ArticleBMC genomics2013
Mining genes involved in the stratification of Paris polyphylla seeds using high-throughput embryo transcriptome sequencing.
Article in BMC genomics, 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, 58 citations in OpenAlex.
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- Analysis of the difference between early-bolting and non-bolting roots of Angelica dahurica based on transcriptome sequencing.Scientific reports · 2023Article
- Multiomics strategies for decoding seed dormancy breakdown in Paris polyphylla.BMC plant biology · 2023Article
- RNA-seq study reveals the signaling and carbohydrate metabolism regulators involved in dormancy release by warm stratification inPlant biotechnology (Tokyo, Japan) · 2022Article
- Dynamic RNA-Seq Study Reveals the Potential Regulators of Seed Germination inPlants (Basel, Switzerland) · 2022Article
- Effective prediction of biosynthetic pathway genes involved in bioactive polyphyllins in Paris polyphylla.Communications biology · 2022Article
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- Comparative genome analysis reveals high-level drug resistance markers in a clinical isolate ofFrontiers in cellular and infection microbiology · 2022Article
- Transcriptome profiles revealed molecular mechanisms of alternating temperatures in breaking the epicotyl morphophysiological dormancy of Polygonatum sibiricum seeds.BMC plant biology · 2021Article
- Bacterial Diversity in Roots, Stems, and Leaves of Chinese Medicinal PlantPolish journal of microbiology · 2020Article
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- Transcriptome Analysis Reveals the Molecular Mechanisms Underlying Adenosine Biosynthesis in Anamorph Strain of Caterpillar Fungus.BioMed research international · 2019Article
- Identification of genes involved in metabolism and signalling of abscisic acid and gibberellins during Epimedium pseudowushanense B.L.Guo seed morphophysiological dormancy.Plant cell reports · 2018Article
- Transcriptome-Wide Identification and Prediction of miRNAs and Their Targets in Paris polyphylla var. yunnanensis by High-Throughput Sequencing Analysis.International journal of molecular sciences · 2017Article
- Enhancement of Nucleoside Production inBioMed research international · 2017Article
- Transcriptomic analysis of American ginseng seeds during the dormancy release process by RNA-Seq.PloS one · 2015Article
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Authors and funding
11 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundParis polyphylla var. yunnanensis is an important medicinal plant. Seed dormancy is one of the main factors restricting artificial cultivation. The molecular mechanisms of seed dormancy remain unclear, and little genomic or transcriptome data are available for this plant.
resultsIn this study, massive parallel pyrosequencing on the Roche 454-GS FLX Titanium platform was used to generate a substantial sequence dataset for the P. polyphylla embryo. 369,496 high quality reads were obtained, ranging from 50 to 1146 bp, with a mean of 219 bp. These reads were assembled into 47,768 unigenes, which included 16,069 contigs and 31,699 singletons. Using BLASTX searches of public databases, 15,757 (32.3%) unique transcripts were identified. Gene Ontology and Cluster of Orthologous Groups of proteins annotations revealed that these transcripts were broadly representative of the P. polyphylla embryo transcriptome. The Kyoto Encyclopedia of Genes and Genomes assigned 5961 of the unique sequences to specific metabolic pathways. Relative expression levels analysis showed that eleven phytohormone-related genes and five other genes have different expression patterns in the embryo and endosperm in the seed stratification process.
conclusionsGene annotation and quantitative RT-PCR expression analysis identified 464 transcripts that may be involved in phytohormone catabolism and biosynthesis, hormone signal, seed dormancy, seed maturation, cell wall growth and circadian rhythms. In particular, the relative expression analysis of sixteen genes (CYP707A, NCED, GA20ox2, GA20ox3, ABI2, PP2C, ARP3, ARP7, IAAH, IAAS, BRRK, DRM, ELF1, ELF2, SFR6, and SUS) in embryo and endosperm and at two temperatures indicated that these related genes may be candidates for clarifying the molecular basis of seed dormancy in P. polyphlla var. yunnanensis.
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