ArticlePlant molecular biology2013
Catalog of Erycina pusilla miRNA and categorization of reproductive phase-related miRNAs and their target gene families.
Article in Plant molecular biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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18 citing papers in PubMed, 28 citations in OpenAlex.
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- GeneAI 3.0: powerful, novel, generalized hybrid and ensemble deep learning frameworks for miRNA species classification of stationary patterns from nucleotides.Scientific reports · 2024Article
- The Integrated mRNA and miRNA Approach Reveals Potential Regulators of Flowering Time inInternational journal of molecular sciences · 2023Article
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- Advances and prospects of orchid research and industrialization.Horticulture research · 2022Article
- Transcriptome mining of hormonal and floral integrators in the leafless flowers of three cymbidium orchids.Frontiers in plant science · 2022Article
- Genetic insights into the regulatory pathways for continuous flowering in a unique orchid Arundina graminifolia.BMC plant biology · 2021Article
- Organ-Specific Gene Expression Reveals the Role of theFrontiers in plant science · 2021Article
- Morphological and Molecular Characterization of Orchid Fruit Development.Frontiers in plant science · 2019Article
- Post genomics era for orchid research.Botanical studies · 2017Review
- Integrated mRNA and microRNA transcriptome variations in the multi-tepal mutant provide insights into the floral patterning of the orchid Cymbidium goeringii.BMC genomics · 2017Article
- Transcriptome-wide analysis of the MADS-box gene family in the orchid Erycina pusilla.Plant biotechnology journal · 2016Article
- Characterization and comparative profiling of the small RNA transcriptomes in two phases of flowering in Cymbidium ensifolium.BMC genomics · 2015Article
- BeMADS1 is a key to delivery MADSs into nucleus in reproductive tissues-De novo characterization of Bambusa edulis transcriptome and study of MADS genes in bamboo floral development.BMC plant biology · 2014Article
- De novo transcriptome assembly from inflorescence of Orchis italica: analysis of coding and non-coding transcripts.PloS one · 2014Article
- The analysis of the inflorescence miRNome of the orchid Orchis italica reveals a DEF-like MADS-box gene as a new miRNA target.PloS one · 2014Article
- Article
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Authors and funding
15 authors at 7 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The orchid Erycina pusilla has a short life cycle and relatively low chromosome number, making it a potential model plant for orchid functional genomics. To that end, small RNAs (sRNAs) from different developmental stages of different organs were sequenced. In this miRNA mix, 33 annotated miRNA families and 110 putative miRNA-targeted transcripts were identified in E. pusilla. Fifteen E. pusilla miRNA target genes were found to be similar to those in other species. There were putative novel miRNAs identified by 3 different strategies. The genomic sequences of the four miRNAs that were identified using rice genome as the reference can form the stem loop structure. The t0000354 miRNA, identified using rice genome sequences and a Phalaenopsis study, had a high read count. The target gene of this miRNA is MADS (unigene30603), which belongs to the AP3-PI subfamily. The most abundant miRNA was E. pusilla miR156 (epu-miR156), orthologs of which work to maintain the vegetative phase by repressing the expression of the SQUAMOSA promoter-binding-like (SPL) transcription factors. Fifteen genes in the E. pusilla SPL (EpSPL) family were identified, nine of which contained the putative epu-miR156 target site. Target genes of epu-miR172, also a key regulator of developmental changes in the APETALA2 (EpAP2) family, were identified. Experiments using 5'RLM-RACE demonstrated that the genes EpSPL1, 2, 3, 4, 7, 9, 10, 14 and EpAP2-9, -10, -11 were regulated by epu-miR156 and epu-miR172, respectively.
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