{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,25]],"date-time":"2026-09-25T01:20:19Z","timestamp":1790299219796,"version":"4.1.0"},"reference-count":36,"publisher":"MDPI AG","issue":"17","license":[{"start":{"date-parts":[[2023,8,22]],"date-time":"2023-08-22T00:00:00Z","timestamp":1692662400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Santander-Universidad Complutense de Madrid","award":["PR44\/21-29913"],"award-info":[{"award-number":["PR44\/21-29913"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Animals"],"abstract":"<jats:p>The aim of this study was to investigate the possible genotypic differences between commensal Pasteurella multocida isolates from apparently healthy animals (AHA) at the time of entry to feedlots and those from BRD-affected animals (BRD-AA). A total of 20 batches of beef calves in seven feedlots were followed-up during the fattening period. P. multocida was isolated from 28.1% of AHA and 22.9% of BRD-AA. All isolates belonged to the A: L3 genotype. Most isolates from clinical cases (81.0%) grouped into a PFGE cluster were significantly associated with BRD cases (OR, 24.9; 95% CI, 6.4\u201396.2). The whole genomes of 14 isolates representative of the pulsotypes most frequently detected in BRD-AA and AHA were sequenced and compared with 53 bovine genomes belonging to the identified ST13, ST79, and ST80 genotypes for a global comparison. No differences were found in the virulence-associated gene content between sequence types (STs) globally or between BRD-AA and AHA isolates in this study. Significantly, ST79 isolates harbored ARGs, conferring resistance to different antimicrobials, including macrolides and tetracyclines, which are commonly used for the treatment of BRD. Two Spanish ST79 isolates carried an ICE highly similar to ICE Tn7407, which was recently detected in Germany, suggesting that ST79 P. multocida isolates in Europe and North America may be associated with different ICEs.<\/jats:p>","DOI":"10.3390\/ani13172687","type":"journal-article","created":{"date-parts":[[2023,8,22]],"date-time":"2023-08-22T08:58:54Z","timestamp":1692694734000},"page":"2687","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":13,"title":["Genotypic Comparison of Pasteurella multocida from Healthy Animals at Entry to the Feedlots with That and from Bovine Respiratory Disease-Affected Animals during the Fattening Period"],"prefix":"10.3390","volume":"13","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-3772-841X","authenticated-orcid":false,"given":"Johan Manuel","family":"Calder\u00f3n Bernal","sequence":"first","affiliation":[{"name":"Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, 28040 Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6008-6024","authenticated-orcid":false,"given":"Carlos","family":"Serna","sequence":"additional","affiliation":[{"name":"Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, 28040 Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1545-7890","authenticated-orcid":false,"given":"\u00c1ngel","family":"Garc\u00eda Mu\u00f1oz","sequence":"additional","affiliation":[{"name":"Departamento Producci\u00f3n y Sanidad Animal, Salud P\u00fablica Veterinaria y Ciencia y Tecnolog\u00eda de los Alimentos, Facultad de Veterinaria, Universidad Cardenal Herrera-CEU, CEU Universities, 46115 Valencia, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1976-3089","authenticated-orcid":false,"given":"Alberto","family":"D\u00edez Guerrier","sequence":"additional","affiliation":[{"name":"Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, 28040 Madrid, Spain"},{"name":"Centro de Vigilancia Sanitaria Veterinaria (VISAVET), Universidad Complutense, 28040 Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lucas","family":"Dom\u00ednguez","sequence":"additional","affiliation":[{"name":"Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, 28040 Madrid, Spain"},{"name":"Centro de Vigilancia Sanitaria Veterinaria (VISAVET), Universidad Complutense, 28040 Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1597-0643","authenticated-orcid":false,"given":"Jos\u00e9 Francisco","family":"Fern\u00e1ndez-Garayz\u00e1bal","sequence":"additional","affiliation":[{"name":"Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, 28040 Madrid, Spain"},{"name":"Centro de Vigilancia Sanitaria Veterinaria (VISAVET), Universidad Complutense, 28040 Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ana Isabel","family":"Vela","sequence":"additional","affiliation":[{"name":"Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, 28040 Madrid, Spain"},{"name":"Centro de Vigilancia Sanitaria Veterinaria (VISAVET), Universidad Complutense, 28040 Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8387-0495","authenticated-orcid":false,"given":"Dolores","family":"Cid","sequence":"additional","affiliation":[{"name":"Departamento de Sanidad Animal, Facultad de Veterinaria, Universidad Complutense, 28040 Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2023,8,22]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"366","DOI":"10.1177\/104063871002200304","article-title":"Comparison of genotypic and phenotypic characterization methods for Pasteurella multocida isolates from fatal cases of bovine respiratory disease J","volume":"22","author":"Taylor","year":"2010","journal-title":"Vet. Diagn. Investig."