A comprehensive analysis of gene expression changes provoked by bacterial and fungal infection in C. elegans.
A comprehensive analysis of gene expression changes provoked by bacterial and fungal infection in C. elegans.
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DOI：
10.1371/journal.pone.0019055
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发表时间：
2011
期刊：
影响因子：
3.7
通讯作者：
Ewbank JJ
中科院分区：
文献类型：
--
作者：
Engelmann I;Griffon A;Tichit L;Montañana-Sanchis F;Wang G;Reinke V;Waterston RH;Hillier LW;Ewbank JJ
虽然秀丽隐杆线虫通过上调某些基因特异性地对感染作出反应，但不同的病原体触发一组共同基因的表达。我们采用新的方法对C. elegans到细菌和真菌感染。使用平铺阵列和/或RNA测序，我们已经表征了全基因组转录变化的基础上的主机的响应感染由三种细菌（粘质沙雷氏菌，粪肠球菌和耳杆状菌发光）和两种真菌病原体（锥孢德氏菌和Harposporium属）。我们开发了一个灵活的工具，WormBase转换器（可在http：//wormbasemanager.sourceforge.net/），允许交叉研究比较。新的数据集提供了比以前的研究更广泛的差异调节基因列表。注释分析证实，通常被细菌感染上调的基因与应激反应有关。我们发现在细菌病原体和Harposporium的肠道感染后调控的基因之间，以及Harposporium和D. Coniospora，其感染表皮。在真菌调控的基因中，有一个显着的偏向于快速进化的基因，并可能编码小蛋白质。用新方法获得的结果表明，C.线虫的感染取决于病原体的性质、感染部位和感染引起的生理失衡。它们构成了先天免疫信号传导的未来功能解剖的基础。最后，我们还提出了替代方法，以确定差异调节基因，考虑到低表达基因的变异性更大。
While Caenorhabditis elegans specifically responds to infection by the up-regulation of certain genes, distinct pathogens trigger the expression of a common set of genes. We applied new methods to conduct a comprehensive and comparative study of the transcriptional response of C. elegans to bacterial and fungal infection. Using tiling arrays and/or RNA-sequencing, we have characterized the genome-wide transcriptional changes that underlie the host's response to infection by three bacterial (Serratia marcescens, Enterococcus faecalis and otorhabdus luminescens) and two fungal pathogens (Drechmeria coniospora and Harposporium sp.). We developed a flexible tool, the WormBase Converter (available at http://wormbasemanager.sourceforge.net/), to allow cross-study comparisons. The new data sets provided more extensive lists of differentially regulated genes than previous studies. Annotation analysis confirmed that genes commonly up-regulated by bacterial infections are related to stress responses. We found substantial overlaps between the genes regulated upon intestinal infection by the bacterial pathogens and Harposporium, and between those regulated by Harposporium and D. coniospora, which infects the epidermis. Among the fungus-regulated genes, there was a significant bias towards genes that are evolving rapidly and potentially encode small proteins. The results obtained using new methods reveal that the response to infection in C. elegans is determined by the nature of the pathogen, the site of infection and the physiological imbalance provoked by infection. They form the basis for future functional dissection of innate immune signaling. Finally, we also propose alternative methods to identify differentially regulated genes that take into account the greater variability in lowly expressed genes.
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影响因子：
3.7
作者：
Drace K;McLaughlin S;Darby C
通讯作者：
Darby C
DOI：
10.1073/pnas.0914643107
发表时间：
2010-02-02
影响因子：
11.1
作者：
Estes, Kathleen A.;Dunbar, Tiffany L.;Troemel, Emily R.
通讯作者：
Troemel, Emily R.
影响因子：
10.5
作者：
Chuang, CF;Bargmann, CI
通讯作者：
Bargmann, CI
影响因子：
9.2
作者：
Mallo, GV;Kurz, CL;Ewbank, JJ
通讯作者：
Ewbank, JJ
影响因子：
30.5
作者：
Kawli, Trupti;Tan, Man-Wah
通讯作者：
Tan, Man-Wah