Toona sinensis
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA891074 | ENA |
REPOSITORIES: ENA
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Project description:Toona sinensis, a medicinal and edible plant, holds economic and ecological significance in Asia. Despite its diverse applications, the genetic basis of leaf color formation remains unclear. This study aimed to investigate the molecular mechanisms underlying color variations across three cultivars (red, brown, green) at different developmental stages. Young tender leaflets from apical tips and fully expanded leaflets from basal positions of the same compound leaf were collected for RNA-Seq analysis.
2025-10-31 | E-MTAB-15781 | biostudies-arrayexpress
Project description:Background: Liver cancer is the third deadliest type of cancer, posing a serious threat to human health. Hepatocellular carcinoma (HCC) is the most common type of primary liver cancer. C. sinensis, classified as a definite group I carcinogen by the IARC (International Agency for Research on Cancer), is an important risk factor for HCC. Although many studies have shown that C. sinensis infection affects the prognosis of HCC patients, the specific mechanisms are still unclear, especially the dynamics and regulatory roles of chromatin accessibility. Results: In this study, we integrated ATAC-seq, RNA-seq, and ChIP-seq data to elucidate changes in the epigenetics of HCC after the C. sinensis infection. Many different accessibility regions (DARs) were identified both in tumors and adjacent tissue after the C. sinensis infection. Meanwhile, top TFs whose motifs were enriched in DAR were found, such as HNF4a, FOXI1, etc. Although there were slight deviations, epigenetic changes were found to be consistent with gene expression levels. We also revealed that H3K9ac, H3K4me2, H3K4me3, H3K27ac, and H3K4me1 were associated with chromatin accessibility. Importantly, we also found potential evidence that C. sinensis infection would alter the spatial structure of the HCC genome. Finally, both molecular experimental results and clinical data certified that C. sinensis infection would promote the metastasis of HCC. Conclusions: C. sinensis infection will remodel the chromatin accessibility of HCC, leading to changes in gene expression levels. This study provides conclusive evidence that C. sinensis infection alters the epigenetics of HCC.
2024-11-26 | GSE276855 | GEO
Project description:transcriptome sequencing was performed to analyze the gene expression profiles of Eriocheir sinensis under normal temperature (22°C) and high temperature (27°C, 32°C) conditions. The differentially expressed genes (DEGs) were identified to provide key molecular targets for elucidating the mechanisms by which temperature affects molting and development in E. sinensis.
2026-05-31 | GSE299373 | GEO
Project description:We profile transcriptome-wide m6A in female and male Anopheles sinensis and reveal that m6A is also a highly conserved modification of mRNA in mosquitoes were generated by deep sequencing, in triplicate, using illumina Novaseq™ 6000. Distinct from mammals and yeast, but similar to Arabidopsis thaliana, m6A in An. sinensis is enriched not only around the stop codon and within 3’-untranslated regions, but also around the start codon and 5’-UTR. Gene ontology analysis indicates that the unique distribution pattern of m6A in An. sinensis is associated with mosquito sex-specific pathways. In addition, the positive correlation between m6A deposition and mRNA abundance indicates that m6A can play roles in regulating gene expression in mosquitoes. Our study proposed a transcriptional regulatory network of m6A in An. sinensis, which may provide a new clue for the control of this disease-transmitting vector.
2022-05-18 | GSE193379 | GEO