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"118","DOI":"10.1016\/j.vetmic.2017.07.013","article-title":"Prevalence and antimicrobial susceptibility of Mannheimia haemolytica, Pasteurella multocida, and Histophilus somni isolated from the lower respiratory tract of healthy feedlot cattle and those diagnosed with bovine respiratory disease","volume":"208","author":"Timsit","year":"2017","journal-title":"Vet. Microbiol."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"2556","DOI":"10.3168\/jds.2019-17486","article-title":"Pathogen-specific risk factors in acute outbreaks of respiratory disease in calves","volume":"103","author":"Pardon","year":"2020","journal-title":"J. Dairy Sci."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"253","DOI":"10.1016\/j.cvfa.2020.02.001","article-title":"Mannheimia haemolytica and Pasteurella multocida in bovine respiratory disease. How are they changing in response to efforts to control them?","volume":"36","author":"Snyder","year":"2020","journal-title":"Vet. Clin. Food Anim."},{"key":"ref_5","doi-asserted-by":"crossref","unstructured":"Calder\u00f3n Bernal, J.M., Fern\u00e1ndez, A., Arnal, J.L., Sanz Tejero, C., Fern\u00e1ndez-Garayz\u00e1bal, J.F., Vela, A.I., and Cid, D. (2022). Molecular Epidemiology of Pasteurella multocida associated with bovine respiratory disease outbreaks. Animals, 13.","DOI":"10.3390\/ani13010075"},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"329","DOI":"10.1016\/j.vetmic.2011.03.018","article-title":"Molecular epidemiology of Pasteurella multocida in dairy and beef calves","volume":"151","author":"Hotchkiss","year":"2011","journal-title":"Vet. Microbiol."},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"450","DOI":"10.1016\/j.rvsc.2020.11.002","article-title":"Bovine respiratory disease in beef calves supported long transport stress: An epidemiological study and strategies for control and prevention","volume":"135","author":"Pratelli","year":"2020","journal-title":"Res. Vet. Sci."},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"e00014-19","DOI":"10.1128\/MMBR.00014-19","article-title":"Pasteurella multocida: Genotypes and genomics","volume":"83","author":"Peng","year":"2019","journal-title":"Microbiol. Mol. Biol. Rev."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"924","DOI":"10.1128\/JCM.39.3.924-929.2001","article-title":"Genetic organization of Pasteurella multocida cap loci and development of a multiplex capsular PCR typing system","volume":"39","author":"Townsend","year":"2001","journal-title":"J. Clin. Microbiol."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"477","DOI":"10.1128\/JCM.02824-14","article-title":"Development of a rapid multiplex PCR assay to genotype Pasteurella multocida strains by use of the lipopolysaccharide outer core biosynthesis locus","volume":"53","author":"Harper","year":"2015","journal-title":"J. Clin. Microbiol."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"304","DOI":"10.1016\/j.vetmic.2005.12.012","article-title":"Virulence genotype of Pasteurella multocida strains isolated from different hosts with various disease status","volume":"114","author":"Ewers","year":"2006","journal-title":"Vet. Microbiol."},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"180","DOI":"10.1016\/j.vetmic.2017.04.015","article-title":"Characterization of Pasteurella multocida associated with ovine pneumonia using multi-locus sequence typing (MLST) and virulence associated gene profile analysis and comparison with porcine isolates","volume":"204","author":"Vela","year":"2017","journal-title":"Vet. Microbiol."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"1408","DOI":"10.3389\/fmicb.2018.01408","article-title":"Genetic and phylogenetic characteristics of Pasteurella multocida isolates from different host species","volume":"9","author":"Peng","year":"2018","journal-title":"Front. Microbiol."},{"key":"ref_14","doi-asserted-by":"crossref","unstructured":"Smith, E., Miller, E., Aguayo, J.M., Figueroa, C.F., Nezworski, J., Studniski, M., Wileman, B., and Johnson, T. (2021). Genomic diversity and molecular epidemiology of Pasteurella multocida. PLoS ONE, 16.","DOI":"10.1371\/journal.pone.0249138"},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"109773","DOI":"10.1016\/j.vetmic.2023.109773","article-title":"Genomic profiling of Pasteurella multocida isolated from feedlot cases of bovine respiratory disease","volume":"283","author":"Alhamami","year":"2023","journal-title":"Vet. Microbiol."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"1485","DOI":"10.1111\/jfd.12837","article-title":"Limited performance of MALDI-TOF for identification of fish Aeromonas isolates at species level","volume":"41","author":"Figueras","year":"2018","journal-title":"J. Fish. Dis."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"1096","DOI":"10.1128\/JCM.36.4.1096-1100.1998","article-title":"Development of PCR assays for species-and type-specific identification of Pasteurella multocida isolates","volume":"36","author":"Townsend","year":"1998","journal-title":"J. Clin. Microbiol."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"1072","DOI":"10.1093\/bioinformatics\/btt086","article-title":"QUAST: Quality assessment tool for genome assemblies","volume":"29","author":"Gurevich","year":"2013","journal-title":"Bioinformatics"},{"key":"ref_19","first-page":"000685","article-title":"Bakta: Rapid and standardized annotation of bacterial genomes via alignment-free sequence identification","volume":"7","author":"Schwengers","year":"2021","journal-title":"Microbial. Genom."