{
  "abstract": "Antimicrobial resistance (AMR) poses a significant threat to public health. Rapid and accurate antimicrobial sensitivity testing is essential to guide effective treatment. Here, we present \"simplified 5PSeq\" (s5PSeq), a streamlined protocol for profiling 5′ monophosphorylated (5′P) mRNA degradation intermediates that reflect ribosome dynamics in vivo . By capturing antibiotic-induced, context-specific ribosome stalling events, s5PSeq provides a molecular proxy for bacterial growth inhibition—offering a molecular phenotypic readout without the need for culturing. s5PSeq reduces library preparation time to under 4 h and incorporates a novel rRNA blocking strategy. We demonstrated its clinical utility by identifying erythromycin-resistant and sensitive Clostridioides difficile clinical isolates. Combining s5PSeq with real-time nanopore sequencing enables fast AMR diagnosis with as few as 3,000 reads. In addition to simplifying the study of 5′P co-translational mRNA decay, our work suggests that utilizing information-rich phenotypic molecular readouts can significantly improve AMR diagnostics.",
  "abstract_shown": true,
  "affiliations": [],
  "article_type": null,
  "arxiv": null,
  "author_total": 9,
  "authors": [
    {
      "name": "Honglian Liu"
    },
    {
      "name": "Susanne Huch"
    },
    {
      "name": "Ryan Hull"
    },
    {
      "name": "Fabricio Romero Garcia"
    },
    {
      "name": "Lilit Nersisyan"
    },
    {
      "name": "Xiushan Yin"
    },
    {
      "name": "Wei-Hua Chen"
    },
    {
      "name": "Juan Du"
    },
    {
      "name": "Vicent Pelechano"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/0z5mq2d16d6qx.bib",
  "cited_by": 0,
  "doi": "10.1016/j.crmeth.2026.101327",
  "fulltext_url": null,
  "id": "0z5mq2d16d6qx",
  "issns": [
    "2667-2375",
    "2667-2375"
  ],
  "landing_url": "https://hal.science/hal-05780642v1",
  "language": "en",
  "licence": "CC-BY",
  "licence_label": "CC BY",
  "licence_source": "journal",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "hal",
      "0.sdv"
    ],
    [
      "openalex",
      "1308|Bacterial Identification and Susceptibility Testing"
    ]
  ],
  "openalex": "W7135019840",
  "pdf_url": null,
  "pmcid": null,
  "pmid": null,
  "published": "2026-10-06",
  "publisher": "Cell Press Elsevier",
  "ris": "https://research.draconitic.com/paper/0z5mq2d16d6qx.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:17:49Z",
      "native_id": "hal-05780642",
      "source": "hal",
      "url": "https://hal.science/hal-05780642v1"
    }
  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "journal-openalex:1312|Single-cell and spatial transcriptomics",
      "subfield": "molecular-biology"
    }
  ],
  "title": "A streamlined, nanopore-compatible 5PSeq protocol for rapid phenotypic antimicrobial sensitivity testing",
  "title_text": "A streamlined, nanopore-compatible 5PSeq protocol for rapid phenotypic antimicrobial sensitivity testing",
  "type": "peer-reviewed",
  "updated_at": "2026-10-30T12:17:49Z",
  "url": "https://research.draconitic.com/paper/0z5mq2d16d6qx",
  "venue": "Cell Reports Methods",
  "versions": []
}