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Muconic acid production from glucose and xylose in Pseudomonas putida via evolution and metabolic engineering

Author

Listed:
  • Chen Ling

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory
    Agile BioFoundry)

  • George L. Peabody

    (Agile BioFoundry
    Biosciences Division, Oak Ridge National Laboratory)

  • Davinia Salvachúa

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory
    Agile BioFoundry)

  • Young-Mo Kim

    (Agile BioFoundry
    Pacific Northwest National Laboratory)

  • Colin M. Kneucker

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory
    Agile BioFoundry)

  • Christopher H. Calvey

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory)

  • Michela A. Monninger

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory
    Agile BioFoundry)

  • Nathalie Munoz Munoz

    (Agile BioFoundry
    Pacific Northwest National Laboratory)

  • Brenton C. Poirier

    (Agile BioFoundry
    Pacific Northwest National Laboratory)

  • Kelsey J. Ramirez

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory
    Agile BioFoundry)

  • Peter C. John

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory
    Agile BioFoundry)

  • Sean P. Woodworth

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory
    Agile BioFoundry)

  • Jon K. Magnuson

    (Agile BioFoundry
    Pacific Northwest National Laboratory)

  • Kristin E. Burnum-Johnson

    (Agile BioFoundry
    Pacific Northwest National Laboratory)

  • Adam M. Guss

    (Agile BioFoundry
    Biosciences Division, Oak Ridge National Laboratory)

  • Christopher W. Johnson

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory
    Agile BioFoundry)

  • Gregg T. Beckham

    (Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory
    Agile BioFoundry)

Abstract

Muconic acid is a bioprivileged molecule that can be converted into direct replacement chemicals for incumbent petrochemicals and performance-advantaged bioproducts. In this study, Pseudomonas putida KT2440 is engineered to convert glucose and xylose, the primary carbohydrates in lignocellulosic hydrolysates, to muconic acid using a model-guided strategy to maximize the theoretical yield. Using adaptive laboratory evolution (ALE) and metabolic engineering in a strain engineered to express the D-xylose isomerase pathway, we demonstrate that mutations in the heterologous D-xylose:H+ symporter (XylE), increased expression of a major facilitator superfamily transporter (PP_2569), and overexpression of aroB encoding the native 3-dehydroquinate synthase, enable efficient muconic acid production from glucose and xylose simultaneously. Using the rationally engineered strain, we produce 33.7 g L−1 muconate at 0.18 g L−1 h−1 and a 46% molar yield (92% of the maximum theoretical yield). This engineering strategy is promising for the production of other shikimate pathway-derived compounds from lignocellulosic sugars.

Suggested Citation

  • Chen Ling & George L. Peabody & Davinia Salvachúa & Young-Mo Kim & Colin M. Kneucker & Christopher H. Calvey & Michela A. Monninger & Nathalie Munoz Munoz & Brenton C. Poirier & Kelsey J. Ramirez & Pe, 2022. "Muconic acid production from glucose and xylose in Pseudomonas putida via evolution and metabolic engineering," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
  • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-32296-y
    DOI: 10.1038/s41467-022-32296-y
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    References listed on IDEAS

    as
    1. Linfeng Sun & Xin Zeng & Chuangye Yan & Xiuyun Sun & Xinqi Gong & Yu Rao & Nieng Yan, 2012. "Crystal structure of a bacterial homologue of glucose transporters GLUT1–4," Nature, Nature, vol. 490(7420), pages 361-366, October.
    2. Ryosuke Fujiwara & Shuhei Noda & Tsutomu Tanaka & Akihiko Kondo, 2020. "Publisher Correction: Metabolic engineering of Escherichia coli for shikimate pathway derivative production from glucose-xylose co-substrate," Nature Communications, Nature, vol. 11(1), pages 1-1, December.
    3. Ryosuke Fujiwara & Shuhei Noda & Tsutomu Tanaka & Akihiko Kondo, 2020. "Metabolic engineering of Escherichia coli for shikimate pathway derivative production from glucose–xylose co-substrate," Nature Communications, Nature, vol. 11(1), pages 1-12, December.
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    1. Michael E. Pyne & James A. Bagley & Lauren Narcross & Kaspar Kevvai & Kealan Exley & Meghan Davies & Qingzhao Wang & Malcolm Whiteway & Vincent J. J. Martin, 2023. "Screening non-conventional yeasts for acid tolerance and engineering Pichia occidentalis for production of muconic acid," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
    2. Charlotte Cautereels & Jolien Smets & Peter Bircham & Dries De Ruysscher & Anna Zimmermann & Peter De Rijk & Jan Steensels & Anton Gorkovskiy & Joleen Masschelein & Kevin J. Verstrepen, 2024. "Combinatorial optimization of gene expression through recombinase-mediated promoter and terminator shuffling in yeast," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    3. Pavel Dvořák & Barbora Burýšková & Barbora Popelářová & Birgitta E. Ebert & Tibor Botka & Dalimil Bujdoš & Alberto Sánchez-Pascuala & Hannah Schöttler & Heiko Hayen & Víctor Lorenzo & Lars M. Blank & , 2024. "Synthetically-primed adaptation of Pseudomonas putida to a non-native substrate D-xylose," Nature Communications, Nature, vol. 15(1), pages 1-18, December.

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