{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T01:13:12Z","timestamp":1760058792924,"version":"build-2065373602"},"reference-count":72,"publisher":"MDPI AG","issue":"5","license":[{"start":{"date-parts":[[2025,4,25]],"date-time":"2025-04-25T00:00:00Z","timestamp":1745539200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"University of Illinois at Urbana-Champaign research fund"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Antibiotics"],"abstract":"<jats:p>Background: Early gut microbiome development is critical for neonatal health, and its dysbiosis may impact long-term animal productivity. This study examined the effects of parenteral Ceftiofur Crystalline Free Acid (CCFA) on the composition and diversity of the neonatal lamb fecal microbiome. The emergence of antimicrobial resistance genes associated with CCFA exposure was also investigated. Results: There were distinct microbial populations in the CCFA-treated lambs compared to the control group at each time point, with a highly significant decrease in alpha and beta diversity. The CCFA treatment showed a reduction in several key microbial taxa during nursing, but these differences were diminished by day 56. Unlike the control group, CCFA-treated lambs had core microbes potentially carrying multiple antibiotic resistance genes, including those for beta-lactam, fosfomycin, methicillin, and multidrug resistance. Methods: Twenty-four healthy neonatal lambs were randomly assigned to CCFA-treated (n = 12) and control (n = 12) groups. Fecal samples were collected on days 0, 7, 14, 28, and 56. Genomic DNA was extracted and sequenced using the Illumina MiSeq platform. Microbial composition was analyzed using the MG-RAST pipeline with the RefSeq database. Conclusions: Despite temporary reductions in critical bacterial populations during nursing, the early sheep fecal microbiome demonstrated resilience by repopulating after CCFA antibiotic disruption. While this highlights microbiota stability after short-course antibiotic exposure, the transient disturbance underscores potential risks to early gut health. Importantly, persistent CCFA resistance poses environmental dissemination risks, emphasizing the need for cautious antibiotic use in livestock to mitigate ecological impacts.<\/jats:p>","DOI":"10.3390\/antibiotics14050434","type":"journal-article","created":{"date-parts":[[2025,4,25]],"date-time":"2025-04-25T08:57:47Z","timestamp":1745571467000},"page":"434","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Impact of Parenteral Ceftiofur on Developmental Dynamics of Early Life Fecal Microbiota and Antibiotic Resistome in Neonatal Lambs"],"prefix":"10.3390","volume":"14","author":[{"ORCID":"https:\/\/orcid.org\/0009-0002-1107-3873","authenticated-orcid":false,"given":"Mohamed","family":"Donia","sequence":"first","affiliation":[{"name":"Department of Pathobiology, College of Veterinary Medicine, University of Illinois at Urbana-Champaign, Urbana-Champaign, IL 61802, USA"},{"name":"Department of Animal Medicine (Internal Medicine), Faculty of Veterinary Medicine, Kafrelsheikh University, Kafrelsheikh 33516, Egypt"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3376-0156","authenticated-orcid":false,"given":"Nasr-Eldin","family":"Aref","sequence":"additional","affiliation":[{"name":"Department of Animal Medicine (Internal Medicine), Faculty of Veterinary Medicine, Assiut University, Assiut 71526, Egypt"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3318-1210","authenticated-orcid":false,"given":"Mohamed","family":"Zeineldin","sequence":"additional","affiliation":[{"name":"Department of Animal Medicine (Internal Medicine), Faculty of Veterinary Medicine, Benha University, Moshtohor-Toukh 13736, Egypt"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2006-8873","authenticated-orcid":false,"given":"Ameer","family":"Megahed","sequence":"additional","affiliation":[{"name":"Department of Animal Medicine (Internal Medicine), Faculty of Veterinary Medicine, Benha University, Moshtohor-Toukh 13736, Egypt"},{"name":"Department of Large Animal Clinical Sciences, College of Veterinary Medicine, University of Florida, Gainesville, FL 32610, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Benjamin","family":"Blair","sequence":"additional","affiliation":[{"name":"Integrated Food Animal Management Systems, Department of Veterinary Clinical Medicine, College of Veterinary Medicine, University of Illinois at Urbana-Champaign, Urbana-Champaign, IL 61802, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9773-6000","authenticated-orcid":false,"given":"James","family":"Lowe","sequence":"additional","affiliation":[{"name":"Integrated Food Animal Management Systems, Department of Veterinary Clinical Medicine, College of Veterinary Medicine, University of Illinois at Urbana-Champaign, Urbana-Champaign, IL 61802, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Brian","family":"Aldridge","sequence":"additional","affiliation":[{"name":"Department of Veterinary Medicine and Sciences, College of Veterinary Medicine, Clemson University, Clemson, SC 29634, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1968","published-online":{"date-parts":[[2025,4,25]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"S21","DOI":"10.1017\/S0007114512005235","article-title":"Linking the gut microbiota to human health","volume":"109","author":"Alonso","year":"2013","journal-title":"Br. 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