Identification of Long Non-Coding RNAs and Their Target Genes from Mycelium and Primordium in Model Mushroom Schizophyllum commune
AbstractSchizophyllum commune has emerged as the most promising model mushroom to study developmental stages (mycelium, primordium), which are two primary processes of fruit body development. Long non-coding RNA (lncRNA) has been proved to participate in fruit development and sex differentiation in...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2022-09-01
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| Series: | Mycobiology |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/12298093.2022.2116819 |
| _version_ | 1797773638897762304 |
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| author | Tuheng Wu Jian Chen Chunwei Jiao Huiping Hu Qingping Wu Yizhen Xie |
| author_facet | Tuheng Wu Jian Chen Chunwei Jiao Huiping Hu Qingping Wu Yizhen Xie |
| author_sort | Tuheng Wu |
| collection | DOAJ |
| description | AbstractSchizophyllum commune has emerged as the most promising model mushroom to study developmental stages (mycelium, primordium), which are two primary processes of fruit body development. Long non-coding RNA (lncRNA) has been proved to participate in fruit development and sex differentiation in fungi. However, potential lncRNAs have not been identified in S. commune from mycelium to primordium developmental stages. In this study, lncRNA-seq was performed in S. commune and 61.56 Gb clean data were generated from mycelium and primordium developmental stages. Furthermore, 191 lncRNAs had been obtained and a total of 49 lncRNAs were classified as differently expressed lncRNAs. Additionally, 26 up-regulated differently expressed lncRNAs and 23 down-regulated between mycelium and primordia libraries were detected. Further, Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis showed that differentially expressed lncRNAs target genes from the MAPK pathway, phosphatidylinositol signal, ubiquitin-mediated proteolysis, autophagy, and cell cycle. This study provides a new resource for further research on the relationship between lncRNA and two developmental stages (mycelium, primordium) in S. commune. |
| first_indexed | 2024-03-12T22:08:25Z |
| format | Article |
| id | doaj.art-c5f37af22fd64bb7a790fb2a28f73112 |
| institution | Directory Open Access Journal |
| issn | 1229-8093 2092-9323 |
| language | English |
| last_indexed | 2024-03-12T22:08:25Z |
| publishDate | 2022-09-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Mycobiology |
| spelling | doaj.art-c5f37af22fd64bb7a790fb2a28f731122023-07-24T06:38:17ZengTaylor & Francis GroupMycobiology1229-80932092-93232022-09-0150535736510.1080/12298093.2022.2116819Identification of Long Non-Coding RNAs and Their Target Genes from Mycelium and Primordium in Model Mushroom Schizophyllum communeTuheng Wu0Jian Chen1Chunwei Jiao2Huiping Hu3Qingping Wu4Yizhen Xie5Guangdong Yuewei Edible Fungi Technology Co., Guangzhou, ChinaGuangdong Yuewei Edible Fungi Technology Co., Guangzhou, ChinaGuangdong Yuewei Edible Fungi Technology Co., Guangzhou, ChinaGuangdong Provincial Key Laboratory of Microbial Safety and Health, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, ChinaSchool of Bioscience and Bioengineering, South China University of Technology, Guangzhou, ChinaGuangdong Yuewei Edible Fungi Technology Co., Guangzhou, ChinaAbstractSchizophyllum commune has emerged as the most promising model mushroom to study developmental stages (mycelium, primordium), which are two primary processes of fruit body development. Long non-coding RNA (lncRNA) has been proved to participate in fruit development and sex differentiation in fungi. However, potential lncRNAs have not been identified in S. commune from mycelium to primordium developmental stages. In this study, lncRNA-seq was performed in S. commune and 61.56 Gb clean data were generated from mycelium and primordium developmental stages. Furthermore, 191 lncRNAs had been obtained and a total of 49 lncRNAs were classified as differently expressed lncRNAs. Additionally, 26 up-regulated differently expressed lncRNAs and 23 down-regulated between mycelium and primordia libraries were detected. Further, Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis showed that differentially expressed lncRNAs target genes from the MAPK pathway, phosphatidylinositol signal, ubiquitin-mediated proteolysis, autophagy, and cell cycle. This study provides a new resource for further research on the relationship between lncRNA and two developmental stages (mycelium, primordium) in S. commune.https://www.tandfonline.com/doi/10.1080/12298093.2022.2116819Schizophyllum communemycelium and primordiumlong non-coding RNAprotein-coding genepost-transcriptional modification |
| spellingShingle | Tuheng Wu Jian Chen Chunwei Jiao Huiping Hu Qingping Wu Yizhen Xie Identification of Long Non-Coding RNAs and Their Target Genes from Mycelium and Primordium in Model Mushroom Schizophyllum commune Mycobiology Schizophyllum commune mycelium and primordium long non-coding RNA protein-coding gene post-transcriptional modification |
| title | Identification of Long Non-Coding RNAs and Their Target Genes from Mycelium and Primordium in Model Mushroom Schizophyllum commune |
| title_full | Identification of Long Non-Coding RNAs and Their Target Genes from Mycelium and Primordium in Model Mushroom Schizophyllum commune |
| title_fullStr | Identification of Long Non-Coding RNAs and Their Target Genes from Mycelium and Primordium in Model Mushroom Schizophyllum commune |
| title_full_unstemmed | Identification of Long Non-Coding RNAs and Their Target Genes from Mycelium and Primordium in Model Mushroom Schizophyllum commune |
| title_short | Identification of Long Non-Coding RNAs and Their Target Genes from Mycelium and Primordium in Model Mushroom Schizophyllum commune |
| title_sort | identification of long non coding rnas and their target genes from mycelium and primordium in model mushroom schizophyllum commune |
| topic | Schizophyllum commune mycelium and primordium long non-coding RNA protein-coding gene post-transcriptional modification |
| url | https://www.tandfonline.com/doi/10.1080/12298093.2022.2116819 |
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