Structure Detection in Three-Dimensional Cellular Cryoelectron Tomograms by Reconstructing Two-Dimensional Annotated Tilt Series
Structure Detection in Three-Dimensional Cellular Cryoelectron Tomograms by Reconstructing Two-Dimensional Annotated Tilt Series
复制标题
通过重建二维注释倾斜系列进行三维细胞冷冻电子断层扫描中的结构检测
DOI：
10.1089/cmb.2021.0606
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发表时间：
2022
影响因子：
1.7
通讯作者：
Xu, Min
中科院分区：
文献类型：
--
作者：
Zeng, Xiangrui;Lin, Ziqian;Uddin, Mostofa Rafid;Zhou, Bo;Cheng, Chao;Zhang, Jing;Freyberg, Zachary;Xu, Min
低温电子层析成像技术（cryo-ET）能够在亚分子分辨率下对接近天然环境的细胞结构和组织进行成像，这对随后的数据分析和建模至关重要。传统的结构检测方法首先从一系列二维（2D）投影重建三维（3D）层析图，然后直接检测层析图中的亚细胞成分。然而，由于层析重建过程中潜在的结构信息丢失以及现有方法的范围有限，这一过程具有挑战性，因为大多数主要的最先进的目标检测方法都是针对2D而不是3D图像设计的。因此，在本文中，作为补充传统过程的替代方法，我们提出了一种新的2D-to-3D框架，可以在将结果重建回3D之前检测2D投影图像中的结构。我们将提出的框架作为三个特定的算法来实现三个单独的任务：语义分割、边缘检测和目标定位。作为冷冻et数据2D-to-3D框架的实验验证，我们将该算法应用于线粒体磷酸钙颗粒的分割、球形边缘的检测和线粒体的定位。定量和定性结果表明，该方法在二维投影的分割预测任务中表现较好，在目标定位和边缘检测方面表现良好，为未来低温et在情境结构生物学中的探索研究铺平了道路。
The revolutionary technique cryoelectron tomography (cryo-ET) enables imaging of cellular structure and organization in a near-native environment at submolecular resolution, which is vital to subsequent data analysis and modeling. The conventional structure detection process first reconstructs the three-dimensional (3D) tomogram from a series of two-dimensional (2D) projections and then directly detects subcellular components found within the tomogram. However, this process is challenging due to potential structural information loss during the tomographic reconstruction and the limited scope of existing methods since most major state-of-the-art object detection methods are designed for 2D rather than 3D images. Therefore, in this article, as an alternative approach to complement the conventional process, we propose a novel 2D-to-3D framework that detects structures within 2D projection images before reconstructing the results back to 3D. We implemented the proposed framework as three specific algorithms for three individual tasks: semantic segmentation, edge detection, and object localization. As experimental validation of the 2D-to-3D framework for cryo-ET data, we applied the algorithms to the segmentation of mitochondrial calcium phosphate granules, detection of spherical edges, and localization of mitochondria. Quantitative and qualitative results show better performance for prediction tasks of segmentation on the 2D projections and promising performance on object localization and edge detection, paving the way for future studies in the exploration of cryo-ET forin situstructural biology.
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影响因子：
48
作者：
Moebel, Emmanuel;Martinez-Sanchez, Antonio;Kervrann, Charles
通讯作者：
Kervrann, Charles
影响因子：
64.5
作者：
Guo Q;Lehmer C;Martínez-Sánchez A;Rudack T;Beck F;Hartmann H;Pérez-Berlanga M;Frottin F;Hipp MS;Hartl FU;Edbauer D;Baumeister W;Fernández-Busnadiego R
通讯作者：
Fernández-Busnadiego R
影响因子：
19
作者：
McIntosh, R;Nicastro, D;Mastronarde, D
通讯作者：
Mastronarde, D
影响因子：
2.2
作者：
Kawase, Noboru;Kato, Mitsuro;Jinnai, Hiroshi
通讯作者：
Jinnai, Hiroshi
影响因子：
9.8
作者：
Burt A;Gaifas L;Dendooven T;Gutsche I
通讯作者：
Gutsche I