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"124","DOI":"10.12688\/wellcomeopenres.14826.1","article-title":"Open-access bacterial population genomics: BIGSdb software, the PubMLST.org website and their applications","volume":"3","author":"Jolley","year":"2018","journal-title":"Wellcome Open Res."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"83","DOI":"10.1007\/s11259-012-9539-5","article-title":"Profiling of virulence associated genes of Pasteurella multocida isolated from cattle","volume":"37","author":"Verma","year":"2013","journal-title":"Vet. Res. Commun."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"737","DOI":"10.1016\/j.vetmic.2013.09.029","article-title":"Virulence genes and antimicrobial susceptibility in Pasteurella multocida isolates from calves","volume":"167","author":"Katsuda","year":"2013","journal-title":"Vet. Microbiol."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"2640","DOI":"10.1093\/jac\/dks261","article-title":"Identification of acquired antimicrobial resistance genes","volume":"67","author":"Zankari","year":"2012","journal-title":"J. Antimicrob. Chemother."},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"3895","DOI":"10.1128\/AAC.02412-14","article-title":"In silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing","volume":"58","author":"Carattoli","year":"2014","journal-title":"Antimicrob. Agents Chemother."},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"91","DOI":"10.1093\/jac\/dkr411","article-title":"ICEPmu1, an integrative conjugative element (ICE) of Pasteurella multocida: Structure and transfer","volume":"67","author":"Michael","year":"2012","journal-title":"J. Antimicrob. Chemother."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"2033","DOI":"10.1093\/jac\/dkac116","article-title":"Novel multiresistance-mediating integrative and conjugative elements carrying unusual antimicrobial resistance genes in Mannheimia haemolytica and Pasteurella multocida","volume":"77","author":"Schink","year":"2022","journal-title":"J. Antimicrob. Chemother."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The sequence alignment\/map format and SAMtools","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"1530","DOI":"10.1093\/molbev\/msaa015","article-title":"IQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic era","volume":"37","author":"Minh","year":"2020","journal-title":"Mol. Biol. Evol."},{"key":"ref_29","doi-asserted-by":"crossref","unstructured":"Didelot, X., and Wilson, D.J. (2015). ClonalFrameML: Efficient inference of recombination in whole bacterial genomes. PLoS Comp. Biol., 11.","DOI":"10.1371\/journal.pcbi.1004041"},{"key":"ref_30","first-page":"e000056","article-title":"SNP-sites: Rapid efficient extraction of SNPs from multi-FASTA alignments","volume":"2","author":"Page","year":"2016","journal-title":"Microb. Genom."},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"e96","DOI":"10.1002\/cpbi.96","article-title":"Using ggtree to Visualize Data on Tree-Like Structures","volume":"69","author":"Yu","year":"2020","journal-title":"Curr. Protoc. Bioinform."},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"17","DOI":"10.1016\/j.ab.2019.02.020","article-title":"Pulsed Field Gel Electrophoresis: Past, present, and future","volume":"573","year":"2019","journal-title":"Anal. Biochem."},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"1026470","DOI":"10.3389\/fvets.2022.1026470","article-title":"Comparison of pathogenic bacteria in the upper and lower respiratory tracts of cattle either directly transported to a feedlot or co-mingled at auction markets prior to feedlot placement","volume":"9","author":"Hirsch","year":"2023","journal-title":"Front. Vet. Sci."},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"616774","DOI":"10.3389\/fvets.2021.616774","article-title":"Transcriptomic Analysis of High- and Low-Virulence Bovine Pasteurella multocida in vitro and in vivo","volume":"8","author":"He","year":"2021","journal-title":"Front. Vet. Sci."},{"key":"ref_35","first-page":"153","article-title":"Practical Antimicrobial Therapeutics","volume":"Volume one","author":"Constable","year":"2017","journal-title":"Veterinary Medicine: A Text Book of the Diseases of Cattle, Horses, Sheep Pigs and Goats"},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"427","DOI":"10.2217\/fmb.14.93","article-title":"Emerging issues in antimicrobial resistance of bacteria from food-producing animals","volume":"10","author":"Michael","year":"2015","journal-title":"Future Microbiol."}],"container-title":["Animals"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2076-2615\/13\/17\/2687\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T20:39:16Z","timestamp":1760128756000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2076-2615\/13\/17\/2687"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,8,22]]},"references-count":36,"journal-issue":{"issue":"17","published-online":{"date-parts":[[2023,9]]}},"alternative-id":["ani13172687"],"URL":"https:\/\/doi.org\/10.3390\/ani13172687","relation":{},"ISSN":["2076-2615"],"issn-type":[{"value":"2076-2615","type":"electronic"}],"subject":[],"published":{"date-parts":[[2023,8,22]]}}}