BacStalk: A comprehensive and interactive image analysis software tool for bacterial cell biology.,Molecular Microbiology

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BacStalk: A comprehensive and interactive image analysis software tool for bacterial cell biology.
Molecular Microbiology ( IF 2.6 ) Pub Date : 2020-03-19 , DOI: 10.1111/mmi.14501
Raimo Hartmann ₁ , Muriel C F van Teeseling ₂ , Martin Thanbichler _{1,

2,

3} , Knut Drescher _{1,

3,

4}

Affiliation

Prokaryotic cells display a striking subcellular organization. Studies of the underlying mechanisms in different species have greatly enhanced our understanding of the morphological and physiological adaptation of bacteria to different environmental niches. The image analysis software tool BacStalk is designed to extract comprehensive quantitative information from the images of morphologically complex bacteria with stalks, flagella, or other appendages. The resulting data can be visualized in interactive demographs, kymographs, cell lineage plots, and scatter plots to enable fast and thorough data analysis and representation. Notably, BacStalk can generate demographs and kymographs that display fluorescence signals within the two‐dimensional cellular outlines, to accurately represent their subcellular location. Beyond organisms with visible appendages, BacStalk is also suitable for established, non‐stalked model organisms with common or uncommon cell shapes. BacStalk, therefore, contributes to the advancement of prokaryotic cell biology and physiology, as it widens the spectrum of easily accessible model organisms and enables highly intuitive and interactive data analysis and visualization.

中文翻译：

BacStalk：用于细菌细胞生物学的全面，交互式的图像分析软件工具。

原核细胞显示出惊人的亚细胞组织。对不同物种潜在机制的研究大大增强了我们对细菌对不同环境生态位的形态和生理适应性的了解。图像分析软件工具BacStalk旨在从具有茎，鞭毛或其他附属物的形态复杂细菌的图像中提取全面的定量信息。可以在交互式人口统计图，运动记录仪，细胞谱系图和散点图中可视化结果数据，以实现快速而彻底的数据分析和表示。值得注意的是，BacStalk可以生成人口统计图和运动记录器，以显示二维细胞轮廓内的荧光信号，以准确表示其亚细胞位置。除了具有可见附肢的生物外，BacStalk还适用于具有常见或不常见细胞形状的已建立的，非梗阻的模型生物。因此，BacStalk有助于扩展原核细胞生物学和生理学，因为它拓宽了易于获取的模型生物的范围，并实现了高度直观和交互式的数据分析和可视化。

更新日期：2020-03-19

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