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Assessment and tracking of antimicrobial resistance in Escherichia coli as a one health perspective.

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Τίτλος: Assessment and tracking of antimicrobial resistance in Escherichia coli as a one health perspective.
Συγγραφείς: Chavan M; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India.; Institute of Science, Nirma University, Ahmedabad, India., Bramhe C; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Sangani K; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Patel N; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Chavda P; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Satyavolu V; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Patidar V; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Baghatharia S; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Shekh S; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Joshi M; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Sabara P; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Chatterjee S; Institute of Science, Nirma University, Ahmedabad, India., Joshi C; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India., Patel A; Gujarat Biotechnology Research Centre (GBRC), Gandhinagar, 382011, India. jd2@gbrc.res.in.
Πηγή: World journal of microbiology & biotechnology [World J Microbiol Biotechnol] 2026 Sep 02; Vol. 42 (9). Date of Electronic Publication: 2026 Sep 02.
Τύπος έκδοσης: Journal Article
Γλώσσα: English
Στοιχεία περιοδικού: Publisher: Springer Country of Publication: Germany NLM ID: 9012472 Publication Model: Electronic Cited Medium: Internet ISSN: 1573-0972 (Electronic) Linking ISSN: 09593993 NLM ISO Abbreviation: World J Microbiol Biotechnol Subsets: MEDLINE
Imprint Name(s): Publication: 2005- : Berlin : Springer
Original Publication: Oxford, OX, UK : Published by Rapid Communications of Oxford Ltd in association with UNESCO and in collaboration with the International Union of Microbiological Societies, c1990-
Ιατρικοί όροι (MeSH): Escherichia coli*/genetics , Escherichia coli*/drug effects , Escherichia coli*/classification , Escherichia coli*/isolation & purification , Anti-Bacterial Agents*/pharmacology , Drug Resistance, Bacterial*/genetics , Escherichia coli Infections*/microbiology , Escherichia coli Infections*/veterinary , One Health*, Plasmids/genetics ; Gene Transfer, Horizontal ; Genome, Bacterial ; India ; Polymorphism, Single Nucleotide ; Humans ; Animals ; Phylogeny
Περίληψη: Genomics has emerged as a powerful tool for addressing the global scenario of antimicrobial resistance (AMR) in the world. The chances of strain circulation across diverse ecosystems has led us to understand the situation from one health point of view. The study examined 897 Escherichia coli genomes across healthcare (n = 615), veterinary and fisheries (n = 219), and environment (n = 63) from Gujarat, India, from 2022 to 2025. The genomes were characterized by sequence type (ST), serotype, and phylogroup analysis to identify the dominant clonal lineages. Furthermore, antibiotic resistance genes (ARGs) and plasmids were analyzed to understand the movement of horizontal gene transfer (HGT). The putative transmission events across sectors were identified using single-nucleotide polymorphisms (SNPs) with distance thresholds of 0, 1, 2, 5, 10, 20, and 50. We reported the presence of internationally reported dominant clonal lineage ST131-B2-O25:H4 across all settings. The healthcare isolates carried a heavy burden of ARGs than the environment and veterinary and fisheries sectors (median 9 vs. 5 vs. 1 gene per isolate), which is consistent with the use of clinical antimicrobial use exerting the dominant selective pressure in this dataset. Plasmid clustering identified 505 distinct clusters, of which 64 were detected across all three sectors, carrying acquired resistance genes namely mphA, sul1, blaCMY-59, qnrS1, and tetA on predominantly IncF (IA, IB, IC, II) replicons. Resistance genes and mobile genetic elements (IS3, IS5, and IS66) were classified by co-location confidence. Potential transmission events and co-circulation both within and across niches were indicated by overlapping clusters. Genomic clustering and mobility patterns of plasmids identified in the E. coli strains are consistent with the possible clonal and plasmid-mediated spread from healthcare to the veterinary and fisheries and the environment sectors. This study's convenience-based sampling and cross-sectoral design do not establish confirmed or directional transmission. These findings support a One Health framework for AMR surveillance, prioritizing biosecurity, antimicrobial stewardship, and infection prevention and control across sectors.
