{"id":"https://openalex.org/W1969859767","doi":"https://doi.org/10.1186/1471-2105-12-s9-s19","title":"Changes in transcriptional orientation are associated with increases in evolutionary rates of enterobacterial genes","display_name":"Changes in transcriptional orientation are associated with increases in evolutionary rates of enterobacterial genes","publication_year":2011,"publication_date":"2011-10-05","ids":{"openalex":"https://openalex.org/W1969859767","doi":"https://doi.org/10.1186/1471-2105-12-s9-s19","mag":"1969859767","pmid":"https://pubmed.ncbi.nlm.nih.gov/22152004"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-12-s9-s19","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-s9-s19","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-S9-S19","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-S9-S19","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102419403","display_name":"Chieh-Hua Lin","orcid":"https://orcid.org/0000-0002-7920-2961"},"institutions":[{"id":"https://openalex.org/I165441096","display_name":"National Health Research Institutes","ror":"https://ror.org/02r6fpx29","country_code":"TW","type":"nonprofit","lineage":["https://openalex.org/I165441096"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Chieh-Hua Lin","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, 35 Keyen Road, Zhunan Town, Miaoli County, Taiwan, Republic of China","Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Miaoli County, Republic of China","Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, 35 Keyen Road, Zhunan Town, Miaoli County, Taiwan, Republic of China","institution_ids":["https://openalex.org/I165441096"]},{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Miaoli County, Republic of China","institution_ids":["https://openalex.org/I165441096"]},{"raw_affiliation_string":"Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Republic of China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024373967","display_name":"Chun-Yi Lian","orcid":null},"institutions":[{"id":"https://openalex.org/I165441096","display_name":"National Health Research Institutes","ror":"https://ror.org/02r6fpx29","country_code":"TW","type":"nonprofit","lineage":["https://openalex.org/I165441096"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Chun-Yi Lian","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, 35 Keyen Road, Zhunan Town, Miaoli County, Taiwan, Republic of China","Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Miaoli County, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, 35 Keyen Road, Zhunan Town, Miaoli County, Taiwan, Republic of China","institution_ids":["https://openalex.org/I165441096"]},{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Miaoli County, Republic of China","institution_ids":["https://openalex.org/I165441096"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016184067","display_name":"Chao A. Hsiung","orcid":"https://orcid.org/0000-0003-1427-6641"},"institutions":[{"id":"https://openalex.org/I165441096","display_name":"National Health Research Institutes","ror":"https://ror.org/02r6fpx29","country_code":"TW","type":"nonprofit","lineage":["https://openalex.org/I165441096"]},{"id":"https://openalex.org/I25846049","display_name":"National Tsing Hua University","ror":"https://ror.org/00zdnkx70","country_code":"TW","type":"education","lineage":["https://openalex.org/I25846049"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Chao Agnes Hsiung","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, 35 Keyen Road, Zhunan Town, Miaoli County, Taiwan, Republic of China","Institute of Bioinformatics and Structural Biology, National Tsing Hua University, No. 101, Section 2, Kuang-Fu Road, Hsinchu, Taiwan, Republic of China","Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Republic of China","Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Miaoli County, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, 35 Keyen Road, Zhunan Town, Miaoli County, Taiwan, Republic of China","institution_ids":["https://openalex.org/I165441096"]},{"raw_affiliation_string":"Institute of Bioinformatics and Structural Biology, National Tsing Hua University, No. 101, Section 2, Kuang-Fu Road, Hsinchu, Taiwan, Republic of China","institution_ids":["https://openalex.org/I25846049"]},{"raw_affiliation_string":"Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Republic of China","institution_ids":[]},{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Miaoli County, Republic of China","institution_ids":["https://openalex.org/I165441096"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054373289","display_name":"Feng\u2010Chi Chen","orcid":"https://orcid.org/0000-0002-1437-4420"},"institutions":[{"id":"https://openalex.org/I165441096","display_name":"National Health Research Institutes","ror":"https://ror.org/02r6fpx29","country_code":"TW","type":"nonprofit","lineage":["https://openalex.org/I165441096"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Feng-Chi