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De Malsche, W.

Publications and source records attributed to De Malsche, W..

2 recordsLinked to original sources

Inoculum-to-interface distance tunes productivity in static liquid cultures of wood-decay fungi

Static liquid cultures of wood-decay fungi underpin applications in materials, food, and medicine, yet the mechanisms governing pellicle formation remain poorly understood, limiting rational optimisation at scale. We developed a time-lapse scanning and image analysis platform to visualise the process of pellicle formation across five white-rot fungal species, of which Trametes versicolor formed the thickest, heaviest pellicles and completed formation fastest. Kymographs revealed a reproducible four-stage sequence after inoculation and sedimentation of the biomass: recovery of viability, upward growth, pellicle initiation, and thickening. We formalised this as a model in which the time to pellicle establishment is determined by the distance between the settled biomass and the liquid-air interface. Increasing liquid depth relative to a fixed inoculum loading raised biomass and mat thickness, but prolonged formation. The results identify surface proximity as the dominant predictor of initiation timing. By fixing the inoculum at the liquid-air interface with a membrane, we validated that minimising the distance between the sedimented mycelium and the liquid surface accelerated and stabilised formation without compromising on pellicle biomass. By exposing the most relevant control variables, this work provides a quantitative basis for designing reliable liquid-state surface fermentations for emerging applications involving mycelium.

bioengineering↗

Digging deeper into the human proteome: A novel nanoflow LCMS setup using micro pillar array columns (μPAC™)

In bottom-up proteomics, capillaries up to 75 cm long with internal diameters of 50 to 100 {micro}m packed with sub-2-{micro}m C18-functionalized particles are routinely used in combination with high-resolution mass spectrometry. Unlike such conventional liquid chromatography (LC) columns, micro pillar array columns ({micro}PAC) are fabricated using micromachining technology, resulting in perfectly ordered chromatographic separation beds, leading to a minimized analyte dispersion while column permeability is increased by one order of magnitude. This allows using very long columns (up to 200 cm) at only a fraction of the pressure needed to operate packed bed columns. To validate {micro}PAC column performances, different amounts of tryptic digests of HEK293T cell lysates were prepared and separated using a 200 cm {micro}PAC column or a 40 cm long conventional column. Using an Orbitrap Elite instrument, on average 25% more proteins were identified with the {micro}PAC column. Moreover, the rate at which the peak width increases with gradient time is much lower on the {micro}PAC column. For a 10-hour long gradient, average peak widths below 0.5 min were observed, resulting in consistent identification of over 5,000 proteins. Combining long solvent gradients and this new type of LC column, substantial improvements in proteome coverage could be obtained. Finally, we demonstrated high reproducibility and durability of the {micro}PAC column. Data are available via ProteomeXchange with identifiers PXD011547 and PXD013235.

biochemistry↗