For organisms that lack a well-annotated reference genome or transcriptome, C3G provides de novo transcriptome assembly services, enabling researchers to reconstruct and analyze transcriptomes from raw RNA-Seq data. Using the latest bioinformatics approaches, their pipeline delivers high-quality transcript assembly, annotation, and expression analysis.

Key components of C3G’s de novo transcriptome assembly workflow include:

• Transcriptome assembly and quantification using Trinity, a widely used tool for assembling full-length transcripts from RNA-Seq data.
• Functional annotation using Trinotate, providing gene function insights through homology-based approaches.
• Differential expression analysis to identify significantly regulated genes under different conditions.
• Gene Ontology (GO) and KEGG enrichment analysis, allowing researchers to understand functional implications of gene expression changes.
• Customized visualizations to enhance data interpretation and facilitate publication-ready presentations.

C3G’s expertise in de novo RNA-Seq assembly has contributed to numerous studies, including:

• RNA-sequencing to assess the health of wild yellow perch (Perca flavescens) populations from the St. Lawrence River, Canada. PMID: 30296762
• Snow crab (Chionoecetes opilio) hepatopancreas transcriptome: Identification and testing of candidate molecular biomarkers of seismic survey impact. Access Publication
• Transcriptomic Response of Purple Willow (Salix purpurea) to Arsenic Stress. PMID: 28702037

C3G’s de novo transcriptome assembly services empower researchers to explore transcriptomic landscapes in non-model organisms, supporting discoveries in evolutionary biology, environmental science, and molecular adaptation.