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首页> 外文期刊>Proceedings of the National Academy of Sciences of the United States of America >Whole-genome expression profiling of the marine diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocesses
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Whole-genome expression profiling of the marine diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocesses

机译：海洋硅藻Thalassiosira pseudonana的全基因组表达谱鉴定了硅生物过程中涉及的基因

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摘要

Formation of complex inorganic structures is widespread in nature. Diatoms create intricately patterned cell walls of inorganic silicon that are a biomimetic model for design and generation of three-dimensional silica nanostructures. To date, only relatively simple silica structures can be generated in vitro through manipulation of known diatom phosphoproteins (silaffins) and long-chain poly-amines. Here, we report the use of genome-wide transcriptome analyses of the marine diatom Thalassiosira pseudonana to identify additional candidate gene products involved in the biological manipulation of silicon. Whole-genome oligonucleotide tiling arrays and tandem mass spectrometry identified transcripts for > 8,000 genes, 3,000 of which were not previously described and included noncoding and antisense RNAs. Gene-specific expression profiles detected a set of 75 genes induced only under low concentrations of silicon but not under low concentrations of nitrogen or iron, alkaline pH, or low temperatures. Most of these induced gene products were predicted to contain secretory signals and/or transmembrane domains but displayed no homology to known proteins. Over half of these genes were newly discovered, identified only through the use of tiling arrays. Unexpectedly, a common set of 84 genes were induced by both silicon and iron limitations, suggesting that biological manipulation of silicon may share pathways in common with iron or, alternatively, that iron may serve as a required cofactor for silicon processes. These results provide insights into the transcriptional and translational basis for the biological generation of elaborate silicon nanostructures by these ecologically important microbes.
机译：复杂的无机结构的形成在自然界很普遍。硅藻会形成复杂图案的无机硅细胞壁，这是仿生模型，用于设计和生成三维二氧化硅纳米结构。迄今为止，通过操纵已知的硅藻磷蛋白（silaffins）和长链多胺，只能在体外产生相对简单的二氧化硅结构。在这里，我们报告使用海洋硅藻拟人拟南芥的全基因组转录组分析来确定参与硅生物学操作的其他候选基因产物。全基因组寡核苷酸切片阵列和串联质谱鉴定了> 8,000个基因的转录本，其中3,000个以前没有描述过，包括非编码和反义RNA。基因特异性表达谱检测到仅在低浓度的硅下而不在低浓度的氮或铁，碱性pH或低温下诱导的一组75个基因。预计这些诱导的基因产物大多数都含有分泌信号和/或跨膜结构域，但与已知蛋白没有同源性。这些基因的一半以上是新发现的，只能通过平铺阵列来鉴定。出乎意料的是，硅和铁的局限性共同诱导了84个基因的共同集合，这表明硅的生物操纵可能与铁共享相同的途径，或者铁可能充当硅工艺所需的辅助因子。这些结果为由这些具有生态学意义的微生物生物生成精细的硅纳米结构的转录和翻译基础提供了见识。

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