Kluyveromyces marxianus as a microbial cell factory for lignocellulosic biomass valorisation

Baptista, Marlene; Domingues, Lucília

doi:10.1016/j.biotechadv.2022.108027

Cited by 37 publications

(15 citation statements)

References 145 publications

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“…If the ancestral niche for K. marxianus included plant substrates of this kind, the yeast could have specialized in rapid metabolism of free sugars, leaving the breakdown of lignocellulosic plant cell wall components to other fungal saprotrophs. Furthermore, in this scenario, we can envision that chemical stress resistance by K. marxianus arose in response to plant defense compounds in the decomposing material 46 ; metabolites and the capacity to make them can persist in plant tissues for days after abscission or harvest 47,48 . And some evidence for low pH deep in compost piles 49 suggests that this condition could also have shaped K. marxianus evolution.…”

Section: Discussionmentioning

confidence: 99%

Dissecting an ancient stress resistance trait syndrome in the compost yeastKluyveromyces marxianus

Christensen,

Duarte,

et al. 2023

Preprint

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In the search to understand how evolution builds new traits, ancient events are often the hardest to dissect. Species-unique traits pose a particular challenge for geneticists—cases in which a character arose long ago and, in the modern day, is conserved within a species, distinguishing it from reproductively isolated relatives. In this work, we have developed the budding yeast genusKluyveromycesas a model for mechanistic dissection of trait variation across species boundaries. Phenotypic profiling revealed robust heat and chemical-stress tolerance phenotypes that distinguished the compost yeastK. marxianusfrom the rest of the clade. We used culture-based, transcriptomic, and genetic approaches to characterize the metabolic requirements of theK. marxianustrait syndrome. We then generated a population-genomic resource forK. marxianusand harnessed it in molecular-evolution analyses, which found hundreds of housekeeping genes with evidence for adaptive protein variation unique to this species. Our data support a model in which, in the distant past,K. marxianusunderwent a vastly complex remodeling of its proteome to achieve stress resistance. Such a polygenic architecture, involving nucleotide-level allelic variation on a massive scale, is consistent with theoretical models of the mechanisms of long-term adaptation, and suggests principles of broad relevance for interspecies trait genetics.

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Section: Discussionmentioning

confidence: 99%

Dissecting an ancient stress resistance trait syndrome in the compost yeastKluyveromyces marxianus

Christensen,

Duarte,

et al. 2023

Preprint

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“…Lignocellulose is an essential part of plants' composition; it is directly linked to its structural composition and is a renewable material [127]. This lignocellulosic material is formed by three main components, cellulose (up to 50%), hemicellulose (20 to 40%), and lignin (20 to 30%), but it is possible to find extracts and inorganic compounds included in the material under analysis [128,129].…”

Section: Lignocellulosic Materialsmentioning

confidence: 99%

“…It is composed of D-xylose, D-mannose, D-galactose, D-glucose, L-arabinose, -O-methylglucuronic acid, D-galacturonic acid, and D-glucuronic acid [126] Polysaccharides are linked by β-1, and sometimes β-1,3 glycosidic bonds [128]. Hemicellulose differs from cellulose in that it has filaments with short side chains made of numerous and different sugars, while cellulose consists of oligomers very susceptible to hydrolysis [127].…”

Section: Lignocellulosic Materialsmentioning

confidence: 99%

Research Progress and Trends on Utilization of Lignocellulosic Residues as Supports for Enzyme Immobilization via Advanced Bibliometric Analysis

et al. 2023

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Lignocellulosic biomasses are used in several applications, such as energy production, materials, and biofuels. These applications result in increased consumption and waste generation of these materials. However, alternative uses are being developed to solve the problem of waste generated in the industry. Thus, research is carried out to ensure the use of these biomasses as enzymatic support. These surveys can be accompanied using the advanced bibliometric analysis tool that can help determine the biomasses used and other perspectives on the subject. With this, the present work aims to carry out an advanced bibliometric analysis approaching the main studies related to the use of lignocellulosic biomass as an enzymatic support. This study will be carried out by highlighting the main countries/regions that carry out productions, research areas that involve the theme, and future trends in these areas. It was observed that there is a cooperation between China, USA, and India, where China holds 28.07% of publications in this area, being the country with the greatest impact in the area. Finally, it is possible to define that the use of these new supports is a trend in the field of biotechnology.

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“…In this regard, microbial cell factories that can convert various carbon sources found in industrial waste and side-streams into valuable products are highly sought after as key enablers of sustainable and circular production processes. Whereas the industrial workhorse Saccharomyces cerevisiae can only ferment a subset of monosaccharides, several so called nonconventional yeast species display broad substrate ranges, often including various monosaccharides as well as disaccharides and sometimes even more complex oligo- and polysaccharides (Ramírez-Orozco et al 2001 , Lobs et al 2017 , Baptista and Domingues 2022 , Šuchová et al 2022 ). To develop a nonconventional yeast into a cell factory, detailed metabolic characterization on a molecular level remains an essential prerequisite.…”

Section: Introductionmentioning

confidence: 99%

Split-marker-mediated genome editing improves homologous recombination frequency in the CTG clade yeastCandida intermedia

Peri

Faria-Oliveira

Larsson

et al. 2023

FEMS Yeast Research

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Genome editing toolboxes are essential for the exploration and exploitation of non-conventional yeast species as cell factories, as they facilitate both genome studies and metabolic engineering. The non-conventional yeast Candida intermedia is a biotechnologically interesting species due to its capacity to convert a wide range of carbon sources, including xylose and lactose found in forestry and dairy industry waste and side-streams, into added-value products. However, possibilities of genetic manipulation have so far been limited due to lack of molecular tools for this species. We describe here the development of a genome editing method for C. intermedia, based on electroporation and gene deletion cassettes containing the Candida albicans NAT1 dominant selection marker flanked by 1,000 base pair sequences homologous to the target loci. Linear deletion cassettes targeting the ADE2 gene originally resulted in <1% targeting efficiencies, suggesting that C. intermedia mainly uses non-homologous end joining for integration of foreign DNA fragments. By developing a split-marker based deletion technique for C. intermedia, we successfully improved the homologous recombination rates, achieving targeting efficiencies up to 70%. For marker-less deletions, we also employed the split-marker cassette in combination with a recombinase system, which enabled the construction of double deletion mutants via marker recycling. Overall, the split marker technique proved to be a quick and reliable method for generating gene deletions in C. intermedia, which opens the possibility to uncover and enhance its cell factory potential.

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Kluyveromyces marxianus as a microbial cell factory for lignocellulosic biomass valorisation

Cited by 37 publications

References 145 publications

Dissecting an ancient stress resistance trait syndrome in the compost yeastKluyveromyces marxianus

Dissecting an ancient stress resistance trait syndrome in the compost yeastKluyveromyces marxianus

Research Progress and Trends on Utilization of Lignocellulosic Residues as Supports for Enzyme Immobilization via Advanced Bibliometric Analysis

Split-marker-mediated genome editing improves homologous recombination frequency in the CTG clade yeastCandida intermedia

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