{"id":"https://openalex.org/W4394554507","doi":"https://doi.org/10.6084/m9.figshare.1619897","title":"Figure 1/S1: Ribosomal protein alignment - Metagenomic Evidence for the Presence of Comammox Nitrospira-like bacteria in a Drinking Water System","display_name":"Figure 1/S1: Ribosomal protein alignment - Metagenomic Evidence for the Presence of Comammox Nitrospira-like bacteria in a Drinking Water System","publication_year":2015,"publication_date":"2015-01-01","ids":{"openalex":"https://openalex.org/W4394554507","doi":"https://doi.org/10.6084/m9.figshare.1619897","mag":"2290028236"},"language":"en","primary_location":{"id":"pmh:oai:figshare.com:article/1619897","doi":null,"is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Figure_1_S1_Ribosomal_protein_alignment_Metagenomic_Evidence_for_the_Presence_of_Comammox_Nitrospira_like_bacteria_in_a_Drinking_Water_System/1619897","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"},"volume":null,"type":"dataset","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://figshare.com/articles/dataset/Figure_1_S1_Ribosomal_protein_alignment_Metagenomic_Evidence_for_the_Presence_of_Comammox_Nitrospira_like_bacteria_in_a_Drinking_Water_System/1619897","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001255806","display_name":"Ameet J. Pinto","orcid":"https://orcid.org/0000-0003-1089-5664","observed_orcids":["https://orcid.org/0000-0003-1089-5664"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ameet Pinto","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082630963","display_name":"Daniel N. Marcus","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Marcus, Daniel","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080614714","display_name":"Umer Zeeshan Ijaz","orcid":"https://orcid.org/0000-0001-5780-8551","observed_orcids":["https://orcid.org/0000-0001-5780-8551"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Umer Ijaz","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015436261","display_name":"Q. Melina Bautista-de los Santos","orcid":"https://orcid.org/0000-0001-5273-4274","observed_orcids":["https://orcid.org/0000-0001-5273-4274"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Santos-Bautista, Quyen Melina De Los","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075036643","display_name":"Gregory J. Dick","orcid":"https://orcid.org/0000-0001-7666-6288","observed_orcids":["https://orcid.org/0000-0001-7666-6288"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Dick, Gregory J","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5019834116","display_name":"Lutgarde M. Raskin","orcid":"https://orcid.org/0000-0002-9625-4034","observed_orcids":["https://orcid.org/0000-0002-9625-4034"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Lutgarde Raskin","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10564","display_name":"Wastewater Treatment and Nitrogen Removal","score":0.49900001287460327,"subfield":{"id":"https://openalex.org/subfields/2310","display_name":"Pollution"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10564","display_name":"Wastewater Treatment and Nitrogen Removal","score":0.49900001287460327,"subfield":{"id":"https://openalex.org/subfields/2310","display_name":"Pollution"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.3986999988555908,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.07900000363588333,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/comammox-nitrospira","display_name":"comammox Nitrospira","score":0.8579999804496765},{"id":"https://openalex.org/keywords/nitrospira","display_name":"Nitrospira","score":0.7799999713897705},{"id":"https://openalex.org/keywords/ribosomal-proteins","display_name":"ribosomal proteins","score":0.8600000143051147},{"id":"https://openalex.org/keywords/drinking-water-systems","display_name":"drinking water systems","score":0.5799999833106995},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"phylogenetic tree","score":0.7390000224113464},{"id":"https://openalex.org/keywords/nitrifying-bacteria","display_name":"nitrifying bacteria","score":0.6660000085830688},{"id":"https://openalex.org/keywords/nitrite-oxidation","display_name":"nitrite oxidation","score":0.39399999380111694}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.8781419992446899},{"id":"https://openalex.org/C2781423102","wikidata":"https://www.wikidata.org/wiki/Q3024630","display_name":"Nitrospira","level":4,"score":0.8378987312316895},{"id":"https://openalex.org/C38062823","wikidata":"https://www.wikidata.org/wiki/Q3408228","display_name":"Ribosomal protein","level":5,"score":0.5868475437164307},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.5826628804206848},{"id":"https://openalex.org/C67905577","wikidata":"https://www.wikidata.org/wiki/Q215980","display_name":"Ribosomal RNA","level":3,"score":0.4192831218242645},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3751445412635803},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.34323230385780334},{"id":"https://openalex.org/C42062724","wikidata":"https://www.wikidata.org/wiki/Q1209205","display_name":"16S