Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.
Semi-automated 3D leaf reconstruction and analysis of trichome patterning from light microscopic images.
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DOI：
10.1371/journal.pcbi.1003029
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发表时间：
2013-04
影响因子：
4.3
通讯作者：
Tresch A
中科院分区：
文献类型：
--
作者：
Failmezger H;Jaegle B;Schrader A;Hülskamp M;Tresch A
毛状体是由叶表面的单个细胞形成的叶毛。已知它们与病原菌抗性有关。它们的模式被认为是通过涉及毛状体命运促进和抑制因子的基因调控网络的作用，从最初等同的细胞领域中出现的。为了定量分析单、双突变体或不同生态型中模式的表型变异，必须对大量叶片的模式进行可靠的统计评估。在这里，我们提出了一种方法，该方法能够分析早期发育叶片阶段的毛状体模式，并自动分析各种空间参数。我们将重点放在最具挑战性的幼叶阶段，这些阶段需要进行三维分析，因为叶片通常不是平的。我们的软件TrichEratops从传统光学显微镜图像的2D堆叠重建3D表面模型。它允许对毛状体发育的不同阶段进行基于图形用户界面的注释，可以根据它们的空间分布进行分析，以捕获毛状体图案事件。我们表明，3D建模消除了简单2D模型的偏差，新颖的毛状体图案特征增加了入选间比较的敏感性。叶表面的毛状体(叶毛)图案是研究发育过程中基因调控的一个范例。对毛状体模式的统计分析需要自动方法来定位弯曲叶表面上的毛状体。这对年轻的、强烈弯曲的叶子来说尤其具有挑战性。我们已经开发了TrichEratops软件，它可以从传统光学显微镜图像的2D堆叠中重建3D叶子表面。TrichEratops还计算统计模式特征，从而极大地方便了整个数据采集过程。我们使用两个拟南芥突变体表明，3D建模消除了偏见，并增加了毛状体模式分析的识别力。
Trichomes are leaf hairs that are formed by single cells on the leaf surface. They are known to be involved in pathogen resistance. Their patterning is considered to emerge from a field of initially equivalent cells through the action of a gene regulatory network involving trichome fate promoting and inhibiting factors. For a quantitative analysis of single and double mutants or the phenotypic variation of patterns in different ecotypes, it is imperative to statistically evaluate the pattern reliably on a large number of leaves. Here we present a method that enables the analysis of trichome patterns at early developmental leaf stages and the automatic analysis of various spatial parameters. We focus on the most challenging young leaf stages that require the analysis in three dimensions, as the leaves are typically not flat. Our software TrichEratops reconstructs 3D surface models from 2D stacks of conventional light-microscope pictures. It allows the GUI-based annotation of different stages of trichome development, which can be analyzed with respect to their spatial distribution to capture trichome patterning events. We show that 3D modeling removes biases of simpler 2D models and that novel trichome patterning features increase the sensitivity for inter-accession comparisons. The patterning of trichomes (leaf hair) on the surface of a leaf is a paradigm for studying gene regulation in developmental processes. The statistical analysis of trichome patterning requires automated methods for the location of trichomes on a curved leaf surface. This is particularly challenging for young, strongly bent leaves. We have developed the TrichEratops software that reconstructs 3D leaf surfaces from 2D stacks of conventional light-microscopy pictures. TrichEratops also calculates statistical patterning features, thereby greatly facilitating the whole data acquisition process. We show, using two Arabidopsis thaliana mutants, that 3D modeling removes biases and increases the discriminatory power of trichome pattern analysis.
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影响因子：
11.6
作者：
Lee, Karen;Avondo, Jerome;Coen, Enrico
通讯作者：
Coen, Enrico
影响因子：
64.5
作者：
HULSKAMP, M;MISERA, S;JURGENS, G
通讯作者：
JURGENS, G
影响因子：
2.5
作者：
Piccinini, Filippo;Tesei, Anna;Bevilacqua, Alessandro
通讯作者：
Bevilacqua, Alessandro
影响因子：
7.2
作者：
Kaminuma, Eli;Yoshizumi, Takeshi;Toyoda, Tetsuro
通讯作者：
Toyoda, Tetsuro
影响因子：
4.6
作者：
Kurata, T;Ishida, T;Wada, T
通讯作者：
Wada, T