5'-Serial Analysis of Gene Expression studies reveal a transcriptomic switch during fruiting body development in Coprinopsis cinerea
| العنوان: | 5'-Serial Analysis of Gene Expression studies reveal a transcriptomic switch during fruiting body development in Coprinopsis cinerea |
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| المؤلفون: | Miriam E. Zolan, Chun Hang Au, Patricia J. Pukkila, Sarah K. Wilke, Chi Keung Cheng, Hoi Shan Kwan, Jason E. Stajich |
| المصدر: | BMC Genomics Cheng, Chi Keung; Au, Chun Hang; Wilke, Sarah K; Stajich, Jason E; Zolan, Miriam E; Pukkila, Patricia J; et al.(2013). 5'-Serial Analysis of Gene Expression studies reveal a transcriptomic switch during fruiting body development in Coprinopsis cinerea. BMC Genomics, 14(1), 195. doi: http://dx.doi.org/10.1186/1471-2164-14-195. Retrieved from: http://www.escholarship.org/uc/item/2781d10d Cheng, CK; Au, CH; Wilke, SK; Stajich, JE; Zolan, ME; Pukkila, PJ; et al.(2013). 5'-Serial Analysis of Gene Expression studies reveal a transcriptomic switch during fruiting body development in Coprinopsis cinerea. BMC Genomics, 14(1). doi: 10.1186/1471-2164-14-195. UC Riverside: Retrieved from: http://www.escholarship.org/uc/item/2hk3783d |
| بيانات النشر: | Springer Nature |
| مصطلحات موضوعية: | Microarray, Biology, SAGE, Coprinus, Fungal Proteins, Transcription start site, Coprinopsis cinerea, Gene Expression Regulation, Fungal, Botany, Genetics, Primordium, Fruiting Bodies, Fungal, Serial analysis of gene expression, KEGG, Mycelium, Expressed Sequence Tags, Mushroom, Fungal protein, fungi, Fungal genetics, food and beverages, RNA, Fungal, biology.organism_classification, Fruiting body, Transcriptome, Research Article, Biotechnology |
| الوصف: | Background The transition from the vegetative mycelium to the primordium during fruiting body development is the most complex and critical developmental event in the life cycle of many basidiomycete fungi. Understanding the molecular mechanisms underlying this process has long been a goal of research on basidiomycetes. Large scale assessment of the expressed transcriptomes of these developmental stages will facilitate the generation of a more comprehensive picture of the mushroom fruiting process. In this study, we coupled 5'-Serial Analysis of Gene Expression (5'-SAGE) to high-throughput pyrosequencing from 454 Life Sciences to analyze the transcriptomes and identify up-regulated genes among vegetative mycelium (Myc) and stage 1 primordium (S1-Pri) of Coprinopsis cinerea during fruiting body development. Results We evaluated the expression of >3,000 genes in the two respective growth stages and discovered that almost one-third of these genes were preferentially expressed in either stage. This identified a significant turnover of the transcriptome during the course of fruiting body development. Additionally, we annotated more than 79,000 transcription start sites (TSSs) based on the transcriptomes of the mycelium and stage 1 primoridum stages. Patterns of enrichment based on gene annotations from the GO and KEGG databases indicated that various structural and functional protein families were uniquely employed in either stage and that during primordial growth, cellular metabolism is highly up-regulated. Various signaling pathways such as the cAMP-PKA, MAPK and TOR pathways were also identified as up-regulated, consistent with the model that sensing of nutrient levels and the environment are important in this developmental transition. More than 100 up-regulated genes were also found to be unique to mushroom forming basidiomycetes, highlighting the novelty of fruiting body development in the fungal kingdom. Conclusions We implicated a wealth of new candidate genes important to early stages of mushroom fruiting development, though their precise molecular functions and biological roles are not yet fully known. This study serves to advance our understanding of the molecular mechanisms of fruiting body development in the model mushroom C. cinerea. |
| وصف الملف: | application/pdf |
| اللغة: | English |
| تدمد: | 1471-2164 |
| DOI: | 10.1186/1471-2164-14-195 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a1c3a53ceced8463fb459729b33e8391 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....a1c3a53ceced8463fb459729b33e8391 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 14712164 |
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| DOI: | 10.1186/1471-2164-14-195 |