Chen","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, 35 Keyen Road, Zhunan Town, Miaoli County, Taiwan, Republic of China","Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Miaoli County, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, 35 Keyen Road, Zhunan Town, Miaoli County, Taiwan, Republic of China","institution_ids":["https://openalex.org/I165441096"]},{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Miaoli County, Republic of China","institution_ids":["https://openalex.org/I165441096"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.198,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.60403638,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"12","issue":"S9","first_page":"S19","last_page":"S19"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.8661999702453613,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.8661999702453613,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.03350000083446503,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.015599999576807022,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.8029000163078308},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.7535715103149414},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.7111949324607849},{"id":"https://openalex.org/keywords/operon","display_name":"Operon","score":0.6349416971206665},{"id":"https://openalex.org/keywords/negative-selection","display_name":"Negative selection","score":0.6258776187896729},{"id":"https://openalex.org/keywords/mutation-rate","display_name":"Mutation rate","score":0.513729453086853},{"id":"https://openalex.org/keywords/nonsynonymous-substitution","display_name":"Nonsynonymous substitution","score":0.47717776894569397},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4672631621360779},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.25417476892471313}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8029000163078308},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.7535715103149414},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.7111949324607849},{"id":"https://openalex.org/C203075996","wikidata":"https://www.wikidata.org/wiki/Q139677","display_name":"Operon","level":4,"score":0.6349416971206665},{"id":"https://openalex.org/C7386963","wikidata":"https://www.wikidata.org/wiki/Q3954859","display_name":"Negative selection","level":4,"score":0.6258776187896729},{"id":"https://openalex.org/C98638677","wikidata":"https://www.wikidata.org/wiki/Q2067051","display_name":"Mutation rate","level":3,"score":0.513729453086853},{"id":"https://openalex.org/C149904235","wikidata":"https://www.wikidata.org/wiki/Q7049620","display_name":"Nonsynonymous substitution","level":4,"score":0.47717776894569397},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4672631621360779},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.25417476892471313}],"mesh":[{"descriptor_ui":"D004755","descriptor_name":"Enterobacteriaceae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004755","descriptor_name":"Enterobacteriaceae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004755","descriptor_name":"Enterobacteriaceae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D007709","descriptor_name":"Klebsiella","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007709","descriptor_name":"Klebsiella","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007709","descriptor_name":"Klebsiella","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012486","descriptor_name":"Salmonella typhimurium","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012486","descriptor_name":"Salmonella typhimurium","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012486","descriptor_name":"Salmonella typhimurium","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059645","descriptor_name":"Mutation Rate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059645","descriptor_name":"Mutation Rate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059645","descriptor_name":"Mutation Rate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-12-s9-s19","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-s9-s19","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-S9-S19","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22152004","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22152004","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:23dd367d9d884a5ea93ac346eaa3e87a","is_oa":false,"landing_page_url":"https://doaj.org/article/23dd367d9d884a5ea93ac346eaa3e87a","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 12, Iss Suppl 9, p S19 (2011)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3283321","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3283321","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-12-s9-s19","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-s9-s19","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-S9-S19","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320322845","display_name":"National Health Research Institutes","ror":"https://ror.org/02r6fpx29"},{"id":"https://openalex.org/F4320332603","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1969859767.pdf","grobid_xml":"https://content.openalex.org/works/W1969859767.