Relation between lignin molecular profile and fungal exo-proteome during kraft lignin modification by Trametes hirsuta LE-BIN 072

Moiseenko, Konstantin V.; Glazunova, Olga A.; Savinova, Оlga S.; Vasina, Daria V.; Zherebker, Alexander; Куликова, Н. А.; Nikolaev, Evgeny N.; Федорова, Т.В.

doi:10.1016/j.biortech.2021.125229

Cited by 17 publications

(22 citation statements)

References 48 publications

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“…The exoproteome extraction, sample preparations, two-dimensional gel electrophoresis (2-DE), MALDI-TOF/TOF MS/MS analysis, and data processing were performed as previously described in [ 45 ]. Briefly, the procedure was as follows: (1) samples of mycelium-free cultural broth were filtered (0.45 µm membrane filter) and desalted–concentrated on a Labscale TTF system using the Biomax 5 membrane (Millipore, Burlington, MA, USA); (2) the proteins were precipitated by an equal volume of ice-cold solution of 13.3 mL of TCA and 93 µL of β-mercaptoethanol in 100 mL of acetone; (3) 2-DE was performed on a Protean II xi 2-D Cell system (Bio-Rad, Hercules, CA, USA).…”

Section: Methodsmentioning

confidence: 99%

Comparative Analysis of Peniophora lycii and Trametes hirsuta Exoproteomes Demonstrates “Shades of Gray” in the Concept of White-Rotting Fungi

Shabaev

Moiseenko

Glazunova

et al. 2022

IJMS

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White-rot basidiomycete fungi are a unique group of organisms that evolved an unprecedented arsenal of extracellular enzymes for an efficient degradation of all components of wood such as cellulose, hemicelluloses and lignin. The exoproteomes of white-rot fungi represent a natural enzymatic toolbox for white biotechnology. Currently, only exoproteomes of a narrow taxonomic group of white-rot fungi—fungi belonging to the Polyporales order—are extensively studied. In this article, two white-rot fungi, Peniophora lycii LE-BIN 2142 from the Russulales order and Trametes hirsuta LE-BIN 072 from the Polyporales order, were compared and contrasted in terms of their enzymatic machinery used for degradation of different types of wood substrates—alder, birch and pine sawdust. Our findings suggested that the studied fungi use extremely different enzymatic systems for the degradation of carbohydrates and lignin. While T. hirsuta LE-BIN 072 behaved as a typical white-rot fungus, P. lycii LE-BIN 2142 demonstrated substantial peculiarities. Instead of using cellulolytic and hemicellulolytic hydrolytic enzymes, P. lycii LE-BIN 2142 primarily relies on oxidative polysaccharide-degrading enzymes such as LPMO and GMC oxidoreductase. Moreover, exoproteomes of P. lycii LE-BIN 2142 completely lacked ligninolytic peroxidases, a well-known marker of white-rot fungi, but instead contained several laccase isozymes and previously uncharacterized FAD-binding domain-containing proteins.

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Section: Methodsmentioning

confidence: 99%

Comparative Analysis of Peniophora lycii and Trametes hirsuta Exoproteomes Demonstrates “Shades of Gray” in the Concept of White-Rotting Fungi

Shabaev

Moiseenko

Glazunova

et al. 2022

IJMS

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“…After 24 h of cultivation, bacterial cells were separated from the culture liquid by centrifugation at 8000× g for 40 min at 4 • C. The cultural liquids from the parallel cultivations were pulled together. All the following procedures were performed as described in [62]. In short, proteins were precipitated and separated by both mass and isoelectric point on two-dimensional (2D) gel.…”

Section: Exoproteomics Studymentioning

confidence: 99%

Exoproteome Analysis of Antagonistic Interactions between the Probiotic Bacteria Limosilactobacillus reuteri LR1 and Lacticaseibacillus rhamnosus F and Multidrug Resistant Strain of Klebsiella pneumonia