(© 2026. The Author(s), under exclusive licence to Springer Nature B.V.)
Competing Interests: Declarations. Ethics approval and consent to participate: Approval was obtained from the Institutional Biosafety Committee (IBSC) of Gujarat Biotechnology Research Centre (GBRC) to process bacterial isolates for subculturing, identification, biobanking and genome sequencing from healthcare, veterinary & fisheries and environment nodes. GBRC, as a biobanking, sequencing and bioinformatics node, was not involved in clinical sample collection and processing from humans and animals. Therefore, consent to participate is not applicable. As there were no human or animal samples involved, no accordance statement is required. (GUJA141120191006) Competing interests: The authors declare no competing interests.
References: Infect Drug Resist. 2022 Mar 16;15:1077-1091. (PMID: 35321080)
Genome Med. 2024 Dec 20;16(1):151. (PMID: 39707490)
Sci Rep. 2021 Nov 24;11(1):22859. (PMID: 34819576)
J Antimicrob Chemother. 2018 May 1;73(5):1121-1137. (PMID: 29370371)
Genome Res. 2017 Aug 1;27(8):1437-1449. (PMID: 28720578)
Antibiotics (Basel). 2022 Sep 29;11(10):. (PMID: 36289987)
Antimicrob Resist Infect Control. 2021 Mar 23;10(1):58. (PMID: 33757589)
Genome Res. 2015 Jul;25(7):1043-55. (PMID: 25977477)
Sci Rep. 2020 Jan 8;10(1):36. (PMID: 31913346)
J Dairy Sci. 2018 Jul;101(7):6244-6252. (PMID: 29605334)
J Family Med Prim Care. 2019 Jun;8(6):1828-1834. (PMID: 31334140)
Int J Hyg Environ Health. 2024 Aug;261:114423. (PMID: 39038407)
Sci Rep. 2025 Feb 21;15(1):6320. (PMID: 39984597)
Nat Rev Genet. 2024 Feb;25(2):142-157. (PMID: 37749210)
Lancet. 2024 Jun 1;403(10442):2439-2454. (PMID: 38797180)
Lancet Microbe. 2024 Aug;5(8):100850. (PMID: 38908389)
J Hazard Mater. 2025 Sep 15;496:139293. (PMID: 40684504)
PLOS Glob Public Health. 2023 Feb 1;3(2):e0001305. (PMID: 36963007)
J Antimicrob Chemother. 2019 Mar 1;74(3):561-570. (PMID: 30629197)
Vector Borne Zoonotic Dis. 2018 Aug;18(8):408-416. (PMID: 29927724)
Nat Commun. 2025 Sep 26;16(1):8455. (PMID: 41006256)
One Health. 2021 Jan 26;12:100220. (PMID: 33644290)
J Hosp Infect. 2021 Nov;117:186-187. (PMID: 34481891)
J Clin Microbiol. 2014 May;52(5):1501-10. (PMID: 24574290)
Antimicrob Resist Infect Control. 2025 Apr 07;14(1):27. (PMID: 40189595)
Nat Commun. 2025 Jan 2;16(1):17. (PMID: 39747833)
Wellcome Open Res. 2018 Sep 24;3:124. (PMID: 30345391)
PLoS One. 2024 May 24;19(5):e0301531. (PMID: 38787855)
One Health. 2024 Mar 23;18:100715. (PMID: 39010959)
Grant Information: GSBTM/RSS/e-file/30/2024/0021/05258544 Network Program on Antimicrobial Resistance, Superbugs and One Health
Contributed Indexing: Keywords: Escherichia coli; Antimicrobial Resistance; Horizontal Gene Transfer; One Health; Transmission dynamics
Substance Nomenclature: 0 (Anti-Bacterial Agents)
Entry Date(s): Date Created: 20260902 Date Completed: 20260902 Latest Revision: 20261008
Update Code: 20261008
DOI: 10.1007/s11274-026-05224-1
PMID: 42684534
Βάση Δεδομένων: MEDLINE
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  Data: Genomics has emerged as a powerful tool for addressing the global scenario of antimicrobial resistance (AMR) in the world. The chances of strain circulation across diverse ecosystems has led us to understand the situation from one health point of view. The study examined 897 Escherichia coli genomes across healthcare (n = 615), veterinary and fisheries (n = 219), and environment (n = 63) from Gujarat, India, from 2022 to 2025. The genomes were characterized by sequence type (ST), serotype, and phylogroup analysis to identify the dominant clonal