Transcriptome analysis of different growth stages of Aspergillus oryzae reveals dynamic changes of distinct classes of genes during growth.
Transcriptome analysis of different growth stages of Aspergillus oryzae reveals dynamic changes of distinct classes of genes during growth.
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米曲霉不同生长阶段的转录组分析揭示了生长过程中不同类别基因的动态变化。
DOI：
10.1186/s12866-018-1158-z
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发表时间：
2018-02-14
期刊：
影响因子：
4.2
通讯作者：
Zeng B
中科院分区：
文献类型：
--
作者：
He B;Hu Z;Ma L;Li H;Ai M;Han J;Zeng B
米曲霉在不同生长阶段解剖形态分化背后的基因表达谱和代谢途径尚未得到充分的表征。新一代测序技术的快速发展为米芽孢杆菌的基因组组织提供了先进的知识。在本研究中，我们对稻瘟病菌在不同生长阶段的生长发育进行了研究，包括适应期、对数期和平稳期。结果表明，水稻芽孢杆菌在不同发育阶段经历了生理和形态上的分化。RNA-seq用于分析m.o oryzae的三个阶段，每个样本产生超过2700万个高质量读数。差异基因表达分析显示，从适应期过渡到对数和平稳期，差异基因表达增多，而从对数期过渡到平稳期，差异基因表达呈相对稳定趋势。不同生长阶段差异表达基因的GO分类显示，这些基因大多富集于单生物过程、代谢过程和催化活性。然后对这些基因进行聚类分析。结果表明，从适应期过渡到对数期表达增加的基因最多，从对数期过渡到平稳期稳定表达的基因多与碳水化合物和氨基酸代谢有关。我们的研究结果为识别发育重要基因和理解不同生长阶段的生物学过程提供了基础。本文的在线版本（10.1186/s12866-018-1158-z）包含补充材料，授权用户可以使用。
The gene expression profile and metabolic pathways of Aspergillus oryzae underlying the anatomical and morphological differentiation across different growth stages have not been fully characterized. The rapid development of next-generation sequencing technologies provides advanced knowledge of the genomic organization of A. oryzae. In this study, we characterized the growth and development of A. oryzae at different growth stages, including the adaptive phase, logarithmic phase, and stationary phase. Our results revealed that A. oryzae undergoes physiological and morphological differentiation across the different stages. RNA-seq was employed to analyze the three stages of A. oryzae, which generated more than 27 million high-quality reads per sample. The analysis of differential gene expression showed more genes expressed differentially upon transition from the adaptive phase to the logarithmic and stationary phases, while relatively steady trend was observed during the transition from the logarithmic phase to the stationary phase. GO classification of the differentially expressed genes among different growth stages revealed that most of these genes were enriched for single-organism process, metabolic process, and catalytic activity. These genes were then subjected to a clustering analysis. The results showed that the cluster with the majority of genes with increased expression upon transition from the adaptive phase to the logarithmic phase, and steady expression from the logarithmic phase to the stationary phase was mainly involved in the carbohydrate and amino acid metabolism. Our results provide a foundation for identifying developmentally important genes and understanding the biological processes across various growth stages. The online version of this article (10.1186/s12866-018-1158-z) contains supplementary material, which is available to authorized users.
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影响因子：
14.9
作者：
Kanehisa M;Araki M;Goto S;Hattori M;Hirakawa M;Itoh M;Katayama T;Kawashima S;Okuda S;Tokimatsu T;Yamanishi Y
通讯作者：
Yamanishi Y
影响因子：
5.6
作者：
He B;Gu Y;Tao X;Cheng X;Wei C;Fu J;Cheng Z;Zhang Y
通讯作者：
Zhang Y
影响因子：
4.6
作者：
Yang KY;Chen Y;Zhang Z;Ng PK;Zhou WJ;Zhang Y;Liu M;Chen J;Mao B;Tsui SK
通讯作者：
Tsui SK
影响因子：
14.8
作者：
通讯作者：
--
影响因子：
4.4
作者：
Tominaga, M;Lee, YH;Akita, O
通讯作者：
Akita, O