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Lisa M Røst et al.
Metabolites, 10(2) (2020-02-26)
Absolute quantification of intracellular metabolite pools is a prerequisite for modeling and in-depth biological interpretation of metabolomics data. It is the final step of an elaborate metabolomics workflow, with challenges associated with all steps-from sampling to quantifying the physicochemically diverse
Sarah van Veen et al.
Nature, 578(7795), 419-424 (2020-01-31)
ATP13A2 (PARK9) is a late endolysosomal transporter that is genetically implicated in a spectrum of neurodegenerative disorders, including Kufor-Rakeb syndrome-a parkinsonism with dementia1-and early-onset Parkinson's disease2. ATP13A2 offers protection against genetic and environmental risk factors of Parkinson's disease, whereas loss
Margot Bärenstrauch et al.
Fungal genetics and biology : FG & B, 139, 103383-103383 (2020-04-10)
Plants comprise many asymptomatic fungal endophytes with potential roles of plant protection against abiotic and biotic stresses. Endophytes communicate with their host plant, with other endophytes and with invading pathogens but their language remains largely unknown. This work aims at
Javier Sáez-Sáez et al.
Metabolic engineering, 62, 51-61 (2020-08-21)
Resveratrol is a plant secondary metabolite with multiple health-beneficial properties. Microbial production of resveratrol in model microorganisms requires extensive engineering to reach commercially viable levels. Here, we explored the potential of the non-conventional yeast Yarrowia lipolytica to produce resveratrol and
Activating and elucidating metabolism of complex sugars in Yarrowia lipolytica
Ryu S, et al.
Applied and Environmental Microbiology, 82(4), 1334-1345 (2016)
Satarupa Bhaduri et al.
STAR protocols, 2(3), 100640-100640 (2021-07-20)
In S. cerevisiae, we identified rhomboid pseudoprotease Dfm1 as the major mediator for removing or retrotranslocating misfolded membrane substrates from the ER (endoplasmic reticulum). Long-standing challenges with rapid suppression of dfm1-null cells have limited the biochemical study of Dfm1's role in
R Daniel Gietz et al.
Nature protocols, 2(1), 38-41 (2007-04-03)
Here, we describe a Library screen transformation protocol using the lithium acetate/single-stranded carrier DNA/PEG method of transformation for Saccharomyces cerevisiae. This method is suitable for screening complex plasmid libraries such as those used for yeast two-hybrid analysis. This procedure takes
Ryan J Protzko et al.
mSystems, 4(6) (2019-12-19)
Biorefining of renewable feedstocks is one of the most promising routes to replace fossil-based products. Since many common fermentation hosts, such as Saccharomyces cerevisiae, are naturally unable to convert many component plant cell wall polysaccharides, the identification of organisms with
Zi-xuan Wang et al.
Methods in molecular biology (Clifton, N.J.), 332, 115-127 (2006-08-02)
CXCR4, the receptor for stromal cell-derived factor (SDF)-1, was expressed in Saccharomyces cerevisiae, coupled to the pheromone response pathway via a chimeric Galpha subunit. Engagement of CXCR4 by SDF-1 resulted in expression of reporter genes, HIS3 or lacZ, under the
Monica I Espinosa et al.
Nature communications, 11(1), 5564-5564 (2020-11-06)
Utilising one-carbon substrates such as carbon dioxide, methane, and methanol is vital to address the current climate crisis. Methylotrophic metabolism enables growth and energy generation from methanol, providing an alternative to sugar fermentation. Saccharomyces cerevisiae is an important industrial microorganism
Eko Roy Marella et al.
Metabolic engineering, 61, 427-436 (2019-08-14)
Lactone flavors with fruity, milky, coconut, and other aromas are widely used in the food and fragrance industries. Lactones are produced by chemical synthesis or by biotransformation of plant-sourced hydroxy fatty acids. We established a novel method to produce flavor
Renata Novakova et al.
Applied microbiology and biotechnology, 102(2), 857-869 (2017-12-03)
Mithramycin A is an antitumor compound used for treatment of several types of cancer including chronic and acute myeloid leukemia, testicular carcinoma, hypercalcemia and Paget's disease. Selective modifications of this molecule by combinatorial biosynthesis and biocatalysis opened the possibility to
YAC Protocols, 11-11 (2006)
Yimiao Qu et al.
STAR protocols, 1(2), 100082-100082 (2020-10-29)
The biological phenotype is affected by the level of gene expression. Here, we provide a step-by-step protocol for precisely titrating and quantitatively observing the target gene expression level in budding yeast by manipulating its copy number in the genome. Using
Bingyin Peng et al.
