Leaf Extraction and Analysis Framework Graphical User Interface: Segmenting and Analyzing the Structure of Leaf Veins and Areoles
Leaf Extraction and Analysis Framework Graphical User Interface: Segmenting and Analyzing the Structure of Leaf Veins and Areoles
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DOI：
10.1104/pp.110.162834
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发表时间：
2011-01-01
期刊：
影响因子：
7.4
通讯作者：
Weitz, Joshua S.
中科院分区：
文献类型：
--
作者：
Price, Charles A.;Symonova, Olga;Weitz, Joshua S.
对物理生物网络结构和功能的兴趣促使了许多理论模型的发展，这些模型预测了从哺乳动物到植物的广泛分类群体的最佳网络结构。在许多情况下，预测网络结构的直接测试是不可能的，因为缺乏合适的经验方法来量化具有足够范围和分辨率的物理网络几何。量化植物网络结构的经验方法由来已久，从根到茎和叶内的木质部网络结构。然而，除了极少数例外，目前的方法强调对部分网络的分析，而不是整个网络的分析。在这里，我们介绍了叶提取和分析框架图形用户界面(LEAFGUI)，这是一个用户辅助的软件工具，有助于改进对叶网络结构的经验理解。叶子图形用户界面拍摄叶脉相对于背景已经增强的叶子的图像，并在一系列交互式阈值和清理步骤之后，返回一套关于叶子脉络网络和晕圈结构的统计数据和信息。指标包括所有网络静脉的尺寸、位置和连接性，以及它们周围区域的尺寸、形状和位置。LEAFE图形用户界面软件可免费下载，承诺有助于更好地理解叶脉网络结构的适应性和生态意义。
Interest in the structure and function of physical biological networks has spurred the development of a number of theoretical models that predict optimal network structures across a broad array of taxonomic groups, from mammals to plants. In many cases, direct tests of predicted network structure are impossible given the lack of suitable empirical methods to quantify physical network geometry with sufficient scope and resolution. There is a long history of empirical methods to quantify the network structure of plants, from roots, to xylem networks in shoots and within leaves. However, with few exceptions, current methods emphasize the analysis of portions of, rather than entire networks. Here, we introduce the Leaf Extraction and Analysis Framework Graphical User Interface (LEAF GUI), a user-assisted software tool that facilitates improved empirical understanding of leaf network structure. LEAF GUI takes images of leaves where veins have been enhanced relative to the background, and following a series of interactive thresholding and cleaning steps, returns a suite of statistics and information on the structure of leaf venation networks and areoles. Metrics include the dimensions, position, and connectivity of all network veins, and the dimensions, shape, and position of the areoles they surround. Available for free download, the LEAF GUI software promises to facilitate improved understanding of the adaptive and ecological significance of leaf vein network structure.