPIVVMVEDDNADNYIILRYNETGRRNINSQSSLDLMLSVKEREPELWVVVISYMDNKDKRQKMVLPNFFSKNIRGNIYLQGSSKSNVSYYVGRLEEDGCFDELCEKIRVKRDRIYNMEIISLSDDKATV*
Ga0119859_10007	Ga0119859_1000716	F078006	MDNVLKRAAAELKEAGCRVFAWQDDTYNRSWSKGDYIMLYYAFPDSPNIGYLSRGEYGMSVAYSRAYIPSRGSGSGCRVKEEATFDLETALDVLNGPLPRWCRSYGVYPKQYDNIDKWYNSDNHNKKLFKEI*
Ga0119859_10007	Ga0119859_1000722	F080673	MNMNETELLRLQDEALSYLRDNITKDEAYYVLTTDKDMIEILIADKKDGSKRIKILDMEYTIEKDDMLLLFDTDGIIDECLLVASYIGVNMYFRRQDVNAILNNINREKVMEYPYIAIQLDNIRTIEKRRVIFEITGHRIDDNKEKIDFMFVYFMARTL*
Ga0119859_10008	Ga0119859_100086	F093883	MEDKDIKTEIRDYLKEEADTHIRHWIAIKRESKRLYSDIEDRTKKIALKSSSLIKEEDFVVLHEMTHKIQMLNIEAVKVNSRLMFIIQLATSFGMDLDLDTTYASTAKSIIEDRTSGFVFYDDKERLRYADKELEDMFHDMSVKEVSKIGVVQSYELLMKQYNDFKDMKANATGKTKADE
Ga0119859_10009	Ga0119859_1000911	F098313	MREMEFDFVIYPLKLIITVGLDYKTLCDRFENMEPEHEGKWGDEDDMDKEASFANLVRDRYDDDKFAILWNFSSDDDLIMRNICHESFHIAMSVCQFCNMSLGFKVGEDEHAAYIAGFAGHCVGEFINNKDMD*
Ga0119859_10013	Ga0119859_1001314	F083451	MNVNLINKINNFSNVDKNEREKQVLDLLMSRKDIRKLVEKSNECYSKMDFVGAMRYRQEIKDIVDRESKIMLTKSESLVSLMNNADNEYKFNMLVWLHSMMCMADVFNGILEDFKDGVRKANGNSKFVKFDNLDRLMTECKKEIDYLMKGTSKSFQISFAVRSDELREMIENMVGDNIREGYDIFKEEAEMVNETDRSKIEEFNKKLDHD*
Ga0119859_10013	Ga0119859_100135	F076653	MTIRDKYFGWKDIFFDRFVHCCNEKSDQPQGSNIPLAKINFDNKTGYVEDGTINIAELLQYLWINNKVYGCEYAPIDISSVLQTLIRLTENAKHMFEDQPGIYDMIPYRGFFLRDDFSSGKDYSLDLDKIVSGMGGWYGEDEDPCYSMFVSQDQIWNLNPILKVLADEGSILAKELGYDMNSYVSDNGYTIYNPYLSWINHYYHYCPTFNEDKLKPWDRVEDRKNKFKMTDKVKRGANNWYYSGGTISCVDSFLGKKYRKNLRTFIYRGIVLFLDRIWHTPLFEKMGVKMKYNAYYCYAATSGIWYSKGFKERLAKRFNRSLSGGGEPFGANLACMVCDRKDIDWEALRLWLDKYDDPTDKGMVNSPIQFMYLYLYYTFNK*
Ga0119859_10015	Ga0119859_100152	F102167	MDINQIKKYLPAGWDVVDLIDHGIIDLDIMNGKMMGEYVAVLMIESYDKTNGHILTTFSFHDKDMGGLRRLVSNAIMAVGLRNNPMTGDGNTAIK*
Ga0119859_10015	Ga0119859_100155	F083452	MSGRIKIKPKNKDKRPKIDVFKVIENRFKNMNELRDLIDMDPRKGLVRIRDGAGFREVERGGCLHRNYLNLLEEELGAKLSIDLIDKYIKRNI*
Ga0119859_10021	Ga0119859_100213	F089592	MKEILKSRKVLAEVNGFNIMSDTLYEVVGKHDGSAPQAFQDANIAKAPFPENATHVCCPWDDFSKAYNTGFYPRSRCYNGLDKNEIDRLVKQRVDNIMKPFEEMSQMDLSQTNLEFWDDAKDKIFMGKVYNTANTVDLFYLYLAVFSGMLTPQEMDGDPVFMNSMFCFVEKDNMKDFVQQREINKMNISYKFISALKKGGDDRQAVIDLLLYIGIVTRPDFTEDEYYTGSLSNWMNEKKTNVDYLLDIWDRSLEGDFKEVLEFYRIVNVLQRNGRINMTPSGLQYNGQIIGPDTRTSAEFLATKKDFINIKANVLDEYEEIISMSNIDDKSKTKKVKDIKKKDDVEEGDKVKEG*
Ga0119859_10104	Ga0119859_101041	F057001	MTGKDVNKVQNEVKKASEKTLTGAVKAWCQLFKSGKEVNEILKENEIKVDKSIVPALVNLAKDKEIVIQLCKEILPRVNNTFCAYKEVEREYYDKNDQDKNKKLKMNEIENVAILGSSHKRFGYNEPIEFDFGIYYETFNGADKRIVKCAVPIKRYTFSLIAKCITYYLTHPKNDR*
Ga0119859_10107	Ga0119859_101072	F106193	LNFKDIIMGCNTCKEKALKAERERIERSMMNHSSSTAVSDMEYASRSTAGCMVMQDPLQVMERDVVSIYRQVRTKGDGVGVSYLNMQKKIREWIKNLPYGCPPDEEVQEMRKEILDGRAEHIKP*
Ga0119859_10135	Ga0119859_101351	F058555	IAFDKILTERYTPRNIQAKKDELGCVKLPAGSLICPVDFKPVTNKEGKKVTAIKYSLKHEEYHGSGIQISDECKMAMIYLIIINVFKHVFLRNRMHGGNRDQIEINTNDFIDILSDGCAYFCYRHVLRDSHEDMNYQLISLKAWAEGEIMIALSDIIKYKHKASKTPRIKDMFVKKGESVYTCLDKNLDSNTRRWMANKSRKLNRVKMLSKIIFSARNRNINKIYKVTKKRTVKFNVSYLMDRLNIKLSKEGMMLISQRTVYRMIKEVLSMCCKTISDLYDEVKKNNGIVNTKDRKNVTIGHLRLSYRGKIMHIIIAEDFIKDVFLGVKVSEMSKAG*