Transcriptome-wide expression profiling of Sporothrix schenckii yeast and mycelial forms and the establishment of the Sporothrix Genome DataBase.
Transcriptome-wide expression profiling of Sporothrix schenckii yeast and mycelial forms and the establishment of the Sporothrix Genome DataBase.
复制标题
DOI：
10.1099/mgen.0.000445
复制
发表时间：
2020-10
影响因子：
3.9
通讯作者：
Romeo O
中科院分区：
文献类型：
--
作者：
Giosa D;Felice MR;Giuffrè L;Aiese Cigliano R;Paytuví-Gallart A;Lo Passo C;Barresi C;D'Alessandro E;Huang H;Criseo G;Mora-Montes HM;de Hoog S;Romeo O
申克孢子丝菌是一种二相性真菌，在环境中以霉菌的形式存在，在宿主中以酵母的形式存在。菌丝/酵母相之间的形态转换是其毒力的关键，但涉及二态转换的转录网络仍不完全清楚。在这里，我们报告了申克链霉菌霉菌和酵母菌之间发生的全球转录差异，包括与这些不同细胞表型相关的基因表达谱的变化。此外，我们还提出了一种新的基因组注释，它揭示了比先前假设的更复杂的转录结构。利用序列分析技术，我们共鉴定出17个 基因，其中11个为蛋白质编码基因，6090个为非编码 (NcRNAs)。在所有注释的基因中，约有71 %的基因存在重叠，其中异链重叠类型最为常见。基因表达分析表明，8795个基因在酵母和霉菌之间存在差异调控。还观察到与相邻蛋白编码基因重叠的反义ncRNAs的差异基因表达。转录组数据的发布和孢子丝菌基因组数据库(http://sporothrixgenomedatabase.unime.it))的建立是孢子丝菌研究的一个重要里程碑，因为它们为未来涉及众多生物过程的分子途径的研究提供了坚实的基础。
Sporothrix schenckii is a dimorphic fungus existing as mould in the environment and as yeast in the host. The morphological shift between mycelial/yeast phases is crucial for its virulence, but the transcriptional networks implicated in dimorphic transition are still not fully understood. Here, we report the global transcriptomic differences occurring between mould and yeast phases of S. schenckii, including changes in gene expression profiles associated with these distinct cellular phenotypes. Moreover, we also propose a new genome annotation, which reveals a more complex transcriptional architecture than previously assumed. Using RNA-seq, we identified a total of 17 307 genes, of which 11 217 were classified as protein-encoding genes, whereas 6090 were designated as non-coding RNAs (ncRNAs). Approximately ~71 % of all annotated genes were found to overlap and the different-strand overlapping type was the most common. Gene expression analysis revealed that 8795 genes were differentially regulated among yeast and mould forms. Differential gene expression was also observed for antisense ncRNAs overlapping neighbouring protein-encoding genes. The release of transcriptome-wide data and the establishment of the Sporothrix Genome DataBase (http://sporothrixgenomedatabase.unime.it) represent an important milestone for Sporothrix research, because they provide a strong basis for future studies on the molecular pathways involved in numerous biological processes.
登录
查看更多内容
影响因子：
12.3
作者：
Buels R;Yao E;Diesh CM;Hayes RD;Munoz-Torres M;Helt G;Goodstein DM;Elsik CG;Lewis SE;Stein L;Holmes IH
通讯作者：
Holmes IH
DOI：
10.1093/bioinformatics/bts565
发表时间：
2012-12-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Fu L;Niu B;Zhu Z;Wu S;Li W
通讯作者：
Li W
DOI：
10.1261/rna.065524.118
发表时间：
2018-09
期刊：
RNA (New York, N.Y.)
影响因子：
--
作者：
Atkinson SR;Marguerat S;Bitton DA;Rodríguez-López M;Rallis C;Lemay JF;Cotobal C;Malecki M;Smialowski P;Mata J;Korber P;Bachand F;Bähler J
通讯作者：
Bähler J
玉米根中丛枝菌根真菌定殖的长非编码 RNA 和调控网络的鉴定
影响因子：
5.6
作者：
Han, Guomin;Cheng, Chen;Cheng, Beijiu
通讯作者：
Cheng, Beijiu
孢子形成：从KOH到分子生物学。
DOI：
10.3390/jof4020062
发表时间：
2018-05-23
期刊：
Journal of fungi (Basel, Switzerland)
影响因子：
--
作者：
Arenas R;Sánchez-Cardenas CD;Ramirez-Hobak L;Ruíz Arriaga LF;Vega Memije ME
通讯作者：
Vega Memije ME