Transcriptome Profiling Implicates Non-Coding RNAs Involved in Flowering and Floral Organ Development in Water Lily
In this study, we performed small RNA and whole-transcriptome sequencing of different tissues of <i>Nymphaea minuta</i> to systematically investigate the roles and regulatory mechanisms of miRNA, lncRNA, and circRNA in the regulation of flowering-related target genes. Fifteen samples wer...
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MDPI AG
2024-12-01
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| Series: | Horticulturae |
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| Online Access: | https://www.mdpi.com/2311-7524/10/12/1285 |
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| author | Hongbin Zhang Chengjun Zhao Fei Chen |
| author_facet | Hongbin Zhang Chengjun Zhao Fei Chen |
| author_sort | Hongbin Zhang |
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| description | In this study, we performed small RNA and whole-transcriptome sequencing of different tissues of <i>Nymphaea minuta</i> to systematically investigate the roles and regulatory mechanisms of miRNA, lncRNA, and circRNA in the regulation of flowering-related target genes. Fifteen samples were sequenced using the Illumina platform, with strict data quality control to ensure the reliability of the analysis. By applying multiple bioinformatics tools, miRNA, lncRNA, and circRNA were comprehensively identified, annotated, and functionally analyzed, with a focus on screening non-coding RNAs closely related to the flowering process. The results showed significant differential expression of these miRNAs and lncRNAs across different tissues, which influenced the expression of flowering-related genes through specific regulatory networks. The constructed gene co-expression network further revealed the central roles of these non-coding RNAs in flowering regulation. This study provides new insights into the flowering regulatory mechanisms of <i>N. minuta</i>, highlights the potential of this species for studying aquatic plant flowering mechanisms, and provides an important theoretical basis for gene function research in aquatic plants. |
| format | Article |
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| institution | Kabale University |
| issn | 2311-7524 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | MDPI AG |
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| series | Horticulturae |
| spelling | doaj-art-de6aae331dfa4b9fb2c46e55321742a12024-12-27T14:29:09ZengMDPI AGHorticulturae2311-75242024-12-011012128510.3390/horticulturae10121285Transcriptome Profiling Implicates Non-Coding RNAs Involved in Flowering and Floral Organ Development in Water LilyHongbin Zhang0Chengjun Zhao1Fei Chen2National Key Laboratory for Tropical Crop Breeding, School of Breeding and Multiplication, Sanya Institute of Breeding and Multiplication, Hainan University, Sanya 572025, ChinaNational Key Laboratory for Tropical Crop Breeding, School of Breeding and Multiplication, Sanya Institute of Breeding and Multiplication, Hainan University, Sanya 572025, ChinaNational Key Laboratory for Tropical Crop Breeding, School of Breeding and Multiplication, Sanya Institute of Breeding and Multiplication, Hainan University, Sanya 572025, ChinaIn this study, we performed small RNA and whole-transcriptome sequencing of different tissues of <i>Nymphaea minuta</i> to systematically investigate the roles and regulatory mechanisms of miRNA, lncRNA, and circRNA in the regulation of flowering-related target genes. Fifteen samples were sequenced using the Illumina platform, with strict data quality control to ensure the reliability of the analysis. By applying multiple bioinformatics tools, miRNA, lncRNA, and circRNA were comprehensively identified, annotated, and functionally analyzed, with a focus on screening non-coding RNAs closely related to the flowering process. The results showed significant differential expression of these miRNAs and lncRNAs across different tissues, which influenced the expression of flowering-related genes through specific regulatory networks. The constructed gene co-expression network further revealed the central roles of these non-coding RNAs in flowering regulation. This study provides new insights into the flowering regulatory mechanisms of <i>N. minuta</i>, highlights the potential of this species for studying aquatic plant flowering mechanisms, and provides an important theoretical basis for gene function research in aquatic plants.https://www.mdpi.com/2311-7524/10/12/1285miRNAlncRNAcircRNA<i>Nymphaea minuta</i>flowering regulationwhole-transcriptome sequencing |
| spellingShingle | Hongbin Zhang Chengjun Zhao Fei Chen Transcriptome Profiling Implicates Non-Coding RNAs Involved in Flowering and Floral Organ Development in Water Lily Horticulturae miRNA lncRNA circRNA <i>Nymphaea minuta</i> flowering regulation whole-transcriptome sequencing |
| title | Transcriptome Profiling Implicates Non-Coding RNAs Involved in Flowering and Floral Organ Development in Water Lily |
| title_full | Transcriptome Profiling Implicates Non-Coding RNAs Involved in Flowering and Floral Organ Development in Water Lily |
| title_fullStr | Transcriptome Profiling Implicates Non-Coding RNAs Involved in Flowering and Floral Organ Development in Water Lily |
| title_full_unstemmed | Transcriptome Profiling Implicates Non-Coding RNAs Involved in Flowering and Floral Organ Development in Water Lily |
| title_short | Transcriptome Profiling Implicates Non-Coding RNAs Involved in Flowering and Floral Organ Development in Water Lily |
| title_sort | transcriptome profiling implicates non coding rnas involved in flowering and floral organ development in water lily |
| topic | miRNA lncRNA circRNA <i>Nymphaea minuta</i> flowering regulation whole-transcriptome sequencing |
| url | https://www.mdpi.com/2311-7524/10/12/1285 |
| work_keys_str_mv | AT hongbinzhang transcriptomeprofilingimplicatesnoncodingrnasinvolvedinfloweringandfloralorgandevelopmentinwaterlily AT chengjunzhao transcriptomeprofilingimplicatesnoncodingrnasinvolvedinfloweringandfloralorgandevelopmentinwaterlily AT feichen transcriptomeprofilingimplicatesnoncodingrnasinvolvedinfloweringandfloralorgandevelopmentinwaterlily |