Morphomic analysis of a simple chordate

简单脊索动物的形态分析

基本信息

批准号：
8681486
负责人：
BANGALORE S MANJUNATH
金额：
$ 31.69万
依托单位：
UNIVERSITY OF CALIFORNIA SANTA BARBARA
依托单位国家：
美国
项目类别：
财政年份：
2009
资助国家：
美国
起止时间：
2009-08-01 至 2017-04-30
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/8681486
关键词：
4D Imaging Accounting Actins Address Animal Model Animal Organ Anterior Architecture Area Automobile Driving Behavior Binding Proteins Biological Biology Biomedical Engineering Cell Lineage Cell Polarity Cell Shape Cell division Cell membrane Cells Chordata Collection Complex Computer Vision Systems Computers Confocal Microscopy Data Data Set Development Developmental Biology Developmental Process Dimensions Disease Electroporation Embryo Embryonic Development Engineering Extracellular Matrix Proteins Genes Goals Graph Health Human Image Image Analysis Imagery Injection of therapeutic agent Label Lead Life Measurement Membrane Methods Microtubules Modeling Molecular Morphogenesis Morphology Movement Myosin Light Chains Nature Neuraxis Nuclear Organ Organism Pattern Pattern Recognition Plasmids Process Proteins RNA Relative (related person)Research Research Infrastructure Research Personnel Resolution Sampling Sea Seeds Shapes Speed System Talents Testing Time Tissue Engineering Tissues Vertebrates Work ascidian base blastomere structure cell behavior cell motility cell type computer framework computerized tools developmental genetics gastrulation image visualization imaging Segmentation imaging informatics innovation interest moesin professor programs promoter protein distribution segmentation Image analysis skills spatiotemporal tissue repair

项目摘要

DESCRIPTION (provided by applicant): This proposed collaborative project will investigate fundamental processes driving chordate embryogenesis. The project will combine the skills and expertise of two research groups: one that works in the area of developmental biology, and the other in the area of image analysis and computer vision. The goal of the project is take a whole-embryo embryo approach to investigating morphogenesis in live embryos in all 4 dimensions (x,y, z and t). Specifically, we will collect and analyze confocal microscopy images to derive quantitative data on the division, shape, volume and movements of all cells in both selected developing organs and in whole embryos. This project presents many challenges in sample selection and labeling, image capture, and image analysis and visualization. Most model organisms are fundamentally unsuited to the challenge of capturing the shape and movement of every cell in an entire tissue. Those that are suitable typically are distantly related to the chordates, and thus lack organs and tissues relevant to human health and disease. The ascidians (sea squirts), however, are close relatives of the vertebrates that combine a chordate body plan with a small and simple embryonic architecture suitable for imaging in toto. The data to be collected in such observations, particularly at the high resolution needed to observe cellular behavior, will be enormous. The extraction of large-scale quantitative information from timelapse image sets poses substantial challenges in terms of image segmentation and analysis. We have already made significant progress in segmenting 3D ascidian images and further refinements of these approaches are proposed here. The segmented data will allow the quantitative analysis of many complex cell behaviors, including the fundamental changes in cell shape and motility driving gastrulation, neurulation and convergent extension. These analyses will lead to specific hypotheses regarding the cellular and molecular machinery driving morphogenesis. To further investigate the molecular basis for these cellular phenomena, we will also extend our imaging and analysis efforts to investigate the dynamic patterns of subcellular localization of several proteins with key roles in morphogenesis.

描述（由申请人提供）：该拟议合作项目将研究驱动脊索动物胚胎发生的基本过程。该项目将结合两个研究小组的技能和专业知识：一个研究小组在发育生物学领域工作，另一个研究小组在图像分析和计算机视觉领域工作。该项目的目标是采用全胚胎胚胎方法来研究活胚胎所有 4 个维度（x、y、z 和 t）的形态发生。具体来说，我们将收集和分析共焦显微镜图像，以获得有关选定的发育器官和整个胚胎中所有细胞的分裂、形状、体积和运动的定量数据。该项目在样本选择和标记、图像捕获以及图像分析和可视化方面提出了许多挑战。大多数模型生物从根本上不适合捕捉整个组织中每个细胞的形状和运动的挑战。那些合适的通常与脊索动物有远亲关系，因此缺乏与人类健康和疾病相关的器官和组织。然而，海鞘类（海鞘）是脊椎动物的近亲，它们结合了脊索动物的身体结构和适合整体成像的小而简单的胚胎结构。在此类观察中收集的数据，特别是观察细胞行为所需的高分辨率数据，将是巨大的。从延时图像集中提取大规模定量信息给图像分割和分析带来了巨大的挑战。我们已经在分割 3D 海鞘图像方面取得了重大进展，并在此提出了对这些方法的进一步改进。分段数据将允许对许多复杂的细胞行为进行定量分析，包括驱动原肠胚形成、神经形成和会聚延伸的细胞形状和运动性的根本变化。这些分析将得出有关驱动形态发生的细胞和分子机制的具体假设。为了进一步研究这些细胞现象的分子基础，我们还将扩展我们的成像和分析工作，以研究在形态发生中起关键作用的几种蛋白质的亚细胞定位的动态模式。