2024/02/14 by Boas Pucker · 1 voice · 2 citations
Biochemistry, Genetics and Molecular Biology · #Genetics, Bioinformatics, and Biomedical Research #Genomics and Phylogenetic Studies #Machine Learning in Bioinformatics
paper · pdf · doi:10.20944/preprints202402.0645.v1
openalex publication_date 2024/02/14 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/30
This review provides an overview of advancements in plant genomics, emphasizing key stages in genomics projects and addressing associated challenges. Long read sequencing enables the cost-effective sequencing of plant DNA and assembly of highly continuous genome sequences - often even separating haplophases. Incorporating external hints, such as cDNA sequences from RNA-seq or full length cDNA sequencing, enhances the identification of gene models. While these steps enable high-throughput exploration of numerous plant genomes, a significant bottleneck lies in elucidating gene functions. The classical approach based on wet lab methods is impractical when dealing with thousands of genes in a new genome sequence. To overcome this challenge, computational tools harnessing existing information for cross species knowledge transfer are essential for expediting the functional annotation process. In support of researchers entering the field of plant genomics, a collection of recommended tools has been curated and is accessible at https://github.com/bpucker/ToolOverview.