Revealing oxidative pentose metabolism in new Pseudomonas putida isolates

Park, Mee‐Rye; Gauttam, Rahul; Fong, Bonnie; Chen, Yan; Lim, Hyun Gyu; Feist, Adam M.; Mukhopadhyay, Aindrila; Petzold, Christopher J.; Simmons, Blake A.; Singer, Steven W.

doi:10.1111/1462-2920.16296

Title: Revealing oxidative pentose metabolism in new Pseudomonas putida isolates

Journal Article · Sun Dec 11 00:00:00 EST 2022 · Environmental Microbiology

DOI:https://doi.org/10.1111/1462-2920.16296· OSTI ID:1903073

Park, Mee‐Rye ^[1]; Gauttam, Rahul ^[1]; Fong, Bonnie ^[1]; Chen, Yan ^[1];

^[2]; Feist, Adam M. ^[2]; Mukhopadhyay, Aindrila ^[1]; Petzold, Christopher J. ^[1]; Simmons, Blake A. ^[1];

^[1]

Joint BioEnergy Institute Emeryville California USA, Biological Systems and Engineering Division Lawrence Berkeley National Laboratory Berkeley California USA
Joint BioEnergy Institute Emeryville California USA, Department of Bioengineering University of California San Diego La Jolla California USA

Abstract The Pseudomonas putida group in the Gammaproteobacteria has been intensively studied for bioremediation and plant growth promotion. Members of this group have recently emerged as promising hosts to convert intermediates derived from plant biomass to biofuels and biochemicals. However, most strains of P. putida cannot metabolize pentose sugars derived from hemicellulose. Here, we describe three isolates that provide a broader view of the pentose sugar catabolism in the P. putida group. One of these isolates clusters with the well‐characterized P. alloputida KT2440 (Strain BP6); the second isolate clustered with plant growth‐promoting strain P. putida W619 (Strain M2), while the third isolate represents a new species in the group (Strain BP8). Each of these isolates possessed homologous genes for oxidative xylose catabolism ( xylDXA ) and a potential xylonate transporter. Strain M2 grew on arabinose and had genes for oxidative arabinose catabolism ( araDXA ). A CRISPR interference (CRISPRi) system was developed for strain M2 and identified conditionally essential genes for xylose growth. A glucose dehydrogenase was found to be responsible for initial oxidation of xylose and arabinose in strain M2. These isolates have illuminated inherent diversity in pentose catabolism in the P. putida group and may provide alternative hosts for biomass conversion.

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Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: DE‐AC02‐05CH11231; AC02-05CH11231

OSTI ID:: 1903073

Alternate ID(s):: OSTI ID: 1903077; OSTI ID: 1958756

Journal Information:: Environmental Microbiology, Journal Name: Environmental Microbiology Vol. 25 Journal Issue: 2; ISSN 1462-2912

Publisher:: Wiley-BlackwellCopyright Statement

Country of Publication:: United Kingdom

Language:: English

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