High-Throughput 3D Phenotyping of Plant Shoot Apical Meristems From Tissue-Resolution Data.
High-Throughput 3D Phenotyping of Plant Shoot Apical Meristems From Tissue-Resolution Data.
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根据组织分辨率数据对植物芽顶端分生组织进行高通量 3D 表型分析
DOI：
10.3389/fpls.2022.827147
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发表时间：
2022
影响因子：
5.6
通讯作者：
中科院分区：
文献类型：
--
作者：
共焦成像是一种在组织和器官水平上研究植物表型的成熟方法。然而，许多差异很难通过目视检查进行评估，研究人员广泛依赖于专门的手动量化技术和定性评估。在这里，我们提出了一种方法，定量表型大样本的植物组织形态使用三角形等值面。我们成功地证明了该方法的适用性，利用共聚焦成像的拟南芥地上器官。使用表面曲率作为生长指示的花原基的自动识别允许发散角的高通量量化和个体花的进一步分析。我们证明了我们的方法的吞吐量通过量化的几何特征1065花原基从172株植物，生长素运输突变体野生型比较。此外，我们发现，抛物面提供了一个简单的几何参数化的拍摄花序域的参数很少。我们利用参数化的方法来提供一个计算比较的拍摄顶点定义的荧光记者的中心区标记基因CLAVATA 3与顶点定义的抛物面。最后，我们分析了突变的影响，改变机械性能的花序圆顶曲率和生长素运输突变体的结果进行比较。我们的研究结果表明，区域特异性表达结构域的基因调控细胞壁的生物合成和本地生长素运输可以是重要的，在保持野生型组织形状。总而言之，我们的研究结果表明了一种在3D中参数化和量化植物发育的一般方法，这也适用于数据分辨率有限且细胞分割不可能的情况。这使研究人员能够通过高通量、一致性和可重复性的定量表型分析来解决植物发育的基本问题。
Confocal imaging is a well-established method for investigating plant phenotypes on the tissue and organ level. However, many differences are difficult to assess by visual inspection and researchers rely extensively on ad hoc manual quantification techniques and qualitative assessment. Here we present a method for quantitatively phenotyping large samples of plant tissue morphologies using triangulated isosurfaces. We successfully demonstrate the applicability of the approach using confocal imaging of aerial organs in Arabidopsis thaliana. Automatic identification of flower primordia using the surface curvature as an indication of outgrowth allows for high-throughput quantification of divergence angles and further analysis of individual flowers. We demonstrate the throughput of our method by quantifying geometric features of 1065 flower primordia from 172 plants, comparing auxin transport mutants to wild type. Additionally, we find that a paraboloid provides a simple geometric parameterisation of the shoot inflorescence domain with few parameters. We utilise parameterisation methods to provide a computational comparison of the shoot apex defined by a fluorescent reporter of the central zone marker gene CLAVATA3 with the apex defined by the paraboloid. Finally, we analyse the impact of mutations which alter mechanical properties on inflorescence dome curvature and compare the results with auxin transport mutants. Our results suggest that region-specific expression domains of genes regulating cell wall biosynthesis and local auxin transport can be important in maintaining the wildtype tissue shape. Altogether, our results indicate a general approach to parameterise and quantify plant development in 3D, which is applicable also in cases where data resolution is limited, and cell segmentation not possible. This enables researchers to address fundamental questions of plant development by quantitative phenotyping with high throughput, consistency and reproducibility.
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影响因子：
56.9
作者：
Fletcher, LC;Brand, U;Meyerowitz, EM
通讯作者：
Meyerowitz, EM
影响因子：
7.7
作者：
Barbier de Reuille P;Routier-Kierzkowska AL;Kierzkowski D;Bassel GW;Schüpbach T;Tauriello G;Bajpai N;Strauss S;Weber A;Kiss A;Burian A;Hofhuis H;Sapala A;Lipowczan M;Heimlicher MB;Robinson S;Bayer EM;Basler K;Koumoutsakos P;Roeder AH;Aegerter-Wilmsen T;Nakayama N;Tsiantis M;Hay A;Kwiatkowska D;Xenarios I;Kuhlemeier C;Smith RS
通讯作者：
Smith RS
影响因子：
9.2
作者：
Heisler, MG;Ohno, C;Meyerowitz, EM
通讯作者：
Meyerowitz, EM
影响因子：
10.6
作者：
Chan, TF;Vese, LA
通讯作者：
Vese, LA
影响因子：
7.4
作者：
Guenot, Bernadette;Bayer, Emmanuelle;Kuhlemeier, Cris
通讯作者：
Kuhlemeier, Cris