TY - GEN A1 - Umair, Muhammad A1 - Mohsin, Mashkoor A1 - Ali, Qasim A1 - Qamar, Muhammad U. A1 - Raza, Shahbaz A1 - Ali, Aamir A1 - Guenther, Sebastian A1 - Schierack, Peter T1 - Prevalence and Genetic Relatedness of Extended Spectrum-ß-Lactamase-Producing Escherichia coli Among Humans, Cattle, and Poultry in Pakistan T2 - Microbial drug resistance Y1 - 2019 U6 - https://doi.org/10.1089/mdr.2018.0450 SN - 1931-8448 SN - 1076-6294 VL - 25 IS - 9 SP - 1374 EP - 1381 ER - TY - GEN A1 - Khan, Muhammad Moman A1 - Mushtaq, Muhammad Ahmed A1 - Suleman, Muhammad A1 - Ahmed, Umer A1 - Ashraf, Muhammad Faisal A1 - Aslam, Rizwan A1 - Mohsin, Mashkoor A1 - Rödiger, Stefan A1 - Sarwar, Yasra A1 - Schierack, Peter A1 - Ali, Aamir T1 - Fecal microbiota landscape of commercial poultry farms in Faisalabad, Pakistan : a 16S rRNA gene-based metagenomics study T2 - Poultry science N2 - This study explores the microbiota of broiler and layer farms, aiming to understand how genetic breed, age, and farm type influence microbial communities in commercial settings. Fecal samples from 18 poultry farms (twelve layers and six broilers) in Faisalabad, Pakistan were analyzed using 16S rRNA gene sequencing of the V3-V4 region to evaluate bacterial composition. The dominant phylum, Firmicutes, accounted for 58.72 % of the microbial population, with Lactobacillus being the most abundant genus in both broilers and layers. The total abundance of potentially pathogenic genera was also assessed with Enterococcus and Corynebacterium being the most prevalent across all farms, regardless of bird type. Layers exhibited greater microbial richness and diversity than broilers, while the Karachi cage system (KCS) farm type showed higher richness than Floor system (FS). Although the breed significantly influenced microbial diversity, age was not a determining factor. Co-occurrence analyses revealed close interactions among phyla (Actinobacteriota, Proteobacteria, Firmicutes, Fusobacteriota, and Bacteroidota) and genera (Lactobacillus, Brevibacterium, Enterococcus), suggesting their pivotal roles within the microbial community. Additionally, functional analysis detected important metabolic pathways and traced microbial signatures of key pathogenic bacteria, enhancing our understanding of microbial contributions to poultry health. Despite limitations such as the need for broader geographic sampling and accounting for diet and medication, this study advances microbiome research in Pakistan's poultry sector, emphasizing consistent taxa and opening avenues for future investigations into microbiome manipulations for improved food safety and achieve better sustainable practices. KW - 16S rRNA KW - Broiler KW - Farm-type KW - Layer KW - Metagenomics Y1 - 2025 U6 - https://doi.org/10.1016/j.psj.2025.105089 SN - 0032-5791 SN - 1525-3171 VL - 104 IS - 6 SP - 1 EP - 11 PB - Elsevier BV CY - Amsterdam ER - TY - GEN A1 - Wajid, Muhammad A1 - Awan, Asad Bashir A1 - Saleemi, Muhammad Kashif A1 - Weinreich, Jörg A1 - Schierack, Peter A1 - Sarwar, Yasra A1 - Ali, Aamir T1 - Multiple Drug Resistance and Virulence Profiling of Salmonella enterica Serovars Typhimurium and Enteritidis from Poultry Farms of Faisalabad, Pakistan T2 - Microbial Drug Resistance Y1 - 2019 U6 - https://doi.org/10.1089/mdr.2018.0121 SN - 1931-8448 SN - 1076-6294 VL - 25 IS - 1 SP - 133 EP - 142 ER - TY - GEN A1 - Ali, Aamir A1 - Kolenda, Rafał A1 - Khan, Muhammad Moman A1 - Weinreich, Jörg A1 - Li, Ganwu A1 - Wieler, Lothar H. A1 - Tedin, Karsten A1 - Roggenbuck, Dirk A1 - Schierack, Peter T1 - Novel Avian Pathogenic Escherichia coli Genes Responsible for Adhesion to Chicken and Human Cell Lines T2 - Applied and Environmental Microbiology Y1 - 2020 U6 - https://doi.org/10.1128/AEM.01068-20 SN - 1098-5336 VL - 86 IS - 20 ER - TY - GEN A1 - Khan, Muhammad Moman A1 - Sidorczuk, Katarzyna A1 - Becker, Juliane A1 - Aleksandrowicz, Adrianna A1 - Baraniewicz, Karolina A1 - Ludwig, Christina A1 - Ali, Aamir A1 - Kingsley, Robert A. A1 - Schierack, Peter A1 - Kolenda, Rafał T1 - Characterization of clumpy adhesion of Escherichia coli to human cells and associated factors influencing antibiotic sensitivity T2 - Microbiology Spectrum N2 - Escherichia coli intestinal infection pathotypes are characterized by distinct adhesion patterns, including the recently described clumpy adhesion phenotype. Here, we identify and characterize the genetic factors contributing to the clumpy adhesion of E. coli strain 4972. In this strain, the transcriptome and proteome of adhered bacteria were found to be distinct from planktonic bacteria in the supernatant. A total of 622 genes in the transcriptome were differentially expressed in bacteria present in clumps relative to the planktonic bacteria. Seven genes targeted for disruption had variable distribution in different pathotypes and nonpathogenic E. coli, with the pilV and spnT genes being the least frequent or absent from most groups. Deletion (Δ) of five differentially expressed genes, flgH, ffp, pilV, spnT, and yggT, affected motility, adhesion, or antibiotic stress. ΔflgH exhibited 80% decrease and ΔyggT depicted 184% increase in adhesion, and upon complementation, adhesion was significantly reduced to 13%. ΔflgH lost motility and was regenerated when complemented, whereas Δffp had significantly increased motility, and reintroduction of the same gene reduced it to the wild-type level. The clumps produced by Δffp and ΔspnT were more resistant and protected the bacteria, with ΔspnT showing the best clump formation in terms of ampicillin stress protection. ΔyggT had the lowest tolerance to gentamicin, where the antibiotic stress completely eliminated the bacteria. Overall, we were able to investigate the influence of clump formation on cell surface adhesion and antimicrobial tolerance, with the contribution of several factors crucial to clump formation on susceptibility to the selected antibiotics. KW - Infectious Diseases KW - Cell Biology KW - Microbiology (medical) KW - Genetics KW - General Immunology and Microbiology KW - Ecology KW - Physiology Y1 - 2024 U6 - https://doi.org/10.1128/spectrum.02606-23 SN - 2165-0497 ER - TY - GEN A1 - Naz, Fizza A1 - Ahmad, Abrar A1 - Sarwar, Yasra A1 - Khan, Muhammad Moman A1 - Schierack, Peter A1 - Rauf, Waqar A1 - Ali, Aamir T1 - Characterization of Salmonella enterica Biofilms and Antibiofilm Effect of Carvacrol and 2-Aminobenzimidazole T2 - Foodborne Pathogens and Disease Y1 - 2024 U6 - https://doi.org/10.1089/fpd.2023.0044 SN - 1535-3141 VL - 21 IS - 1 SP - 52 EP - 60 PB - Mary Ann Liebert Inc. ER - TY - GEN A1 - Khan, Muhammad Moman A1 - Ali, Aamir A1 - Kolenda, Rafał A1 - Olowe, Olugbenga Adekunle A1 - Weinreich, Jörg A1 - Li, Ganwu A1 - Schierack, Peter T1 - The role of AJB35136 and fdtA genes in biofilm formation by avian pathogenic Escherichia coli T2 - BMC Veterinary Research Y1 - 2023 U6 - https://doi.org/10.1186/s12917-023-03672-7 SN - 1746-6148 VL - 19 ER -