Fission yeast cells grow approximately exponentially

Pickering, Mary T.; Hollis, Lauren Nicole; D’Souza, Edridge; Rhind, Nick

doi:10.1080/15384101.2019.1595874

Cited by 14 publications

(18 citation statements)

References 35 publications

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“…While in some eukaryotes (e.g. fission yeast) a dependence of the growth rate on the stage of the cell cycle has been reported 81 , bacteria are known to grow exponentially at an approximately constant rate throughout the whole cell cycle 82 , 83 . Assuming that the minimal metabolism of a synthetic cell will probably lead to a continuous increase in cell volume (e.g.…”

Section: Cell Cycle Controlmentioning

confidence: 99%

Towards a synthetic cell cycle

et al. 2021

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Recent developments in synthetic biology may bring the bottom-up generation of a synthetic cell within reach. A key feature of a living synthetic cell is a functional cell cycle, in which DNA replication and segregation as well as cell growth and division are well integrated. Here, we describe different approaches to recreate these processes in a synthetic cell, based on natural systems and/or synthetic alternatives. Although some individual machineries have recently been established, their integration and control in a synthetic cell cycle remain to be addressed. In this Perspective, we discuss potential paths towards an integrated synthetic cell cycle.

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Section: Cell Cycle Controlmentioning

confidence: 99%

Towards a synthetic cell cycle

et al. 2021

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“…Given the difficulties in measuring volume, cell length has sometimes been used as a simple proxy for cell size (e.g. 54,55 ). Correlation analysis in our large dataset ( Supplementary Fig.…”

Section: Pomegranate Accurately Isolates Regions Of Interestmentioning

confidence: 99%

Pomegranate: 2D segmentation and 3D reconstruction for fission yeast and other radially symmetric cells

Baybay

Esposito

Hauf

2020

Sci Rep

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Three-dimensional (3D) segmentation of cells in microscopy images is crucial to accurately capture signals that extend across optical sections. Using brightfield images for segmentation has the advantage of being minimally phototoxic and leaving all other channels available for signals of interest. However, brightfield images only readily provide information for two-dimensional (2D) segmentation. In radially symmetric cells, such as fission yeast and many bacteria, this 2D segmentation can be computationally extruded into the third dimension. However, current methods typically make the simplifying assumption that cells are straight rods. Here, we report Pomegranate, a pipeline that performs the extrusion into 3D using spheres placed along the topological skeletons of the 2D-segmented regions. The diameter of these spheres adapts to the cell diameter at each position. Thus, Pomegranate accurately represents radially symmetric cells in 3D even if cell diameter varies and regardless of whether a cell is straight, bent or curved. We have tested Pomegranate on fission yeast and demonstrate its ability to 3D segment wild-type cells as well as classical size and shape mutants. The pipeline is available as a macro for the open-source image analysis software Fiji/ImageJ. 2D segmentations created within or outside Pomegranate can serve as input, thus making this a valuable extension to the image analysis portfolio already available for fission yeast and other radially symmetric cell types.

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“…Given the difficulties in measuring volume, cell length has sometimes been used as a simple proxy for cell size (e.g. 54,55 ). Correlation analysis in our large dataset (Fig.…”

Section: Resultsmentioning

confidence: 99%

Pomegranate: 2D segmentation and 3D reconstruction for fission yeast and other radially symmetric cells

Baybay

Esposito

Hauf

2020

Preprint

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AbstractThree-dimensional (3D) segmentation of cells in microscopy images is crucial to accurately capture signals that extend across optical sections. Using brightfield images for segmentation has the advantage of being minimally phototoxic and leaving all other channels available for signals of interest. However, brightfield images readily only provide two-dimensional (2D) segmentation. In radially symmetric cells, such as fission yeast and many bacteria, the brightfield 2D segmentation can be computationally extruded into the third dimension. However, current methods make simplifying assumptions that introduce error. Here, we report Pomegranate, a pipeline that performs the extrusion using spheres placed along the topological skeletons of the 2D-segmented regions. The diameter of these spheres adapts to the cell diameter at each position. Thus, Pomegranate accurately represents cells in 3D even if cell diameter varies and regardless of whether a cell is straight, bent or curved. We have tested Pomegranate on fission yeast and demonstrate its ability to 3D segment wild-type cells as well as classical size and shape mutants. The pipeline is available as macro for the open-source image analysis software Fiji/ImageJ. 2D segmentations created within or outside Pomegranate can serve as input, thus making this a valuable extension to the image analysis portfolio already available for fission yeast and other rod-shaped cell types.

show abstract

Fission yeast cells grow approximately exponentially

Cited by 14 publications

References 35 publications

Towards a synthetic cell cycle

Towards a synthetic cell cycle

Pomegranate: 2D segmentation and 3D reconstruction for fission yeast and other radially symmetric cells

Pomegranate: 2D segmentation and 3D reconstruction for fission yeast and other radially symmetric cells

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