Investigation of daughter cell dissection coincidence of single budding yeast cells immobilized in microfluidic traps

Zhu, Zhen; Wang, Yingying; Geng, Yangye; Xu, Feng; Marchisio, Mario Andrea; Wang, Zixin; Pan, Dandan

doi:10.1007/s00216-021-03186-x

Cited by 7 publications

(4 citation statements)

References 41 publications

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“…A microfluidic channel integrated with Yrot traps was employed in this study [ 50 ]. In this experiment, the microchannel was first sterilized using 75% ethanol injected from the inlet and incubated at 100 ℃ overnight for residual liquid evaporation.…”

Section: Methodsmentioning

confidence: 99%

Protein acetylation regulates xylose metabolism during adaptation of Saccharomyces cerevisiae

Tan

Wang

et al. 2021

Biotechnol Biofuels

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Background As the second most abundant polysaccharide in nature, hemicellulose can be degraded to xylose as the feedstock for bioconversion to fuels and chemicals. To enhance xylose conversion, the engineered Saccharomyces cerevisiae with xylose metabolic pathway is usually adapted with xylose as the carbon source in the laboratory. However, the mechanism under the adaptation phenomena of the engineered strain is still unclear. Results In this study, xylose-utilizing S. cerevisiae was constructed and used for the adaptation study. It was found that xylose consumption rate increased 1.24-fold in the second incubation of the yYST12 strain in synthetic complete-xylose medium compared with the first incubation. The study figured out that it was observed at the single-cell level that the stagnation time for xylose utilization was reduced after adaptation with xylose medium in the microfluidic device. Such transient memory of xylose metabolism after adaptation with xylose medium, named “xylose consumption memory”, was observed in the strains with both xylose isomerase pathway and xylose reductase and xylitol dehydrogenase pathways. In further, the proteomic acetylation of the strains before and after adaptation was investigated, and it was revealed that H4K5 was one of the most differential acetylation sites related to xylose consumption memory of engineered S. cerevisiae. We tested 8 genes encoding acetylase or deacetylase, and it was found that the knockout of the GCN5 and HPA2 encoding acetylases enhanced the xylose consumption memory. Conclusions The behavior of xylose consumption memory in engineered S. cerevisiae can be successfully induced with xylose in the adaptation. H4K5Ac and two genes of GCN5 and HPA2 are related to xylose consumption memory of engineered S. cerevisiae during adaptation. This study provides valuable insights into the xylose adaptation of engineered S. cerevisiae.

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Section: Methodsmentioning

confidence: 99%

Protein acetylation regulates xylose metabolism during adaptation of Saccharomyces cerevisiae

Tan

Wang

et al. 2021

Biotechnol Biofuels

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“…Importantly, when the particles’ length are approximately comparable, the impedance pulse amplitude, ΔE, and R A can be used to discriminate the particle shape. In case of a complex mixture, e.g., when cell is dividing their total volume increases with enlargement in one direction 28 , 57 . So, we can consider the case of spherical cell comparison with ellipse-y that has S = 1.5 in supplementary Table S11 .…”

Section: Resultsmentioning

confidence: 99%

Biochip with multi-planar electrodes geometry for differentiation of non-spherical bioparticles in a microchannel

Farooq

Butt

Hassan

2021

Sci Rep

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A biosensor capable of differentiating cells or other microparticles based on morphology finds significant biomedical applications. Examples may include morphological determination in the cellular division process, differentiation of bacterial cells, and cellular morphological variation in inflammation and cancer etc. Here, we present a novel integrated multi-planar microelectrodes geometry design that can distinguish a non-spherical individual particle flowing along a microchannel based on its electrical signature. We simulated multi-planar electrodes design in COMSOL Multiphysics and have shown that the changes in electrical field intensity corresponding to multiple particle morphologies can be distinguished. Our initial investigation has shown that top–bottom electrodes configuration produces significantly enhanced signal strength for a spherical particle as compared to co-planar configuration. Next, we integrated the co-planar and top–bottom configurations to develop a multi-planar microelectrode design capable of electrical impedance measurement at different spatial planes inside a microchannel by collecting multiple output signatures. We tested our integrated multi-planar electrode design with particles of different elliptical morphologies by gradually changing spherical particle dimensions to the non-spherical. The computed electrical signal ratio of non-spherical to spherical particle shows a very good correlation to predict the particle morphology. The biochip sensitivity is also found be independent of orientation of the particle flowing in the microchannel. Our integrated design will help develop the technology that will allow morphological analysis of various bioparticles in a microfluidic channel in the future.

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“…3A). Xu, Zhu and Wang et al , 74 have used a four trap structure to compare hydrodynamic forces affecting mother cell retention and daughter dissection. They have optimized the microfluidic trapping structure which allows newborn buds to rotate in the downstream direction.…”

Section: Applications Of Integrated Synthetic Biology and Microfluidi...mentioning

confidence: 99%

Integrating microfluidics and synthetic biology: advancements and diverse applications across organisms

Leal-Alves,

Deng,

Kermeci

et al. 2024

Lab Chip

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Investigation of daughter cell dissection coincidence of single budding yeast cells immobilized in microfluidic traps

Cited by 7 publications

References 41 publications

Protein acetylation regulates xylose metabolism during adaptation of Saccharomyces cerevisiae

Protein acetylation regulates xylose metabolism during adaptation of Saccharomyces cerevisiae

Biochip with multi-planar electrodes geometry for differentiation of non-spherical bioparticles in a microchannel

Integrating microfluidics and synthetic biology: advancements and diverse applications across organisms

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