ArticleBMC genomics2019
Single-molecule real-time transcript sequencing identified flowering regulatory genes in Crocus sativus.
Article in BMC genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 46 citations in OpenAlex.
- Molecular identification, isolation and functional characterization of a glutathione S-transferase gene CsGST in saffron (Crocus sativus L.).Scientific reports · 2026Article
- Co-regulatory network analysis of the main secondary metabolite (SM) biosynthesis in Crocus sativus L.Scientific reports · 2024Article
- Understanding the Saffron Corm Development-Insights into Histological and Metabolic Aspects.Plants (Basel, Switzerland) · 2024Article
- Novel roles of HSFs and HSPs, other than relating to heat stress, in temperature-mediated flowering.Annals of botany · 2023Article
- A comprehensive review on genomic resources in medicinally and industrially important major spices for future breeding programs: Status, utility and challenges.Current research in food science · 2023Review
- Current Knowledge of the Antidepressant Activity of Chemical Compounds fromPharmaceuticals (Basel, Switzerland) · 2022Review
- Understanding saffron biology using omics- and bioinformatics tools: stepping towards a better Crocus phenome.Molecular biology reports · 2022Article
- Insights from the analysis of draft genome sequence ofBioinformation · 2022Article
- SMRT sequencing of full-length transcriptome and gene expression analysis in two chemical types ofPeerJ · 2022Article
- Characterization of the gene expression profile response to drought stress inFrontiers in plant science · 2022Article
- Reconstruction of the full-length transcriptome of cigar tobacco without a reference genome and characterization of anion channel/transporter transcripts.BMC plant biology · 2021Article
- Article
- Screening of Key Proteins Affecting Floral Initiation of Saffron Under Cold Stress Using iTRAQ-Based Proteomics.Frontiers in plant science · 2021Article
- Research Progress on Plant Long Non-Coding RNA.Plants (Basel, Switzerland) · 2020Review
- Full Transcriptome Analysis of Callus Suspension Culture System ofFrontiers in genetics · 2020Article
- Full-length transcriptome sequencing provides insights into the evolution of apocarotenoid biosynthesis inComputational and structural biotechnology journal · 2020Article
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Authors and funding
8 authors at 3 institutions in 2 countries.
Funding
Abstract
backgroundSaffron crocus (Crocus sativus) is a valuable spice with medicinal uses in gynaecopathia and nervous system diseases. Identify flowering regulatory genes plays a vital role in increasing flower numbers, thereby resulting in high saffron yield.
resultsTwo full length transcriptome gene sets of flowering and non-flowering saffron crocus were established separately using the single-molecule real-time (SMRT) sequencing method. A total of sixteen SMRT cells generated 22.85 GB data and 75,351 full-length saffron crocus unigenes on the PacBio RS II panel and further obtained 79,028 SSRs, 72,603 lncRNAs and 25,400 alternative splicing (AS) events. Using an Illumina RNA-seq platform, an additional fifteen corms with different flower numbers were sequenced. Many differential expression unigenes (DEGs) were screened separately between flowering and matched non-flowering top buds with cold treatment (1677), flowering top buds of 20 g corms and non-flowering top buds of 6 g corms (1086), and flowering and matched non-flowering lateral buds (267). A total of 62 putative flower-related genes that played important roles in vernalization (VRNs), gibberellins (G3OX, G2OX), photoperiod (PHYB, TEM1, PIF4), autonomous (FCA) and age (SPLs) pathways were identified and a schematic representation of the flowering gene regulatory network in saffron crocus was reported for the first time. After validation by real-time qPCR in 30 samples, two novel genes, PB.20221.2 (p = 0.004, r = 0.52) and PB.38952.1 (p = 0.023, r = 0.41), showed significantly higher expression levels in flowering plants. Tissue distribution showed specifically high expression in flower organs and time course expression analysis suggested that the transcripts increasingly accumulated during the flower development period.
conclusionsFull-length transcriptomes of flowering and non-flowering saffron crocus were obtained using a combined NGS short-read and SMRT long-read sequencing approach. This report is the first to describe the flowering gene regulatory network of saffron crocus and establishes a reference full-length transcriptome for future studies on saffron crocus and other Iridaceae plants.
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