Dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period
This study aimed to characterize the alteration of the fecal microbiome and antimicrobial resistance (AMR) determinants in 24 piglets at day 3 pre-weaning (D. - 3), weaning day (D.0), days 3 (D.3) and 8 post-weaning (D.8), using whole-genome shotgun sequencing. Distinct clusters of microbiomes and A...
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Engineering::Environmental engineering Science::Biological sciences Microbiology Molecular Biology Suriyaphol, Prapat Chiu, Jimmy Ka Ho Yimpring, Nathamon Tunsagool, Paiboon Mhuantong, Wuttichai Chuanchuen, Rungtip Bessarab, Irina Williams, Rohan B. H. Ong, Rick Twee-Hee Suriyaphol, Gunnaporn Dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period |
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This study aimed to characterize the alteration of the fecal microbiome and antimicrobial resistance (AMR) determinants in 24 piglets at day 3 pre-weaning (D. - 3), weaning day (D.0), days 3 (D.3) and 8 post-weaning (D.8), using whole-genome shotgun sequencing. Distinct clusters of microbiomes and AMR determinants were observed at D.8 when Prevotella (20.9%) was the major genus, whereas at D. - 3-D.3, Alistipes (6.9-12.7%) and Bacteroides (5.2-8.5%) were the major genera. Lactobacillus and Escherichia were notably observed at D. - 3 (1.2%) and D. - 3-D.3 (0.2-0.4%), respectively. For AMR, a distinct cluster of AMR determinants was observed at D.8, mainly conferring resistance to macrolide-lincosamide-streptogramin (mefA), β-lactam (cfxA6 and aci1) and phenicol (rlmN). In contrast, at D. - 3-D.3, a high abundance of determinants with aminoglycoside (AMG) (sat, aac(6')-aph(2''), aadA and acrF), β-lactam (fus-1, cepA and mrdA), multidrug resistance (MDR) (gadW, mdtE, emrA, evgS, tolC and mdtB), phenicol (catB4 and cmlA4), and sulfonamide patterns (sul3) was observed. Canonical correlation analysis (CCA) plot associated Escherichia coli with aac(6')-aph(2''), emrA, mdtB, catB4 and cmlA4 at D. - 3, D.0 and/or D.3 whereas at D.8 associations between Prevotella and mefA, cfxA6 and aci1 were identified. The weaning age and diet factor played an important role in the microbial community composition. |
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Singapore Centre for Environmental Life Sciences and Engineering |
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Singapore Centre for Environmental Life Sciences and Engineering Suriyaphol, Prapat Chiu, Jimmy Ka Ho Yimpring, Nathamon Tunsagool, Paiboon Mhuantong, Wuttichai Chuanchuen, Rungtip Bessarab, Irina Williams, Rohan B. H. Ong, Rick Twee-Hee Suriyaphol, Gunnaporn |
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Article |
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Suriyaphol, Prapat Chiu, Jimmy Ka Ho Yimpring, Nathamon Tunsagool, Paiboon Mhuantong, Wuttichai Chuanchuen, Rungtip Bessarab, Irina Williams, Rohan B. H. Ong, Rick Twee-Hee Suriyaphol, Gunnaporn |
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Suriyaphol, Prapat |
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Dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period |
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Dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period |
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Dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period |
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Dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period |
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Dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period |
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dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period |
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2021 |
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https://hdl.handle.net/10356/153800 |
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sg-ntu-dr.10356-1538002022-01-01T20:12:04Z Dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period Suriyaphol, Prapat Chiu, Jimmy Ka Ho Yimpring, Nathamon Tunsagool, Paiboon Mhuantong, Wuttichai Chuanchuen, Rungtip Bessarab, Irina Williams, Rohan B. H. Ong, Rick Twee-Hee Suriyaphol, Gunnaporn Singapore Centre for Environmental Life Sciences and Engineering Engineering::Environmental engineering Science::Biological sciences Microbiology Molecular Biology This study aimed to characterize the alteration of the fecal microbiome and antimicrobial resistance (AMR) determinants in 24 piglets at day 3 pre-weaning (D. - 3), weaning day (D.0), days 3 (D.3) and 8 post-weaning (D.8), using whole-genome shotgun sequencing. Distinct clusters of microbiomes and AMR determinants were observed at D.8 when Prevotella (20.9%) was the major genus, whereas at D. - 3-D.3, Alistipes (6.9-12.7%) and Bacteroides (5.2-8.5%) were the major genera. Lactobacillus and Escherichia were notably observed at D. - 3 (1.2%) and D. - 3-D.3 (0.2-0.4%), respectively. For AMR, a distinct cluster of AMR determinants was observed at D.8, mainly conferring resistance to macrolide-lincosamide-streptogramin (mefA), β-lactam (cfxA6 and aci1) and phenicol (rlmN). In contrast, at D. - 3-D.3, a high abundance of determinants with aminoglycoside (AMG) (sat, aac(6')-aph(2''), aadA and acrF), β-lactam (fus-1, cepA and mrdA), multidrug resistance (MDR) (gadW, mdtE, emrA, evgS, tolC and mdtB), phenicol (catB4 and cmlA4), and sulfonamide patterns (sul3) was observed. Canonical correlation analysis (CCA) plot associated Escherichia coli with aac(6')-aph(2''), emrA, mdtB, catB4 and cmlA4 at D. - 3, D.0 and/or D.3 whereas at D.8 associations between Prevotella and mefA, cfxA6 and aci1 were identified. The weaning age and diet factor played an important role in the microbial community composition. Ministry of Education (MOE) National Research Foundation (NRF) Published version We would like to sincerely thank Drs. Phet Nantavisai, Sakolapa Chiarasumran, Yamuna Patthong, Arisa Tatongjai and Luksamee Yimpanfai from Tai Food Swine International Co., Ltd., Asst Prof. Drs. Nutthee Am-in, Komkrich Tienkum and Pattarat Chanchaithong, Drs. Panumas Kongpanna, Sirinun Pisamai, Sekkarin Ploypetch and Weejarin Paphussaro, and Mr. Ratchanont Viriyakitkosol from Faculty of Veterinary Science, Chulalongkorn University, for their generous supports and sample collection. We thank Daniela Drautz-Moses and staf at the SCELSE sequencing core facility for performing library preparation and Illumina sequencing. Tis study was supported by Tai Food Swine International Co., Ltd., the National University of Singapore Start-Up Grant and in part by the Singapore National Research Foundation and the Ministry of Education under the Research Centre of Excellence Programme. 2021-12-29T03:17:06Z 2021-12-29T03:17:06Z 2021 Journal Article Suriyaphol, P., Chiu, J. K. H., Yimpring, N., Tunsagool, P., Mhuantong, W., Chuanchuen, R., Bessarab, I., Williams, R. B. H., Ong, R. T. & Suriyaphol, G. (2021). Dynamics of the fecal microbiome and antimicrobial resistome in commercial piglets during the weaning period. Scientific Reports, 11(1), 18091-. https://dx.doi.org/10.1038/s41598-021-97586-9 2045-2322 https://hdl.handle.net/10356/153800 10.1038/s41598-021-97586-9 34508122 2-s2.0-85114892607 1 11 18091 en Scientific Reports © 2021 The Author(s). This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. application/pdf |