Dataset Information

Revealing Pentose Catabolism in Pseudomonas putida

ABSTRACT: Pseudomonas alloputida KT2440 (previously misclassified as P. putida KT2440 based on 16S rRNA gene homology) has emerged as an ideal host strain for plan t biomass valorization. However, P. alloputida KT2440 is unable to natively utilize abundant pentose sugars (e.g., xylose and arabinose) in hydrolysate streams, which may account for up to 25% of lignocellulosic biomass. In the last decades, microbes have been engineered to utilize the pentose sugars. However, most of the engineered strains were either slow-growing or displayed phenotypes that could not be replicated. In this work, we successfully isolated five Pseudomonas species with the native capability to utilize glucose, xylose and p-coumarate as a sole carbon source. These isolates were in two clusters; one set of isolates (M2 and M5) and the second set of isolates (BP6 and BP7) showed 85.6% and 96.2% ANI, respectively, to P. alloputida KT24440. BP8 showed 84.6% ANI to P. putida KT2440 and does not belong to any neighboring type strains indicating a new species. Notably, the isolates showed robust growth solely on xylose and higher growth rates (m, 0.36-0.49 h-1) when compared to only known xylose-utilizing Pseudomonas taiwanenesis VLB120 (m, 0.28 h-1) as a control. Unexpectedly, among five isolates, M2 and M5 grew solely on arabinose as well. Comprehensive analysis of genomics, transcriptomics and proteomics revealed the isolates utilize xylose and arabinose via Weimberg pathway (xylD-xylX-xylA) and oxidative pathway (araD-araX-araA), respectively. Furthermore, a preliminary result demonstrated the production of flaviolin solely on xylose and arabinose in the isolate, showing noteworthy potential to be an alternative host for lignocellulosic feedstocks into valuable products. This is the first report on isolating Pseudomonas strains natively capable of utilizing all of the major carbon sources in lignocellulosic biomass, and leading to higher consumption of available substrates and therefore maximizing the product yield.

INSTRUMENT(S): Orbitrap Exploris 480

ORGANISM(S): Pseudomonas Putida

SUBMITTER: Christopher Petzold

LAB HEAD: Christopher Petzold

PROVIDER: PXD031549 | Pride | 2023-05-10

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	BP6-glucose-R1.raw	Raw
	BP6-glucose-R1__F020945_.mzid.gz	Mzid
	BP6-glucose-R1__F020945_.mzid_BP6-glucose-R1__F020945_.MGF	Mzid
	BP6-glucose-R2.raw	Raw
	BP6-glucose-R2__F020946_.mzid.gz	Mzid

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Publications

Revealing oxidative pentose metabolism in new Pseudomonas putida isolates.

Park Mee-Rye MR Gauttam Rahul R Fong Bonnie B Chen Yan Y Lim Hyun Gyu HG Feist Adam M AM Mukhopadhyay Aindrila A Petzold Christopher J CJ Simmons Blake A BA Singer Steven W SW

Environmental microbiology 20221211 2

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 the ...[more]

PMID: 36465038

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