ribosomal RNA","level":3,"score":0.3432108163833618},{"id":"https://openalex.org/C89423630","wikidata":"https://www.wikidata.org/wiki/Q7193","display_name":"Microbiology","level":1,"score":0.3266312777996063},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.20398691296577454},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1270613968372345},{"id":"https://openalex.org/C88478588","wikidata":"https://www.wikidata.org/wiki/Q42244","display_name":"Ribosome","level":4,"score":0.1068759560585022},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.05100831389427185},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.04417678713798523}],"mesh":[],"locations_count":4,"locations":[{"id":"pmh:oai:figshare.com:article/1619897","doi":null,"is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Figure_1_S1_Ribosomal_protein_alignment_Metagenomic_Evidence_for_the_Presence_of_Comammox_Nitrospira_like_bacteria_in_a_Drinking_Water_System/1619897","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"},{"id":"doi:10.6084/m9.figshare.1619897","doi":"https://doi.org/10.6084/m9.figshare.1619897","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.1619897","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dataset"},{"id":"doi:10.6084/m9.figshare.1619897.v1","doi":"https://doi.org/10.6084/m9.figshare.1619897.v1","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.1619897.v1","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dataset"},{"id":"mag:2290028236","doi":null,"is_oa":false,"landing_page_url":"https://figshare.com/articles/Figure_1_S1_Ribosomal_protein_alignment_Metagenomic_Evidence_for_the_Presence_of_Comammox_Nitrospira_like_bacteria_in_a_Drinking_Water_System/1619897","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"pmh:oai:figshare.com:article/1619897","doi":null,"is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Figure_1_S1_Ribosomal_protein_alignment_Metagenomic_Evidence_for_the_Presence_of_Comammox_Nitrospira_like_bacteria_in_a_Drinking_Water_System/1619897","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W4394217821","https://openalex.org/W6976821654","https://openalex.org/W4394208392","https://openalex.org/W2131091257","https://openalex.org/W6911160296","https://openalex.org/W6948396124","https://openalex.org/W6948639526","https://openalex.org/W6967234671","https://openalex.org/W2591752912","https://openalex.org/W2091022532"],"abstract_inverted_index":{"Alignment":[0],"used":[1],"to":[2,12,70],"construct":[3],"RAxML":[4,81],"(1)":[5],"based":[6],"maximum":[7],"likelihood":[8],"phylogenetic":[9,122,170],"tree":[10,25],"corresponding":[11],"the":[13,20,27,44,60,65],"radial":[14],"cladogram":[15],"in":[16,19,26,127,168],"Figure":[17,30],"1A":[18],"main":[21],"manuscript":[22],"and":[23,64,89,124,146,190],"annotated":[24],"supplementary":[28],"material":[29],"S1.":[31],"16":[32],"syntetic":[33],"ribosomal":[34],"proteins":[35],"(2)":[36],"were":[37,68],"aligned":[38],"separately":[39],"with":[40,59,143],"correponding":[41],"sequence":[42,141],"from":[43],"Nitrospira":[45],"metagenome":[46],"bin":[47],"using":[48,57,74],"muscle":[49],"(3)":[50],".":[51],"Each":[52],"protein":[53],"alignment":[54,142,166],"was":[55],"trimmed":[56,66],"trimal":[58],"gappyout":[61],"flag":[62],"(4)":[63],"alingments":[67],"concantenated":[69],"create":[71],"a":[72,162],"superalignment":[73],"FasconCAT":[75],"(5).":[76],"1.":[77],"Stamatakis":[78],"A.":[79],"2014.":[80],"Version":[82],"8:":[83],"A":[84],"tool":[85,163],"for":[86,164],"Phylogenetic":[87],"Analysis":[88],"Post-Analysis":[90],"of":[91,185],"Large":[92],"Phylogenies.":[93],"Bioinformatics":[94,172],"30:":[95],"1312-1313.":[96],"doi:":[97,133,174],"10.1093/bioinformatics/btu033.":[98],"2.":[99],"Castelle":[100],"CJ,":[101],"Hug":[102],"LA,":[103],"Wrighton":[104],"KC,":[105],"Thomas":[106],"BC,":[107],"Williams":[108],"KH,":[109],"Wu":[110],"D,":[111],"Tringe":[112],"SG,":[113],"Singer":[114],"SW,":[115],"Eisen":[116],"JA,":[117],"Banfield":[118],"JF.":[119],"2013.":[120],"Extraordinary":[121],"diversity":[123],"metabolic":[125],"versatility":[126],"aquifer":[128],"sediment.":[129],"Nat":[130],"Commun":[131],"4.":[132,153],"10.1038/ncomms3120":[134],"3.":[135],"Edgar":[136],"RC.":[137],"2004.":[138],"MUSCLE:":[139],"multiple":[140],"high":[144,147],"accuracy":[145],"throughput.":[148],"Nucleic":[149],"Acids":[150],"Research":[151],"32:1792-1797":[152],"Capella-Guti\u00e9rrez":[154],"S,":[155],"Silla-Mart\u00ednez":[156],"JM,":[157],"Gabald\u00f3n":[158],"T.":[159],"2009.":[160],"trimAl:":[161],"automated":[165],"trimming":[167],"large-scale":[169],"analyses.":[171],"25:1972-1973.":[173],"10.1093/bioinformatics/btp348":[175],"5.":[176],"K\u00fcck":[177],"P,":[178],"Meusemann":[179],"K.":[180],"2010.":[181],"FASconCAT:":[182],"Convenient":[183],"handling":[184],"data":[186],"matrices.":[187],"Molecular":[188],"Phylogenetics":[189],"Evolution":[191],"56:1115-1118.":[192]},"counts_by_year":[],"updated_date":"2026-10-12T09:40:04.860316","created_date":"2024-04-08T00:00:00"}
