A tri-species Aspergillus array (niger arrays)

The full genome sequencing of the filamentous fungi Aspergillus nidulans, Aspergillus niger and Aspergillus oryzae has opened the possibilities for studying the cellular physiology of these fungi on a systemic level. As a tool to explore this, we are presenting an Affymetrix GeneChip developed for transcriptome analysis of any of the three above-mentioned aspergilli. Transcriptome analysis of triplicate batch cultivations of all three aspergilli on glucose-and xylose media has been performed, and used to validate the performance of the micro array. By doing gene comparisons of all three species, and cross-analysing this with the expression data, 23 genes, including the xylose transcriptional activator XlnR, have been identified to be a conserved response across the Aspergillus sp. Promoter analysis of the upregulated genes in all three species suggest the XlnR-binding site to be 5’-GGNTAAA-3’. We are thus presenting a validated tool for transcription analysis of three Aspergillus species and a methodology for comparative transcriptomics. Keywords: Physiological response Two conditions (glucose and xylose) and three biological replicates

构巢曲霉（Aspergillus nidulans）、黑曲霉（Aspergillus niger）以及米曲霉（Aspergillus oryzae）这三种丝状真菌的全基因组测序，为从系统层面研究这些真菌的细胞生理特性提供了可能。为探索这一研究方向，我们开发了一款适用于上述三种曲霉转录组分析的Affymetrix基因芯片（GeneChip）。我们针对三种曲霉在葡萄糖和木糖培养基中的三次生物学重复分批培养样本开展了转录组分析，并以此验证了该微阵列的性能。通过对三个物种进行基因比较，并结合表达数据进行交叉分析，我们共鉴定出23个在曲霉属（Aspergillus sp.）中具有保守响应特征的基因，其中包括木糖转录激活因子XlnR。对三个物种中上调基因的启动子分析表明，XlnR的结合位点为5’-GGNTAAA-3’。综上，本研究提供了一款可用于三种曲霉物种转录分析的经过验证的工具，以及一套比较转录组学研究方法。关键词：生理响应；两种培养条件（葡萄糖与木糖）及三次生物学重复