William Calero‐Cáceres

wcaleroc/nanopore-salmonella-basecalling: Initial reproducible workflow

William Calero‐Cáceres

Initial release of the computational workflow used to evaluate Oxford Nanopore basecalling strategies and their effects on read quality, genome assembly and downstream genomic characterization of Salmonella isolates. The repository contains the scripts used for basecalling, read quality assessment, assembly, assembly quality …

ec (code pays fourni par la source)

wcaleroc/nanopore-salmonella-basecalling: Initial reproducible workflow

William Calero‐Cáceres

Initial release of the computational workflow used to evaluate Oxford Nanopore basecalling strategies and their effects on read quality, genome assembly and downstream genomic characterization of Salmonella isolates. The repository contains the scripts used for basecalling, read quality assessment, assembly, assembly quality …

ec (code pays fourni par la source)

Editorial: Phage-based interventions in livestock: from genomics to translational applications

Sonia Zapata, Christian Vinueza-Burgos, William Calero‐Cáceres

Animal production systems are simultaneously essential to global food security; however, the extensive use of antimicrobials in these systems has significantly contributed to the emergence and spread of antimicrobial resistance (AMR) (Clifford Astbury et al., 2025;Stehling et al., 2023). Food-producing animals account …

ec (code pays fourni par la source)

Editorial: Integrative microbial and chemical genomics to decipher antibiotic resistance mechanisms and developing innovative antimicrobial approaches

William Calero‐Cáceres, Bimal Jana, João Pedro Rueda Furlan, Juan C. Ortiz-Marquez

Antimicrobial resistance (AMR) continues to erode the antibiotic arsenal that has underpinned modern medicine for eight decades (Ho et al., 2025;Patra et al., 2025;Abdallah et al., 2026). Multidrug-resistant pathogens are spreading across human medicine, veterinary practice, agriculture, and aquaculture faster than new …

ec, us, br (code pays fourni par la source)

Methodological bias shapes the interpretation of the urinary microbiome in low-biomass systems

Viviana Méndez-Sacta, Solmayra Agreda Orellana, Luz María Ayavaca-Tapia, Yomaira Yolanda Gutiérrez León et autres

The recognition of the urinary microbiome (urobiome) has challenged the long-standing paradigm of urinary tract sterility, revealing diverse microbial communities associated with both urinary health and disease. However, the characterization of the urobiome remains highly variable across studies, particularly due to the …

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Author Correction: Geographics and bacterial networks differently shape the acquired and latent global sewage resistomes

Hannah-Marie Martiny, Patrick Munk, Alessandro Fuschi, Ágnes Becsei et autres

In this article, the Global Sewage Consortium member Julián Osvaldo Ovis-Sánchez was incorrectly written as Julian Osvaldo Sanchez-Lara. The original article has been updated.

dk, it, hu, se, nl, Algérie, au, at, bh, bd, bb, Bénin, bo, ba, Botswana, br, Cameroun, ca, cl, cn, co, Maroc, cr, hr, cz, Côte d’Ivoire, ec, Égypte, fi, fr, de, Ghana, gr, gl, is, in, ir, iq, ie, il, lv, lb, lu, Madagascar, Malawi, my, mt, Maurice, mx, me, np, nz, Nigéria (code pays fourni par la source)

Ultra-processed foods and nutrition governance in Ecuador as a public health challenge

Johanna Mora-Domínguez, Doménica P. Palacios-Mora, William Calero‐Cáceres

In their Comment in The Lancet Regional Health – Americas, Neves and colleagues present a compelling analysis of Brazil's constitutional health tax reform and its subsequent dilution through corporate interference and legislative maneuvers.1 As they rightly note, ultra-processed foods (UPFs) constitute a …

ec (code pays fourni par la source)

Geographics and bacterial networks differently shape the acquired and latent global sewage resistomes

Hannah-Marie Martiny, Patrick Munk, Alessandro Fuschi, Ágnes Becsei et autres

Antimicrobial resistance genes (ARGs) have rapidly emerged and spread globally, but the pathways driving their spread remain poorly understood. We analyzed 1240 sewage samples from 351 cities across 111 countries, comparing ARGs known to be mobilized with those identified through functional metagenomics …

dk, it, hu, Algérie, se, au, nl, at, bh, bd, bb, Bénin, bo, ba, Botswana, br, Cameroun, ca, cl, cn, co, Maroc, cr, hr, cz, Côte d’Ivoire, ec, Égypte, fi, fr, de, Ghana, gr, gl, is, in, ir, iq, ie, il, lv, lb, lu, Madagascar, Malawi, my, mt, Maurice, mx, me, np, nz, Nigéria (code pays fourni par la source)

Addressing methodological bias in phageome research to clarify bacteriophage diversity

Johanna Mora-Domínguez, William Calero‐Cáceres

Addressing methodological bias in phageome research to clarify bacteriophage diversityWe declare no competing interests.

ec (code pays fourni par la source)

Progress in phage therapy in response to antimicrobial resistance

William Calero‐Cáceres, José Luís Balcázar

ec, es (code pays fourni par la source)

Beyond clinical genomics: addressing critical gaps in One Health AMR surveillance

Diana Vallejo-Espín, Jael Galarza-Mayorga, Liliana Lalaleo, William Calero‐Cáceres

Antimicrobial resistance (AMR) poses an escalating global threat that demands comprehensive surveillance approaches beyond traditional clinical contexts. Although next-generation sequencing (NGS), particularly whole-genome sequencing (WGS), has revolutionized AMR surveillance, current implementation predominantly targets clinical isolates, largely neglecting critical environmental and animal reservoirs. …

ec (code pays fourni par la source)

A case for global standardisation of genomics and wastewater-based epidemiology

Noemí Cajas-Corrales, Diana Vallejo-Espín, William Calero‐Cáceres

ec (code pays fourni par la source)