Metabolic engineering, 39, 209-219 (2016-12-13)
Sesquiterpenes are C15 isoprenoids with utility as fragrances, flavours, pharmaceuticals, and potential biofuels. Microbial fermentation is being examined as a competitive approach for bulk production of these compounds. Competition for carbon allocation between synthesis of endogenous sterols and production of
Simultaneous saccharification and fermentation of cellulose in ionic liquid for efficient production of alpha-ketoglutaric acid by Yarrowia lipolytica
Ryu S, et al.
Applied Microbiology and Biotechnology, 99(10), 4237-4244 (2015)
T Fernandes et al.
Journal of applied microbiology, 127(3), 845-855 (2019-06-19)
The aim was to isolate, identify and characterize yeasts present in rumen fluid and to select strains showing potential as probiotics. Rumen fluid was sampled from 4 herds of dairy and beef cattle and 77 yeast isolates were identified. Initial
Elisa Michelini et al.
Nature protocols, 3(12), 1895-1902 (2009-01-31)
We report a step-by-step protocol describing how to develop and use a yeast-based bioassay for androgen-like compounds. Saccharomyces cerevisiae cells are genetically engineered to express the human androgen receptor (hAR) and the bioluminescent (BL) reporter gene luciferase (from Photinus pyralis)
N Milne et al.
FEMS yeast research, 20(2) (2019-09-27)
We present a teaching protocol suitable for demonstrating the use of EasyClone and CRISPR/Cas9 for metabolic engineering of industrially relevant yeasts Saccharomyces cerevisiae and Yarrowia lipolytica, using β-carotene production as a case study. The protocol details all steps required to
Patrick F Suthers et al.
Metabolic engineering communications, 11, e00148-e00148 (2020-11-03)
Many platform chemicals can be produced from renewable biomass by microorganisms, with organic acids making up a large fraction. Intolerance to the resulting low pH growth conditions, however, remains a challenge for the industrial production of organic acids by microorganisms.
Vadim Demichev et al.
Nature methods, 17(1), 41-44 (2019-11-27)
We present an easy-to-use integrated software suite, DIA-NN, that exploits deep neural networks and new quantification and signal correction strategies for the processing of data-independent acquisition (DIA) proteomics experiments. DIA-NN improves the identification and quantification performance in conventional DIA proteomic
Ying Liu et al.
Biological procedures online, 13, 6-6 (2011-08-17)
Although yeast two-hybrid experiments are commonly used to identify protein interactions, the frequent occurrence of false negatives and false positives hampers data interpretation. Using both yeast one-hybrid and two-hybrid experiments, we have identified potential sources of these problems: the media
Adrián Matencio et al.
Pharmaceuticals (Basel, Switzerland), 13(9) (2020-09-03)
Our desire to live longer has led to an ever-increasing number of novel antiaging products. However, few molecules have any real effect and new ones need to be studied before they can be used commercially. In this contribution, activation of
Caleb Walker et al.
Metabolic engineering, 54, 83-95 (2019-03-20)
Green organic solvents such as ionic liquids (ILs) have versatile use but are inhibitory to microbes even at low concentrations of 0.5-1.0% (v/v) ILs. We discovered the oleaginous yeast Yarrowia lipolytica can grow in 10% (v/v) of 1-ethyl-3-methylimidazolium acetate ([EMIM][OAc])
Shabir Ahmad Lone et al.
BMC complementary medicine and therapies, 20(1), 131-131 (2020-05-01)
The global prevalence of fungal diseases is increasing rapidly, which affects more than a billion people every year with significant mortality rate. On the other hand, the development of new drugs to treat these fungal infections is slow, while the
Aida Droce et al.
Fungal biology, 121(5), 515-527 (2017-04-10)
Putative proton coupled di-peptide transporters, PTR2s, are found in filamentous fungi in different numbers and their function during fungal development and plant infection is unresolved. In Fusarium graminearum, the cause of head blight in cereals, we identified four putative PTR2
Sergio R Santa Maria et al.
Astrobiology (2020-01-07)
The biological risks of the deep space environment must be elucidated to enable a new era of human exploration and scientific discovery beyond low earth orbit (LEO). There is a paucity of deep space biological missions that will inform us
Peter Hayek et al.
Microbiological research, 165(3), 250-258 (2009-07-21)
Various factors are thought to be responsible for Candida albicans virulence, such as lipases, proteases and adhesins. Many of these factors are GPI-anchored cell surface proteins responsible for pathogenicity. Hwp2 is a putative GPI-anchored protein. The purpose of this study
Irene M Francino-Urdaniz et al.
Cell reports, 36(9), 109627-109627 (2021-08-21)
The potential emergence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike (S) escape mutants is a threat to the efficacy of existing vaccines and neutralizing antibody (nAb) therapies. An understanding of the antibody/S escape mutation landscape is urgently needed
Yeast transformation efficiency is enhanced by TORC 1-and eisosome-dependent signaling
Yu SC, et al.
MicrobiologyOpen, e00730-e00730 (2018)
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