Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline.
Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline.
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DOI：
10.1186/gb-2006-7-12-r123
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发表时间：
2006
期刊：
影响因子：
12.3
通讯作者：
Knowles DW
中科院分区：
文献类型：
--
作者：
Luengo Hendriks CL;Keränen SV;Fowlkes CC;Simirenko L;Weber GH;DePace AH;Henriquez C;Kaszuba DW;Hamann B;Eisen MB;Malik J;Sudar D;Biggin MD;Knowles DW
描述了一套方法，该方法首次以细胞分辨率对整个果蝇胚胎中的基因表达和形态进行定量三维描述。为了建模和彻底理解动物转录网络，必须以细胞分辨率对发育中的基因表达模式进行准确的空间和时间描述。在这里，我们描述了一套方法，这些方法首次以细胞分辨率对整个胚胎中的基因表达和形态进行定量三维描述。发布了包含来自 1,282 个胚胎的信息的数据库，该数据库描述了果蝇胚盘中多个时间点 22 个基因的 mRNA 表达。我们证明我们的方法足够准确，可以检测以前未描述的形态和基因表达特征。细胞胚层具有复杂的核密度模式和顶端/基底位移形态，与后来众所周知的形态特征相关。成对规则基因表达条纹通常被认为仅沿着前/后身体轴指定图案，但显示出沿着背/腹轴的条纹位置、条纹曲率和表达水平具有复杂的变化。还发现配对规则基因并不总是彼此保持相同的寄存器。将这些定量方法应用于其他发育系统可能会揭示许多其他以前未知的特征，并提供对发育调节网络的更严格的理解。
A suite of methods that provide the first quantitative three-dimensional description of gene expression and morphology with cellular resolution in whole Drosophila embryos is described. To model and thoroughly understand animal transcription networks, it is essential to derive accurate spatial and temporal descriptions of developing gene expression patterns with cellular resolution. Here we describe a suite of methods that provide the first quantitative three-dimensional description of gene expression and morphology at cellular resolution in whole embryos. A database containing information derived from 1,282 embryos is released that describes the mRNA expression of 22 genes at multiple time points in the Drosophila blastoderm. We demonstrate that our methods are sufficiently accurate to detect previously undescribed features of morphology and gene expression. The cellular blastoderm is shown to have an intricate morphology of nuclear density patterns and apical/basal displacements that correlate with later well-known morphological features. Pair rule gene expression stripes, generally considered to specify patterning only along the anterior/posterior body axis, are shown to have complex changes in stripe location, stripe curvature, and expression level along the dorsal/ventral axis. Pair rule genes are also found to not always maintain the same register to each other. The application of these quantitative methods to other developmental systems will likely reveal many other previously unknown features and provide a more rigorous understanding of developmental regulatory networks.
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影响因子：
2.4
作者：
Janssens, H;Kosman, D;Reinitz, J
通讯作者：
Reinitz, J
影响因子：
12.3
作者：
Berman BP;Pfeiffer BD;Laverty TR;Salzberg SL;Rubin GM;Eisen MB;Celniker SE
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Celniker SE
影响因子：
5.1
作者：
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Jonker, PP
影响因子：
10.5
作者：
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通讯作者：
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作者：
Hughes, SC;Krause, HM
通讯作者：
Krause, HM