Savinova

Glazunova

Moiseenko

et al. 2021

IJMS

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The expansion of multiple drug resistant (MDR) strains of Klebsiella pneumoniae presents an immense threat for public health. Annually, this microorganism causes thousands of lethal nosocomial infections worldwide. Currently, it has been shown that certain strains of lactic acid bacteria (LAB) can efficiently inhibit growth of K. pneumoniae and the formation of its biofilms; however, the active principle of such action remains unknown. In the current article, the growth inhibition of MDR K. pneumoniae by two LAB—Limosilactobacillus reuteri LR1 and Lacticaseibacillus rhamnosus F—is demonstrated, and the nature of this inhibition studied at the level of exoproteome. This article shows that the exoproteomes of studied LAB contains both classically and non-classically secreted proteins. While for L. reuteri LR1 the substantial portion of classically secreted proteins was presented by cell-wall-degrading enzymes, for L. rhamnosus F only one out of four classically secreted proteins was presented by cell-wall hydrolase. Non-classically secreted proteins of both LAB were primarily metabolic enzymes, for some of which a possible moonlighting functioning was proposed. These results contribute to knowledge regarding antagonistic interaction between LAB and pathogenic and opportunistic microorganisms and set new perspectives for the use of LAB to control the spread of these microorganisms.

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“…FT-ICR MS enables the detection of thousands of ions concurrently with a very high mass resolution and accuracy, allowing for the assignment of elemental formulae of individual compounds in extremely diverse and complex mixtures. To date most high-resolution MS studies of lignin have focused on method development [45][46][47][48] , broad analysis of lignin samples 29,49,50 , the physiochemical degradation of lignin 43,44,47,51 or the analysis of small model compounds which are unrepresentative of complex industrial lignins 28,52 . FT-ICR MS has been applied in only a handful of lignin degradation studies often analysing the fungal degradation of lignin or wood 42,50,53,54 .…”

Section: Introductionmentioning

confidence: 99%

Tracking the Chemical Diversity of Enzymatically Oxidised Lignin.

Towle

Cruickshank

Mackay

et al. 2023

Preprint

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Lignin is a complex heteroaromatic polymer which is one of the most abundant and diverse biopolymers on the planet. It comprises approximately one third of all woody plant matter, making it an attractive candidate as an alternative, renewable feedstock to petrochemicals to produce fine chemicals. However, the inherent complexity of lignin makes it difficult to analyse and characterise using common analytical techniques, proving a hindrance to the utilisation of lignin as a green chemical feedstock. Herein we outline the comprehensive tracking of lignin degradation by an alkaliphilic laccase in a semi-quantitative manner using a combined chemical analysis approach utilising Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) to characterise shifts in chemical diversity and relative abundance of ions, and NMR to highlight changes in the structure of lignin. Specifically, an alkaliphilic laccase was used to degrade an industrially relevant lignin, with compounds such as syringaresinol being almost wholly removed (95%) after 24 hours of treatment. Additionally, structural analyses reinforced these findings, indicating a >50% loss of signal relating to β-β linkages, of which syringaresinol is representative. Ultimately, this work underlines a combined analytical approach that can be used to gain a broader semi-quantitative understanding of the enzymatic activity of laccases within a complex, non-model mixture.

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Relation between lignin molecular profile and fungal exo-proteome during kraft lignin modification by Trametes hirsuta LE-BIN 072

Cited by 17 publications

References 48 publications

Comparative Analysis of Peniophora lycii and Trametes hirsuta Exoproteomes Demonstrates “Shades of Gray” in the Concept of White-Rotting Fungi

Comparative Analysis of Peniophora lycii and Trametes hirsuta Exoproteomes Demonstrates “Shades of Gray” in the Concept of White-Rotting Fungi

Exoproteome Analysis of Antagonistic Interactions between the Probiotic Bacteria Limosilactobacillus reuteri LR1 and Lacticaseibacillus rhamnosus F and Multidrug Resistant Strain of Klebsiella pneumonia

Tracking the Chemical Diversity of Enzymatically Oxidised Lignin.

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