Colony size measurement of the yeast gene deletion strains for functional genomics.
Colony size measurement of the yeast gene deletion strains for functional genomics.
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DOI：
10.1186/1471-2105-8-117
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发表时间：
2007-04-04
影响因子：
3
通讯作者：
Golshani A
中科院分区：
文献类型：
--
作者：
Memarian N;Jessulat M;Alirezaie J;Mir-Rashed N;Xu J;Zareie M;Smith M;Golshani A
许多功能基因组学方法已经被开发来研究模式生物酵母，酿酒酵母，目的是系统地了解细胞的生物学。其中一些技术是基于不同条件下酵母的生长差异，例如基因突变，化学品或两者兼而有之。人工检查在不同条件下生长的酵母菌落通常用作检测这种生长差异的方法。在这里，我们开发了一个计算机化的图像分析系统，称为生长检测器（GD），自动获取定量和比较信息的酵母菌落生长。与目前使用的手动生长测量方法相比，GD提供了极大的方便性和准确性。它在数字图像中区分真正的酵母菌落，并提供精确的殖民地区域坐标定向图。还进行了一些后处理计算。使用GD，我们成功地检测到植物源抗真菌化合物小檗碱的分子活性和基因表达组分之间的遗传连锁，以及其他细胞过程。一个新的协会酵母mek1基因与DNA损伤修复也确定了GD和质粒修复试验证实。结果证明了GD对于酵母功能基因组学研究的有用性。GD在检测相对酵母菌落大小差异方面提供了比手动检查方法显著的改进。GD的速度和准确性使其成为大规模功能基因组学研究的理想选择。
Numerous functional genomics approaches have been developed to study the model organism yeast, Saccharomyces cerevisiae, with the aim of systematically understanding the biology of the cell. Some of these techniques are based on yeast growth differences under different conditions, such as those generated by gene mutations, chemicals or both. Manual inspection of the yeast colonies that are grown under different conditions is often used as a method to detect such growth differences. Here, we developed a computerized image analysis system called Growth Detector (GD), to automatically acquire quantitative and comparative information for yeast colony growth. GD offers great convenience and accuracy over the currently used manual growth measurement method. It distinguishes true yeast colonies in a digital image and provides an accurate coordinate oriented map of the colony areas. Some post-processing calculations are also conducted. Using GD, we successfully detected a genetic linkage between the molecular activity of the plant-derived antifungal compound berberine and gene expression components, among other cellular processes. A novel association for the yeast mek1 gene with DNA damage repair was also identified by GD and confirmed by a plasmid repair assay. The results demonstrate the usefulness of GD for yeast functional genomics research. GD offers significant improvement over the manual inspection method to detect relative yeast colony size differences. The speed and accuracy associated with GD makes it an ideal choice for large-scale functional genomics investigations.
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影响因子：
3.5
作者：
Barber, PR;Vojnovic, B;Joiner, MC
通讯作者：
Joiner, MC
影响因子：
10.5
作者：
ROCKMILL, B;ROEDER, GS
通讯作者：
ROEDER, GS
影响因子：
16
作者：
Wood, A;Krogan, NJ;Shilatifard, A
通讯作者：
Shilatifard, A
大肠杆菌K-12的构造框架，单基因敲除突变体：Keio Collection。
影响因子：
9.9
作者：
通讯作者：
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DOI：
10.1073/pnas.0304797101
发表时间：
2004-02-10
影响因子：
11.1
作者：
Jazayeri, A;McAinsh, AD;Jackson, SP
通讯作者：
Jackson, SP