{"id":"https://openalex.org/W4283034397","doi":"https://doi.org/10.1093/database/baac041","title":"AcetoBase Version 2: a database update and re-analysis of formyltetrahydrofolate synthetase amplicon sequencing data from anaerobic digesters","display_name":"AcetoBase Version 2: a database update and re-analysis of formyltetrahydrofolate synthetase amplicon sequencing data from anaerobic digesters","publication_year":2022,"publication_date":"2022-01-01","ids":{"openalex":"https://openalex.org/W4283034397","doi":"https://doi.org/10.1093/database/baac041","pmid":"https://pubmed.ncbi.nlm.nih.gov/35708586"},"language":"en","primary_location":{"id":"doi:10.1093/database/baac041","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baac041","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baac041/44109158/baac041.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baac041/44109158/baac041.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5044155031","display_name":"Abhijeet Singh","orcid":"https://orcid.org/0000-0002-0807-6080"},"institutions":[{"id":"https://openalex.org/I298625061","display_name":"Swedish University of Agricultural Sciences","ror":"https://ror.org/02yy8x990","country_code":"SE","type":"education","lineage":["https://openalex.org/I298625061"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"Abhijeet Singh","raw_affiliation_strings":["Department of Molecular Sciences, BioCenter, Anaerobic Microbiology and Biotechnology Group, Swedish University of Agricultural Sciences , Almas All\u00e9 5, Uppsala SE-750 07, Sweden"],"affiliations":[{"raw_affiliation_string":"Department of Molecular Sciences, BioCenter, Anaerobic Microbiology and Biotechnology Group, Swedish University of Agricultural Sciences , Almas All\u00e9 5, Uppsala SE-750 07, Sweden","institution_ids":["https://openalex.org/I298625061"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054695770","display_name":"Anna Schn\u00fcrer","orcid":"https://orcid.org/0000-0003-0038-553X"},"institutions":[{"id":"https://openalex.org/I298625061","display_name":"Swedish University of Agricultural Sciences","ror":"https://ror.org/02yy8x990","country_code":"SE","type":"education","lineage":["https://openalex.org/I298625061"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"Anna Schn\u00fcrer","raw_affiliation_strings":["Department of Molecular Sciences, BioCenter, Anaerobic Microbiology and Biotechnology Group, Swedish University of Agricultural Sciences , Almas All\u00e9 5, Uppsala SE-750 07, Sweden"],"affiliations":[{"raw_affiliation_string":"Department of Molecular Sciences, BioCenter, Anaerobic Microbiology and Biotechnology Group, Swedish University of Agricultural Sciences , Almas All\u00e9 5, Uppsala SE-750 07, Sweden","institution_ids":["https://openalex.org/I298625061"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5044155031","https://openalex.org/A5054695770"],"corresponding_institution_ids":["https://openalex.org/I298625061"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1828,"currency":"EUR","value_usd":1971},"fwci":0.7811,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.68860945,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"2022","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9984999895095825,"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"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9984999895095825,"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":0.9968000054359436,"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"}},{"id":"https://openalex.org/T12640","display_name":"Environmental DNA in Biodiversity Studies","score":0.9775000214576721,"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/metagenomics","display_name":"Metagenomics","score":0.6944944858551025},{"id":"https://openalex.org/keywords/amplicon","display_name":"Amplicon","score":0.6388425230979919},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5419877171516418},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.5405704975128174},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5358893275260925},{"id":"https://openalex.org/keywords/amplicon-sequencing","display_name":"Amplicon sequencing","score":0.5007824897766113},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4812895357608795},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.37823882699012756},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2847665548324585},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.28070706129074097},{"id":"https://openalex.org/keywords/16s-ribosomal-rna","display_name":"16S ribosomal RNA","score":0.2536047697067261},{"id":"https://openalex.org/keywords/polymerase-chain-reaction","display_name":"Polymerase chain reaction","score":0.1409921646118164}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.6944944858551025},{"id":"https://openalex.org/C8185291","wikidata":"https://www.wikidata.org/wiki/Q2844457","display_name":"Amplicon","level":4,"score":0.6388425230979919},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5419877171516418},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.5405704975128174},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5358893275260925},{"id":"https://openalex.org/C2993206177","wikidata":"https://www.wikidata.org/wiki/Q2844457","display_name":"Amplicon sequencing","level":4,"score":0.5007824897766113},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4812895357608795},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.37823882699012756},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2847665548324585},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.28070706129074097},{"id":"https://openalex.org/C42062724","wikidata":"https://www.wikidata.org/wiki/Q1209205","display_name":"16S ribosomal RNA","level":3,"score":0.2536047697067261},{"id":"https://openalex.org/C49105822","wikidata":"https://www.wikidata.org/wiki/Q176996","display_name":"Polymerase chain reaction","level":3,"score":0.1409921646118164}],"mesh":[{"descriptor_ui":"D000693","descriptor_name":"Anaerobiosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000693","descriptor_name":"Anaerobiosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000693","descriptor_name":"Anaerobiosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005574","descriptor_name":"Formate-Tetrahydrofolate Ligase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D005574","descriptor_name":"Formate-Tetrahydrofolate Ligase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D005574","descriptor_name":"Formate-Tetrahydrofolate Ligase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/database/baac041","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baac041","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baac041/44109158/baac041.