lineages. Furthermore, antibiotic resistance genes (ARGs) and plasmids were analyzed to understand the movement of horizontal gene transfer (HGT). The putative transmission events across sectors were identified using single-nucleotide polymorphisms (SNPs) with distance thresholds of 0, 1, 2, 5, 10, 20, and 50. We reported the presence of internationally reported dominant clonal lineage ST131-B2-O25:H4 across all settings. The healthcare isolates carried a heavy burden of ARGs than the environment and veterinary and fisheries sectors (median 9 vs. 5 vs. 1 gene per isolate), which is consistent with the use of clinical antimicrobial use exerting the dominant selective pressure in this dataset. Plasmid clustering identified 505 distinct clusters, of which 64 were detected across all three sectors, carrying acquired resistance genes namely mphA, sul1, blaCMY-59, qnrS1, and tetA on predominantly IncF (IA, IB, IC, II) replicons. Resistance genes and mobile genetic elements (IS3, IS5, and IS66) were classified by co-location confidence. Potential transmission events and co-circulation both within and across niches were indicated by overlapping clusters. Genomic clustering and mobility patterns of plasmids identified in the E. coli strains are consistent with the possible clonal and plasmid-mediated spread from healthcare to the veterinary and fisheries and the environment sectors. This study's convenience-based sampling and cross-sectoral design do not establish confirmed or directional transmission. These findings support a One Health framework for AMR surveillance, prioritizing biosecurity, antimicrobial stewardship, and infection prevention and control across sectors.<br /> (© 2026. The Author(s), under exclusive licence to Springer Nature B.V.)
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  Data: Declarations. Ethics approval and consent to participate: Approval was obtained from the Institutional Biosafety Committee (IBSC) of Gujarat Biotechnology Research Centre (GBRC) to process bacterial isolates for subculturing, identification, biobanking and genome sequencing from healthcare, veterinary & fisheries and environment nodes. GBRC, as a biobanking, sequencing and bioinformatics node, was not involved in clinical sample collection and processing from humans and animals. Therefore, consent to participate is not applicable. As there were no human or animal samples involved, no accordance statement is required. (GUJA141120191006) Competing interests: The authors declare no competing interests.
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  Label: References
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  Data: Infect Drug Resist. 2022 Mar 16;15:1077-1091. (PMID: <searchLink fieldCode="PM" term="%2235321080%22">35321080)</searchLink><br />Genome Med. 2024 Dec 20;16(1):151. (PMID: <searchLink fieldCode="PM" term="%2239707490%22">39707490)</searchLink><br />Sci Rep. 2021 Nov 24;11(1):22859. (PMID: <searchLink fieldCode="PM" term="%2234819576%22">34819576)</searchLink><br />J Antimicrob Chemother. 2018 May 1;73(5):1121-1137. (PMID: <searchLink fieldCode="PM" term="%2229370371%22">29370371)</searchLink><br />Genome Res. 2017 Aug 1;27(8):1437-1449. (PMID: <searchLink fieldCode="PM" term="%2228720578%22">28720578)</searchLink><br />Antibiotics (Basel). 2022 Sep 29;11(10):. (PMID: <searchLink fieldCode="PM" term="%2236289987%22">36289987)</searchLink><br />Antimicrob Resist Infect Control. 