ArticleHorticulture research2024
Full-length transcriptome sequencing of pepper fruit during development and construction of a transcript variation database.
Article in Horticulture research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- An rRNA-depleted full-length transcriptome strategy using nanopore sequencing for identification of novel lncRNA isoforms.Communications biology · 2026Article
- Uncovering the genetic architecture of pungency, carotenoids, and flavor inHorticulture research · 2025Article
- Prohexadione calcium and KHBMC plant biology · 2025Article
- Comparative Transcriptome Reveals Conserved Gene Expression in Reproductive Organs in Solanaceae.International journal of molecular sciences · 2025Article
- Comparative proteomic and metabolomic analyses reveal resistance mechanisms in Chilli pepper roots of resistant and susceptible varieties toFrontiers in plant science · 2025Article
- Red LED light accelerates capsanthin accumulation and fruit ripening in pre-harvest pepper (Frontiers in plant science · 2025Article
- Genome-wide identification of growth-regulating factor andFrontiers in plant science · 2025Article
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Authors and funding
15 authors.
Funding
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Abstract
Chili pepper is an important spice and a model plant for fruit development studies. Large-scale omics information on chili pepper plant development continues to be gathered for understanding development as well as capsaicin biosynthesis. In this study, a full-spectrum transcriptome data of eight chili pepper tissues at five growth stages using the Oxford Nanopore long-read sequencing approach was generated. Of the 485 351 transcripts, 35 336 were recorded as reference transcripts (genes), while 450 015 were novel including coding, lnc, and other non-coding RNAs. These novel transcripts belonged to unknown/intergenic (347703), those retained introns (26336), and had multi-exons with at least one junction match (20333). In terms of alternative splicing, retained intron had the highest proportion (14795). The number of tissue-specific expressed transcripts ranged from 22 925 (stem) to 40 289 (flower). The expression changes during fruit and placenta development are discussed in detail. Integration of gene expression and capsaicin content quantification throughout the placental development clarifies that capsaicin biosynthesis in pepper is mainly derived from valine, leucin, and isoleucine degradation as well as citrate cycle and/or pyrimidine metabolism pathways. Most importantly, a user-friendly Pepper Full-Length Transcriptome Variation Database (PFTVD 1.0) (http://pepper-database.cn/) has been developed. PFTVD 1.0 provides transcriptomics and genomics information and allows users to analyse the data using various tools implemented. This work highlights the potential of long-read sequencing to discover novel genes and transcripts and their diversity in plant developmental biology.
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Registered trials
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