Identification of lncRNA and weighted gene coexpression network analysis of germinating Rhizopus delemar causing mucormycosis
ABSTRACTRhizopus delemar, an opportunistic fungal pathogen, causes a highly fatal disease, mucormycosis. Spore germination is a crucial mechanism for disease pathogenesis. Thus, exploring the molecular mechanisms of fungal germination would underpin our knowledge of such transformation and, in turn,...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2023-10-01
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| Series: | Mycology |
| Subjects: | |
| Online Access: | https://www.tandfonline.com/doi/10.1080/21501203.2023.2265414 |
| _version_ | 1797349233295097856 |
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| author | Barsha Kalita Abhijeet Roy Aiswarya Jayaprakash Annamalai Arunachalam Lakshmi P.T.V |
| author_facet | Barsha Kalita Abhijeet Roy Aiswarya Jayaprakash Annamalai Arunachalam Lakshmi P.T.V |
| author_sort | Barsha Kalita |
| collection | DOAJ |
| description | ABSTRACTRhizopus delemar, an opportunistic fungal pathogen, causes a highly fatal disease, mucormycosis. Spore germination is a crucial mechanism for disease pathogenesis. Thus, exploring the molecular mechanisms of fungal germination would underpin our knowledge of such transformation and, in turn, help control mucormycosis. To gain insight into the developmental process particularly associated with cell wall modification and synthesis, weighted gene co-expression network analysis (WGCNA) was performed including both coding and non-coding transcripts identified in the current study, to find out the module of interest in the germination stages. The module-trait relationship identified a particular module to have a high correlation only at the resting phase and further analysis revealed the module to be enriched for protein phosphorylation, carbohydrate metabolic process, and cellular response to stimulus. Moreover, co-expression network analysis of highly connected nodes revealed cell wall modifying enzymes, especially those involved in mannosylation, chitin-glucan crosslinking, and polygalacturonase activities co-expressing and interacting with the novel lncRNAs among which some of them predicted to be endogenous target mimic (eTM) lncRNAs. Hence, the present study provides an insight into the onset of spore germination and the information on the novel non-coding transcripts with key cell wall–related enzymes as potential targets against mucormycosis. |
| first_indexed | 2024-03-08T12:27:21Z |
| format | Article |
| id | doaj.art-8db28a2eb39a4bbabe66dfd6a89d7c47 |
| institution | Directory Open Access Journal |
| issn | 2150-1203 2150-1211 |
| language | English |
| last_indexed | 2024-03-08T12:27:21Z |
| publishDate | 2023-10-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Mycology |
| spelling | doaj.art-8db28a2eb39a4bbabe66dfd6a89d7c472024-01-22T07:21:35ZengTaylor & Francis GroupMycology2150-12032150-12112023-10-0114434435710.1080/21501203.2023.2265414Identification of lncRNA and weighted gene coexpression network analysis of germinating Rhizopus delemar causing mucormycosisBarsha Kalita0Abhijeet Roy1Aiswarya Jayaprakash2Annamalai Arunachalam3Lakshmi P.T.V4Department of Bioinformatics, Pondicherry University, Puducherry, IndiaDepartment of Bioinformatics, Pondicherry University, Puducherry, IndiaDepartment of Bioinformatics, Pondicherry University, Puducherry, IndiaDepartment of Food Science & Technology, Pondicherry University, Puducherry, IndiaDepartment of Bioinformatics, Pondicherry University, Puducherry, IndiaABSTRACTRhizopus delemar, an opportunistic fungal pathogen, causes a highly fatal disease, mucormycosis. Spore germination is a crucial mechanism for disease pathogenesis. Thus, exploring the molecular mechanisms of fungal germination would underpin our knowledge of such transformation and, in turn, help control mucormycosis. To gain insight into the developmental process particularly associated with cell wall modification and synthesis, weighted gene co-expression network analysis (WGCNA) was performed including both coding and non-coding transcripts identified in the current study, to find out the module of interest in the germination stages. The module-trait relationship identified a particular module to have a high correlation only at the resting phase and further analysis revealed the module to be enriched for protein phosphorylation, carbohydrate metabolic process, and cellular response to stimulus. Moreover, co-expression network analysis of highly connected nodes revealed cell wall modifying enzymes, especially those involved in mannosylation, chitin-glucan crosslinking, and polygalacturonase activities co-expressing and interacting with the novel lncRNAs among which some of them predicted to be endogenous target mimic (eTM) lncRNAs. Hence, the present study provides an insight into the onset of spore germination and the information on the novel non-coding transcripts with key cell wall–related enzymes as potential targets against mucormycosis.https://www.tandfonline.com/doi/10.1080/21501203.2023.2265414Rhizopus delemarmucormycosisgerminationWGCNACazymeslncRNA |
| spellingShingle | Barsha Kalita Abhijeet Roy Aiswarya Jayaprakash Annamalai Arunachalam Lakshmi P.T.V Identification of lncRNA and weighted gene coexpression network analysis of germinating Rhizopus delemar causing mucormycosis Mycology Rhizopus delemar mucormycosis germination WGCNA Cazymes lncRNA |
| title | Identification of lncRNA and weighted gene coexpression network analysis of germinating Rhizopus delemar causing mucormycosis |
| title_full | Identification of lncRNA and weighted gene coexpression network analysis of germinating Rhizopus delemar causing mucormycosis |
| title_fullStr | Identification of lncRNA and weighted gene coexpression network analysis of germinating Rhizopus delemar causing mucormycosis |
| title_full_unstemmed | Identification of lncRNA and weighted gene coexpression network analysis of germinating Rhizopus delemar causing mucormycosis |
| title_short | Identification of lncRNA and weighted gene coexpression network analysis of germinating Rhizopus delemar causing mucormycosis |
| title_sort | identification of lncrna and weighted gene coexpression network analysis of germinating rhizopus delemar causing mucormycosis |
| topic | Rhizopus delemar mucormycosis germination WGCNA Cazymes lncRNA |
| url | https://www.tandfonline.com/doi/10.1080/21501203.2023.2265414 |
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