{
  "abstract": "Acetate is an attractive renewable two‐carbon substrate for microbial biotechnology, but toxicity limits growth and carbon‐use efficiency at process‐relevant concentrations. Here, we used adaptive laboratory evolution to improve acetate tolerance in a genome‐reduced strain of Pseudomonas putida and combined whole‐genome sequencing, quantitative physiology, reverse engineering, transcriptomics, proteomics and 13C‐acetate fluxomics to resolve the underlying adaptation mechanisms. Evolution under increasing acetate concentrations selected recurrent mutations in gacA and fabB, which encode a global response regulator and a fatty acid biosynthesis enzyme, respectively. Reverse engineering of these mutations recapitulated most of the evolved phenotype, including shorter lag phase and substantially higher biomass yield from acetate. Multi‐omic analyses showed repression of type VI secretion systems, carbohydrate storage functions, fatty acid metabolism and oxidative stress‐associated proteins, indicating resource reallocation away from costly stress and non‐essential programs. Fluxomics further revealed reduced carbon cycling and increased glyoxylate shunt flux, consistent with improved acetate‐carbon retention in biomass. These results establish acetate tolerance in P. putida as a resource‐efficiency phenotype and identify gacA and fabB as actionable targets for acetate‐based bioproduction.",
  "abstract_shown": true,
  "affiliations": [
    "BRiGHT, Technical University of Denmark Kgs. Lyngby Denmark",
    "Joint BioEnergy Institute Emeryville California USA",
    "Biological Systems and Engineering Division Lawrence Berkeley National Laboratory Berkeley California USA",
    "Institute of Applied Microbiology RWTH Aachen University Aachen Germany",
    "U.S. Department of Energy Joint Genome Institute Berkeley California USA",
    "Systems Biotechnology, Technical Faculty Bielefeld University Bielefeld Germany",
    "WSS Research Centre “CatalAix” Aachen Germany",
    "Department of Bioengineering University of California San Diego La Jolla California USA",
    "Environmental Genomics and Systems Biology Division Lawrence Berkeley National Laboratory Berkeley California USA"
  ],
  "article_type": "research article",
  "arxiv": null,
  "author_total": 19,
  "authors": [
    {
      "affs": [
        0
      ],
      "name": "Nicolás Gurdo",
      "orcid": "0000-0002-1354-0626"
    },
    {
      "affs": [
        1,
        2
      ],
      "name": "Aparajitha Srinivasan",
      "orcid": "0000-0002-3511-5014"
    },
    {
      "affs": [
        0
      ],
      "name": "Tommaso Tagliani",
      "orcid": "0009-0009-6299-2344"
    },
    {
      "affs": [
        3
      ],
      "name": "Melanie Filbig",
      "orcid": "0009-0009-3025-8807"
    },
    {
      "affs": [
        0
      ],
      "name": "Nicolas T. Wirth",
      "orcid": "0000-0003-0799-1321"
    },
    {
      "affs": [
        0
      ],
      "name": "Josefin Johnsen",
      "orcid": "0000-0002-1741-052X"
    },
    {
      "affs": [
        0
      ],
      "name": "Garret W. O'Connell",
      "orcid": "0000-0002-9679-1868"
    },
    {
      "affs": [
        0
      ],
      "name": "Stefano Donati",
      "orcid": "0000-0001-9946-0346"
    },
    {
      "affs": [
        0
      ],
      "name": "Enrico Orsi",
      "orcid": "0000-0002-4741-0344"
    },
    {
      "affs": [
        0
      ],
      "name": "María V. G. Alván‐Vargas",
      "orcid": "0000-0003-2619-458X"
    },
    {
      "affs": [
        1,
        2
      ],
      "name": "Yan Chen",
      "orcid": "0000-0002-1125-313X"
    },
    {
      "affs": [
        1,
        2
      ],
      "name": "Christopher J. Petzold",
      "orcid": "0000-0002-8270-5228"
    },
    {
      "affs": [
        4
      ],
      "name": "Matthew Blow",
      "orcid": "0000-0002-8844-9149"
    },
    {
      "affs": [
        1,
        2
      ],
      "name": "Thomas Eng",
      "orcid": "0000-0002-4974-3863"
    },
    {
      "affs": [
        3,
        5
      ],
      "name": "Till Tiso",
      "orcid": "0000-0003-4420-5609"
    },
    {
      "affs": [
        3,
        6
      ],
      "name": "Lars M. Blank",
      "orcid": "0000-0003-0961-4976"
    },
    {
      "affs": [
        0,
        1,
        7
      ],
      "name": "Adam Feist",
      "orcid": "0000-0002-8630-4800"
    },
    {
      "affs": [
        1,
        2,
        8
      ],
      "name": "Aindrila Mukhopadhyay",
      "orcid": "0000-0002-6513-7425"
    },
    {
      "affs": [
        0
      ],
      "name": "Pablo I. Nikel",
      "orcid": "0000-0002-9313-7481"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/bbf7rr943cty5.bib",
  "cited_by": 0,
  "doi": "10.1111/1751-7915.70459",
  "fulltext_url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC13698654/",
  "id": "bbf7rr943cty5",
  "issns": [
    "1751-7915"
  ],
  "landing_url": "https://doi.org/10.1111/1751-7915.70459",
  "language": "en",
  "licence": "CC-BY-NC-ND-4.0",
  "licence_label": "CC BY-NC-ND 4.0",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by-nc-nd/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "heading",
      "Research Article"
    ],
    [
      "openalex",
      "1312|Microbial Metabolic Engineering and Bioproduction"
    ]
  ],
  "openalex": "W7223651287",
  "pdf_url": "https://europepmc.org/articles/PMC13698654?pdf=render",
  "pmcid": "PMC13698654",
  "pmid": "42929247",
  "published": "2026-10-01",
  "publisher": "Wiley",
  "ris": "https://research.draconitic.com/paper/bbf7rr943cty5.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:19:30Z",
      "native_id": "PMC13698654",
      "source": "pmc",
      "url": "https://doi.org/10.1111/1751-7915.70459"
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    {
      "first_seen": "2026-10-30T12:22:01Z",
      "native_id": "MED:42929247",
      "source": "europepmc",
      "url": "https://europepmc.org/article/MED/42929247"
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  ],
  "subjects": [
    {
      "field": "biochemistry",
      "origin": "openalex:1312|Microbial Metabolic Engineering and Bioproduction",
      "subfield": "molecular-biology"
    }
  ],
  "title": "Adaptive Laboratory Evolution Rewires Pseudomonas putida for Resource‐Efficient Acetate Assimilation",
  "title_text": "Adaptive Laboratory Evolution Rewires Pseudomonas putida for Resource‐Efficient Acetate Assimilation",
  "type": "peer-reviewed",
  "updated_at": "2026-10-30T12:35:29Z",
  "url": "https://research.draconitic.com/paper/bbf7rr943cty5",
  "venue": "Microbial Biotechnology",
  "versions": []
}