Adesoji Ayodele Timilehin, Mattioni Marchetti Vittoria, Cortimiglia Claudia, Piscopiello Francesca, Petrizzi Ilaria, Piazza Aurora, Alabi Emmanuel Dayo, Cocconcelli Pier Sandro, Migliavacca Roberta
Department of Microbiology, Federal University Dutsin-Ma, Katsina State, Nigeria.
S.C.C.D.P. Department, Microbiology and Clinical Microbiology Unit, University of Pavia, Pavia, Italy.
Curr Res Microb Sci. 2025 Aug 16;9:100458. doi: 10.1016/j.crmicr.2025.100458. eCollection 2025.
This study aimed to evaluate the genomic characteristics of spp. from human, animal, and food sources, and to establish their clonal relationships with globally circulating sequence types (STs). Using both phenotypic and next-generation sequencing approaches, a total of 300 samples comprising food samples ( = 180) and human clinical samples ( = 120) were collected and analyzed. Of these, 45 spp. were isolated from human ( = 16), animal ( = 15), and food ( = 14) sources. was the predominant species (34/45; 75.5%), followed by subsp (4/45; 8.8%), (3/45; 6.6%), subsp. (2/45; 4.4%), (1/45; 2.2%) and (1/45; 2.2%). Considering all the sources, 57.8 % of the isolates resulted in resistant to trimethoprim-sulfamethoxazole, while a lower percentage of strains showed resistance to aztreonam (17.8%), cefpodoxime (17.8%), cefotaxime (22.2%), ceftazidime (22.2%), ciprofloxacin (24.4%), colistin (15.6%), gentamicin (8.9%), levofloxacin (2.2%) and tobramycin (11.1%). In general, resistant strains were detected more frequently in samples of human and animal origin than in those of food origin. A total of 17 distinct STs were identified, including 9 novel STs. The fluoroquinolones resistance was mainly attributed to the presence of gene (33%), while (22%), (17.7%), and (11.1%) for aminoglycoside. β-lactam resistance genes , , , and - were considerably present in human (15/16; 93.7%) and animal (17/19; 89.5%) isolates. Among ESBL-encoding genes, (1/10; 10%) was exclusively found in food samples. The emergence of antibiotic-resistant and novel lineages of spp., with identical STs across human, animal, and food niches, indicates clonal expansion of high-risk strains. Surveillance and control of ESBL-producing using the One Health approach are urgently needed in Northern Nigeria.
. This study contributes to the understanding of the epidemiology of spp. in Nigeria. The study highlights that even in regions with relatively limited use of last resort antibiotics, high-risk global clones are circulating. These findings, aligned with the One Health approach, and emphasize the close interconnection between human, animal, and food sources, which facilitates the spread of common clones. Given the continuous emergence of new resistance mechanisms in spp., ongoing surveillance across Africa is warranted, employing both classical and molecular methods. In this study, next-generation sequencing enabled a comprehensive assessment of the circulating bacterial species, resistome, plasmidome, and virulome.
本研究旨在评估来自人类、动物和食物来源的[细菌名称]的基因组特征，并确定它们与全球流行的序列类型（STs）的克隆关系。使用表型和下一代测序方法，共收集并分析了300份样本，包括食物样本（n = 180）和人类临床样本（n = 120）。其中，从人类（n = 16）、动物（n = 15）和食物（n = 14）来源分离出45株[细菌名称]。[细菌名称1]是主要菌种（34/45；75.5%），其次是[细菌名称2]亚种（4/45；8.8%）、[细菌名称3]（3/45；6.6%）、[细菌名称4]亚种[细菌名称5]（2/45；4.4%）、[细菌名称6]（1/45；2.2%）和[细菌名称7]（1/45；2.2%）。考虑所有来源，57.8%的分离株对甲氧苄啶 - 磺胺甲恶唑耐药，而对氨曲南（17.8%）、头孢泊肟（17.8%）、头孢噻肟（22.2%）、头孢他啶（22.2%）、环丙沙星（24.4%）、黏菌素（15.6%）、庆大霉素（8.9%）、左氧氟沙星（2.2%）和妥布霉素（11.1%）耐药的菌株比例较低。一般来说，耐药菌株在人类和动物来源的样本中比在食物来源的样本中更频繁地被检测到。共鉴定出17种不同的STs，包括9种新的STs。氟喹诺酮类耐药主要归因于基因[基因名称1]的存在（33%），而氨基糖苷类耐药则归因于[基因名称2]（22%）、[基因名称3]（17.7%）和[基因名称4]（11.1%）。β - 内酰胺耐药基因[基因名称5]、[基因名称6]、[基因名称7]和[基因名称8]在人类（15/16；93.7%）和动物（17/19；89.5%）分离株中大量存在。在产超广谱β - 内酰胺酶（ESBL）的基因中，[基因名称9]（1/10；10%）仅在食物样本中发现。具有相同STs的[细菌名称]抗生素耐药和新谱系在人类、动物和食物生态位中的出现，表明高风险菌株的克隆扩张。尼日利亚北部迫切需要采用“同一健康”方法对产ESBL的[细菌名称]进行监测和控制。
本研究有助于了解尼日利亚[细菌名称]的流行病学。该研究强调，即使在使用最后手段抗生素相对有限的地区，高风险的全球克隆也在传播。这些发现与“同一健康”方法一致，并强调了人类、动物和食物来源之间的密切相互联系，这促进了常见克隆的传播。鉴于[细菌名称]中新的耐药机制不断出现，有必要在非洲持续采用经典和分子方法进行监测。在本研究中，下一代测序能够对循环细菌物种、耐药组、质粒组和毒力组进行全面评估。
