molezz BAR - rice
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link: https://molezz.net/tag/rice/
items: 文章online了
items: Rice Atlas Database -- 一个水稻表达图表数据库

文章online了
type: item
date: 2011-02-16T03:18:16+00:00
description: RICE MORPHOLOGY DETERMINANT Encodes the Type II Formin FH5 and Regulates Rice Morphogenesis. Plant Cell. 2011 Feb 9; Authors: Zhang Z, Zhang Y, Tan H, Wang Y, Li G, Liang W, Yuan Z, Hu J, Ren H, Zhang D Multicellular organisms contain a large number of formins; however, their physiological roles in plants remain poorly understood. Here, we reveal that formin homology 5 (FH5), a type II formin mutated in rice morphology determinant (rmd), plays a crucial role in determining rice (Oryza sativa) morphology. FH5/RMD encodes a formin-like protein consisting of an N-terminal phosphatase tensin (PTEN)-like domain, an FH1 domain, and an FH2 domain. The rmd mutants display a bending growth pattern in seedlings, are stunted as adult plants, and have aberrant inflorescence (panicle) and seed shape. Cytological analysis showed that rmd mutants have severe cell elongation defects and abnormal microtubule and microfilament arrays. FH5/RMD is ubiquitously expressed in rice tissues, and its protein localization to the chloroplast surface is mediated by the PTEN domain. Biochemical assays demonstrated that recombinant FH5 protein can nucleate actin polymerization from monomeric G-actin or actin/profilin complexes, cap the barbed end of actin filaments, and bundle actin filaments in vitro. Moreover, FH5 can directly bind to and bundle microtubules through its FH2 domain in vitro. Our findings suggest that the rice formin protein FH5 plays a critical role in determining plant morphology by regulating actin dynamics and proper spatial organization of microtubules and microfilaments.

Rice Atlas Database -- 一个水稻表达图表数据库
type: item
date: 2009-05-13T15:58:09+00:00
description: 上周文献报告听到一个数据库rice atlas database,感觉不错,文献发在nature genetics,主要是通过大量生物芯片得到数据.会后查了一下,看看一些基因表达有没有收录在里面作为参考.进入首页后,我就直奔search database,不过进去后发现一头雾水,不知道该输入什么,随便输了2个关键词和序列,都找不到.后来经过一个师弟提醒,尝试使用国际基因名,搜到了....后来发现还支持Oligo ID和gramene的基因名.选上Show Graph就能比较直观的看到表达强弱对比了,对我来说足够了....虽然我看不懂底下表格那些值...应该是生物芯片里的强弱(PS,网站有bug,点击export无法正确另存为csv或excel).虽然叫做Rice Atlas Database,不过其实并没有收入水稻所有时期组织的表达情况.主要就是苗的根和叶及其相关组织,根尖,表皮等等,没有花和茎.作为参考就行,毕竟水稻中做的芯片数据不如拟南芥那么全.参考文献: A transcriptome atlas of rice cell types uncovers cellular, functional and developmental...