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:35708586","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35708586","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9216588","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9216588","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database (Oxford)","raw_type":"Text"},{"id":"pmh:oai:pub.epsilon.slu.se:29240","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306402317","display_name":"Epsilon Open Archive (Sveriges lantbruksuniversitet biblioteket (Swedish University of Agricultural Sciences))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I298625061","host_organization_name":"Swedish University of Agricultural Sciences","host_organization_lineage":["https://openalex.org/I298625061"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/database/baac041","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baac041","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baac041/44109158/baac041.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320322582","display_name":"Sveriges Lantbruksuniversitet","ror":"https://ror.org/02yy8x990"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4283034397.pdf","grobid_xml":"https://content.openalex.org/works/W4283034397.grobid-xml"},"referenced_works_count":54,"referenced_works":["https://openalex.org/W4611385","https://openalex.org/W4643690","https://openalex.org/W59822319","https://openalex.org/W181358207","https://openalex.org/W953970169","https://openalex.org/W1593992322","https://openalex.org/W1964804234","https://openalex.org/W1965975100","https://openalex.org/W1974616659","https://openalex.org/W2012003909","https://openalex.org/W2031611770","https://openalex.org/W2051248650","https://openalex.org/W2077787127","https://openalex.org/W2095841086","https://openalex.org/W2116276518","https://openalex.org/W2118335699","https://openalex.org/W2123245885","https://openalex.org/W2123620700","https://openalex.org/W2124424637","https://openalex.org/W2128863255","https://openalex.org/W2134591300","https://openalex.org/W2139914114","https://openalex.org/W2171421450","https://openalex.org/W2279009348","https://openalex.org/W2288835696","https://openalex.org/W2513506562","https://openalex.org/W2518795824","https://openalex.org/W2570222079","https://openalex.org/W2570743039","https://openalex.org/W2603061425","https://openalex.org/W2700494375","https://openalex.org/W2761899669","https://openalex.org/W2774389257","https://openalex.org/W2788566516","https://openalex.org/W2805466897","https://openalex.org/W2888257550","https://openalex.org/W2903741080","https://openalex.org/W2912407266","https://openalex.org/W2963424761","https://openalex.org/W2986925300","https://openalex.org/W2996003150","https://openalex.org/W3009144379","https://openalex.org/W3009775645","https://openalex.org/W3036869639","https://openalex.org/W3081666742","https://openalex.org/W3101667854","https://openalex.org/W3173756745","https://openalex.org/W3194313053","https://openalex.org/W3195079335","https://openalex.org/W4211001884","https://openalex.org/W4238754212","https://openalex.org/W6680449491","https://openalex.org/W6960195436","https://openalex.org/W6960299913"],"related_works":["https://openalex.org/W2506843120","https://openalex.org/W2945285105","https://openalex.org/W4390154386","https://openalex.org/W2306179760","https://openalex.org/W4206175384","https://openalex.org/W2890961259","https://openalex.org/W4256272196","https://openalex.org/W4404579815","https://openalex.org/W2951346714","https://openalex.org/W2728043704"],"abstract_inverted_index":{"AcetoBase":[0,43,95,135],"is":[1,13],"a":[2],"public":[3,86],"repository":[4],"and":[5,22,27,30,61,83,88,106,114],"database":[6,50,97],"of":[7,18,31,69,79,85,119,125,145],"formyltetrahydrofolate":[8],"synthetase":[9],"(FTHFS)":[10],"sequences.":[11,147],"It":[12],"the":[14,48,55,58,67,77,94,142],"first":[15,49],"systematic":[16],"collection":[17],"bacterial":[19,81],"FTHFS":[20,56,128,146],"nucleotide":[21],"protein":[23],"sequences":[24,32],"from":[25],"genomes":[26,29],"metagenome-assembled":[28],"generated":[33],"by":[34,123],"clone":[35],"library":[36],"sequencing.":[37],"At":[38],"its":[39],"publication":[40,68],"in":[41,76,111,141],"2019,":[42],"(Version":[44,100],"1)":[45],"was":[46],"also":[47],"to":[51,93],"establish":[52],"connections":[53],"between":[54],"gene,":[57],"Wood-Ljungdahl":[59],"pathway":[60],"16S":[62],"ribosomal":[63],"RNA":[64],"genes.":[65],"Since":[66],"AcetoBase,":[70],"there":[71],"have":[72],"been":[73],"significant":[74,139],"improvements":[75,110,140],"taxonomy":[78],"many":[80],"lineages":[82],"accessibility/availability":[84],"genomics":[87],"metagenomics":[89],"data.":[90],"The":[91,117],"update":[92,122],"reference":[96],"described":[98],"here":[99],"2)":[101],"provides":[102],"new":[103],"sequence":[104],"data":[105,131],"taxonomy,":[107],"along":[108],"with":[109,134],"web":[112],"functionality":[113],"user":[115],"interface.":[116],"evaluation":[118],"this":[120],"latest":[121],"re-analysis":[124],"publicly":[126],"accessible":[127],"amplicon":[129],"sequencing":[130],"previously":[132],"analysed":[133],"Version":[136],"1":[137],"revealed":[138],"taxonomic":[143],"assignment":[144],"Database":[148],"URL:":[149],"https://acetobase.molbio.slu.se.":[150]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
