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唤醒警报:虚拟延时基因表达图谱揭示了休眠萌发孢子打破休眠的机制。

Wake-up alarm: virtual time-lapse gene expression landscape illuminates mechanisms underlying dormancy breaking of germinating spores.

机构信息

Laboratory of Cytoskeletal Logistics, Department of Life Science and Medical Bioscience, Center for Advanced Biomedical Sciences (TWIns), Waseda University, 2-2 Wakamatsucho, Shinjuku-ku, Tokyo, 162-8480, Japan.

Computational Bio Big-Data Open Innovation Laboratory (CBBD-OIL), National Institute of Advanced Industrial Science and Technology, 3-4-1 Okubo, Shinjuku-ku, Tokyo, 169-8555, Japan.

出版信息

Curr Genet. 2021 Aug;67(4):519-534. doi: 10.1007/s00294-021-01177-0. Epub 2021 Mar 29.

Abstract

Dormancy breaking is a common physiological phenomenon that is shared by eukaryotes. Germination of spores in fungi is one of the most representative cases of dormancy breaking. Understanding the mechanisms of spore germination is therefore fundamental to basic studies on the control of cell proliferation and differentiation, as well as agricultural applications and medical investigation of fungal pathogenesis. In fission yeast, spores are generated as a consequence of sexual differentiation under nutrient starvation, remaining dormant until further nourishment, but little is known about how dormant spores germinate in response to environmental change. In a breakthrough, methods for single-cell-based gene expression profiling have recently been introduced. Several mRNA expression profiles were assembled from single spore cells during dormancy or germination. Single-cell RNA-seq profiles were aligned sequentially according to their similarities. The alignment of transcriptomes visualised how gene expression varies over time upon dormancy breaking. In this review, we revisit knowledge from previous studies on germination, select candidate genes that may be involved in germination, and query their expression from the temporal transcriptomic dataset so that studies on S. pombe germination can be extended further.

摘要

休眠打破是真核生物共有的一种常见生理现象。真菌孢子的萌发是休眠打破的最典型例子之一。因此,了解孢子萌发的机制对于细胞增殖和分化的基础研究以及农业应用和真菌发病机制的医学研究都是至关重要的。在裂殖酵母中,孢子是在营养饥饿下进行有性分化的结果,在获得进一步的营养之前一直处于休眠状态,但对于休眠孢子如何响应环境变化而萌发知之甚少。最近,单细胞基因表达谱分析方法取得了突破。在休眠或萌发过程中,从单个孢子细胞中组装了多个 mRNA 表达谱。根据相似性对单细胞 RNA-seq 图谱进行了顺序排列。转录组的比对可视化了休眠打破时基因表达随时间的变化。在这篇综述中,我们重新审视了以前关于萌发的研究知识,选择了可能参与萌发的候选基因,并从时间转录组数据集中查询它们的表达情况,以便进一步扩展对 S. pombe 萌发的研究。

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