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W123172567","https://openalex.org/W1516878686","https://openalex.org/W1672638443","https://openalex.org/W1938034723","https://openalex.org/W2001372713","https://openalex.org/W2020541351","https://openalex.org/W2027138957","https://openalex.org/W2028165934","https://openalex.org/W2032414175","https://openalex.org/W2039790548","https://openalex.org/W2042013229","https://openalex.org/W2048448217","https://openalex.org/W2056379548","https://openalex.org/W2072657996","https://openalex.org/W2106882534","https://openalex.org/W2110705025","https://openalex.org/W2111967267","https://openalex.org/W2115148114","https://openalex.org/W2119632499","https://openalex.org/W2127435852","https://openalex.org/W2128271464","https://openalex.org/W2132060660","https://openalex.org/W2133465414","https://openalex.org/W2134153749","https://openalex.org/W2151784676","https://openalex.org/W2158217645","https://openalex.org/W2158708753","https://openalex.org/W2159595936","https://openalex.org/W2160336344","https://openalex.org/W2167132683"],"related_works":["https://openalex.org/W2066518030","https://openalex.org/W1965088361","https://openalex.org/W1977933410","https://openalex.org/W2126740061","https://openalex.org/W4306168892","https://openalex.org/W2155292801","https://openalex.org/W2139617371","https://openalex.org/W2047495572","https://openalex.org/W4226160006","https://openalex.org/W2162988677"],"abstract_inverted_index":{"BACKGROUND:":[0],"Changes":[1],"in":[2,8,33,101,136,167,190,230,237,239,244,247],"transcriptional":[3,137],"orientation":[4,138],"(\"CTOs\")":[5],"occur":[6],"frequently":[7],"prokaryotic":[9],"genomes.":[10],"Such":[11],"changes":[12,135],"usually":[13],"result":[14],"from":[15],"genomic":[16],"inversions,":[17],"which":[18,276],"may":[19,48,62,249],"cause":[20,49,283,291],"a":[21,208],"conflict":[22],"between":[23,129,221],"the":[24,43,82,86,130,158,162,168,191,216,222,228,235,242,261,265,273,281],"directions":[25],"of":[26,52,65,71,85,98,121,170,210,264,272,284,292],"replication":[27],"and":[28,30,89,112,124,142,182,203],"transcription":[29],"an":[31,78],"increase":[32,229,236,260],"mutation":[34],"rate.":[35],"However,":[36,215],"CTOs":[37,47,61,76,258],"do":[38,145],"not":[39,146],"always":[40],"lead":[41],"to":[42,73,95,156,279],"replication-transcription":[44,180,274],"confrontation.":[45],"Furthermore,":[46],"deleterious":[50],"disruptions":[51],"operon":[53],"structure":[54],"and/or":[55],"gene":[56,175,177,186,224],"regulations.":[57],"The":[58,150,289],"currently":[59],"existing":[60],"indicate":[63],"relaxation":[64],"selection":[66,99,159],"pressure.":[67],"Therefore,":[68,241],"it":[69],"is":[70,270,277,300],"interest":[72],"investigate":[74],"whether":[75,90],"have":[77,133,199],"independent":[79,271],"effect":[80,269],"on":[81,161],"evolutionary":[83,171,245,262,286,294],"rates":[84,246,263],"affected":[87,266],"genes,":[88,140,148],"these":[91],"genes":[92,131],"are":[93,213,219],"subject":[94],"any":[96],"type":[97],"pressure":[100,160],"prokaryotes.":[102],"METHODS:":[103],"Three":[104],"closely":[105],"related":[106],"enterbacteria,":[107],"Escherichia":[108],"coli,":[109],"Klebsiella":[110],"pneumoniae":[111],"Salmonella":[113],"enterica":[114],"serovar":[115],"Typhimurium,":[116],"were":[117,188],"selected":[118],"for":[119],"comparisons":[120],"synonymous":[122],"(dS)":[123],"nonsynonymous":[125],"(dN)":[126],"substitution":[127],"rate":[128,287,295],"that":[132,144,197,227,257],"experienced":[134],"(changed-orientation":[139],"\"COGs\")":[141],"those":[143],"(same-orientation":[147],"\"SOGs\").":[149],"dN/dS":[151,217],"ratio":[152],"was":[153],"also":[154],"derived":[155],"evaluate":[157],"analyzed":[163],"genes.":[164,267],"Confounding":[165],"factors":[166,212],"estimation":[169],"rates,":[172],"such":[173,293],"as":[174],"essentiality,":[176],"expression":[178],"level,":[179],"confrontation,":[181,275],"decreased":[183],"dS":[184,204,231],"at":[185],"terminals":[187],"controlled":[189],"COG-SOG":[192],"comparisons.":[193],"RESULTS:":[194],"We":[195],"demonstrate":[196],"COGs":[198,248],"significantly":[200],"higher":[201],"dN":[202,238],"than":[205],"SOGs":[206],"when":[207],"series":[209],"confounding":[211],"controlled.":[214],"ratios":[218],"similar":[220],"two":[223],"groups,":[225],"suggesting":[226],"can":[232,259],"sufficiently":[233],"explain":[234],"COGs.":[240],"increases":[243,296],"be":[250,280],"mainly":[251],"mutation-driven.":[252],"CONCLUSIONS:":[253],"Here":[254],"we":[255],"show":[256],"This":[268],"suggested":[278],"major":[282],"inversion-associated":[285],"increases.":[288],"real":[290],"remains":[297],"unclear":[298],"but":[299],"worth":[301],"further":[302],"explorations.":[303]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