2021 Mar 23;10(1):58. (PMID: <searchLink fieldCode="PM" term="%2233757589%22">33757589)</searchLink><br />Genome Res. 2015 Jul;25(7):1043-55. (PMID: <searchLink fieldCode="PM" term="%2225977477%22">25977477)</searchLink><br />Sci Rep. 2020 Jan 8;10(1):36. (PMID: <searchLink fieldCode="PM" term="%2231913346%22">31913346)</searchLink><br />J Dairy Sci. 2018 Jul;101(7):6244-6252. (PMID: <searchLink fieldCode="PM" term="%2229605334%22">29605334)</searchLink><br />J Family Med Prim Care. 2019 Jun;8(6):1828-1834. (PMID: <searchLink fieldCode="PM" term="%2231334140%22">31334140)</searchLink><br />Int J Hyg Environ Health. 2024 Aug;261:114423. (PMID: <searchLink fieldCode="PM" term="%2239038407%22">39038407)</searchLink><br />Sci Rep. 2025 Feb 21;15(1):6320. (PMID: <searchLink fieldCode="PM" term="%2239984597%22">39984597)</searchLink><br />Nat Rev Genet. 2024 Feb;25(2):142-157. (PMID: <searchLink fieldCode="PM" term="%2237749210%22">37749210)</searchLink><br />Lancet. 2024 Jun 1;403(10442):2439-2454. (PMID: <searchLink fieldCode="PM" term="%2238797180%22">38797180)</searchLink><br />Lancet Microbe. 2024 Aug;5(8):100850. (PMID: <searchLink fieldCode="PM" term="%2238908389%22">38908389)</searchLink><br />J Hazard Mater. 2025 Sep 15;496:139293. (PMID: <searchLink fieldCode="PM" term="%2240684504%22">40684504)</searchLink><br />PLOS Glob Public Health. 2023 Feb 1;3(2):e0001305. (PMID: <searchLink fieldCode="PM" term="%2236963007%22">36963007)</searchLink><br />J Antimicrob Chemother. 2019 Mar 1;74(3):561-570. (PMID: <searchLink fieldCode="PM" term="%2230629197%22">30629197)</searchLink><br />Vector Borne Zoonotic Dis. 2018 Aug;18(8):408-416. (PMID: <searchLink fieldCode="PM" term="%2229927724%22">29927724)</searchLink><br />Nat Commun. 2025 Sep 26;16(1):8455. (PMID: <searchLink fieldCode="PM" term="%2241006256%22">41006256)</searchLink><br />One Health. 2021 Jan 26;12:100220. (PMID: <searchLink fieldCode="PM" term="%2233644290%22">33644290)</searchLink><br />J Hosp Infect. 2021 Nov;117:186-187. (PMID: <searchLink fieldCode="PM" term="%2234481891%22">34481891)</searchLink><br />J Clin Microbiol. 2014 May;52(5):1501-10. (PMID: <searchLink fieldCode="PM" term="%2224574290%22">24574290)</searchLink><br />Antimicrob Resist Infect Control. 2025 Apr 07;14(1):27. (PMID: <searchLink fieldCode="PM" term="%2240189595%22">40189595)</searchLink><br />Nat Commun. 2025 Jan 2;16(1):17. (PMID: <searchLink fieldCode="PM" term="%2239747833%22">39747833)</searchLink><br />Wellcome Open Res. 2018 Sep 24;3:124. (PMID: <searchLink fieldCode="PM" term="%2230345391%22">30345391)</searchLink><br />PLoS One. 2024 May 24;19(5):e0301531. (PMID: <searchLink fieldCode="PM" term="%2238787855%22">38787855)</searchLink><br />One Health. 2024 Mar 23;18:100715. (PMID: <searchLink fieldCode="PM" term="%2239010959%22">39010959)</searchLink>
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          Name:
            NameFull: Shekh S
      – PersonEntity:
          Name:
            NameFull: Joshi M
      – PersonEntity:
          Name:
            NameFull: Sabara P
      – PersonEntity:
          Name:
            NameFull: Chatterjee S
      – PersonEntity:
          Name:
            NameFull: Joshi C
      – PersonEntity:
          Name:
            NameFull: Patel A
    IsPartOfRelationships:
      – BibEntity:
          Dates:
            – D: 02
              M: 09
              Text: 2026 Sep 02
              Type: published
              Y: 2026
          Identifiers:
            – Type: issn-electronic
              Value: 1573-0972
          Numbering:
            – Type: volume
              Value: 42
            – Type: issue
              Value: 9
          Titles:
            – TitleFull: World journal of microbiology & biotechnology
              Type: main
ResultId 1