Cucume

Cucume catalogs RNA methylation and graft-transmissible systemic mRNA data in Cucumis sativus and Cucurbita moschata to enable genome-wide analysis of 5-methylcytosine (m5C) and N6-methyladenosine (m6A) distribution, identification of mobile RNAs from vascular exudates, and integration with GWAS and QTL to investigate genetic and epigenetic regulation of traits.

Key Features:

• RNA Methylation Mapping: Genome-wide identification of 5-methylcytosine (m5C) and N6-methyladenosine (m6A) sites in cucumber and pumpkin using Methylated RNA Immunoprecipitation sequencing (MeRIP-seq) across multiple tissues, including vascular exudates.
• Systemic mRNA Signals: Compilation of graft-transmissible systemic mRNAs identified from cucumber/pumpkin heterograft studies to enable analysis of methylation-dependent RNA mobility.
• Integration with Genetic Studies: Incorporation of genome-wide association studies (GWAS) and quantitative trait loci (QTL) data to link RNA methylation and mobile RNAs with genetic loci and trait variation.
• Research-focused Data: Support for analyses of post-transcriptional regulation mediated by RNA methylation and for investigating the roles of long-distance mobile RNAs in stress responses and agronomic traits.

Scientific Applications:

• Post-transcriptional regulation: Analyze the roles of m5C and m6A modifications in post-transcriptional regulation in Cucumis sativus and Cucurbita moschata.
• Long-distance signaling and stress tolerance: Investigate graft-transmissible mobile RNAs and their contributions to long-distance signaling and stress tolerance across tissues.
• Breeding and trait association: Link RNA methylation and mobile RNAs to GWAS- and QTL-identified loci to inform crop improvement and germplasm resilience studies.

Methodology:

MeRIP-seq and other high-throughput sequencing approaches were used to map m5C and m6A sites genome-wide; graft-transmissible mRNAs were identified from cucumber/pumpkin heterograft studies; GWAS and QTL datasets were integrated with methylation maps.