Webinar: multi-dimensional insights,in one go-streamlined T2T plant assemblies and integrated multi-omics
From fundamental genome research to applied agricultural innovation, Oxford Nanopore sequencing is transforming the way scientists investigate genomes, ecosystems, and evolutionary processes. In this webinar, you will learn how our single, flexible platform is empowering the plant and animal genomics community with complete, actionable, and globally accessible insights.
Meet the speakers
Modern plant breeding programs seek to leverage our understanding of genotype-phenotype associations to guide parent selection for hybridisation and facilitate gene editing. Tree crops are often information-poor regarding the genetics that underlie horticulturally important phenotypes, owing to challenges including long juvenile phases and small population sizes. Partnered with the Australian citrus breeding program at Bundaberg Research Station (QLD), we have performed long-read sequencing of > 30 individuals of the Australian native Citrus glauca. Highly complete haplotype-phased assemblies have been generated for each individual which serve as the foundation for further analyses. Through use of comparative genomic analysis, we have identified the genetic basis underlying an early flowering phenotype found in a naturally occurring mutant citrus. Pangenomic analysis is also being used to elucidate a plant architecture trait which segregates amongst the progeny of a C. glauca × C. reticulata (mandarin) cross. These genomic resources offer unique opportunities to gain further knowledge of citrus genetics that translate to actionable outcomes for the Australian citrus breeding program.
Modern plant breeding programs seek to leverage our understanding of genotype-phenotype associations to guide parent selection for hybridisation and facilitate gene editing. Tree crops are often information-poor regarding the genetics that underlie horticulturally important phenotypes, owing to challenges including long juvenile phases and small population sizes. Partnered with the Australian citrus breeding program at Bundaberg Research Station (QLD), we have performed long-read sequencing of > 30 individuals of the Australian native Citrus glauca. Highly complete haplotype-phased assemblies have been generated for each individual which serve as the foundation for further analyses. Through use of comparative genomic analysis, we have identified the genetic basis underlying an early flowering phenotype found in a naturally occurring mutant citrus. Pangenomic analysis is also being used to elucidate a plant architecture trait which segregates amongst the progeny of a C. glauca × C. reticulata (mandarin) cross. These genomic resources offer unique opportunities to gain further knowledge of citrus genetics that translate to actionable outcomes for the Australian citrus breeding program.
Zachary Stewart , PhD candidate , Queensland University of TechnologyOxford Nanopore sequencing provides a flexible solution for generating multi-omics data on a single platform. Here, we present Oxford Nanopore-only workflows established in our lab for genome assembly and integrated multi-omics research. Using optimised DNA extraction protocols, we routinely obtain ultra-long reads with N50 values exceeding 150 kb from optimised samples such as fibrous plants and small invertebrates, enabling highly contiguous, gap-free genome assemblies that resolve complex repetitive regions. For challenging silica-dried specimens, we implemented dedicated extraction and library preparation strategies to improve DNA integrity and compatibility with Oxford Nanopore sequencing. Building on this genomic foundation, we applied Oxford Nanopore-based workflows for full-length transcriptome sequencing and developed epigenomic workflows, including our SMAC-seq implementation, enabling single-molecule profiling of transcript boundaries, isoforms, chromatin accessibility, and DNA methylation. These workflows provide practical solutions for studying genome structure and multi-omics regulation across diverse biological systems.
Oxford Nanopore sequencing provides a flexible solution for generating multi-omics data on a single platform. Here, we present Oxford Nanopore-only workflows established in our lab for genome assembly and integrated multi-omics research. Using optimised DNA extraction protocols, we routinely obtain ultra-long reads with N50 values exceeding 150 kb from optimised samples such as fibrous plants and small invertebrates, enabling highly contiguous, gap-free genome assemblies that resolve complex repetitive regions. For challenging silica-dried specimens, we implemented dedicated extraction and library preparation strategies to improve DNA integrity and compatibility with Oxford Nanopore sequencing. Building on this genomic foundation, we applied Oxford Nanopore-based workflows for full-length transcriptome sequencing and developed epigenomic workflows, including our SMAC-seq implementation, enabling single-molecule profiling of transcript boundaries, isoforms, chromatin accessibility, and DNA methylation. These workflows provide practical solutions for studying genome structure and multi-omics regulation across diverse biological systems.
Xiaojun Su, Genomic product director, Sailgene
