Work

Generating high quality reference genomes from field collected specimens by optimizing preservation

Year: 2023

Type: preprint

Abstract: Sample preservation challenges efforts to generate high-quality reference genomes or pangenomes for all 2 million+ plant and animal species. Here we show 95% ethanol protects against degradation for fish blood (22°C, ≤6 weeks) and plant tissue (4°C, ≤3 weeks). Using Nanopore, we assemble high quality reference genomes from three fish and two plant species (contig N50: 6.5-13.8Mb; BUSCO completeness: 94.4-99.2%; QV: 43.8 for M. esculenta ).

Source: bioRxiv (Cold Spring Harbor Laboratory)

DOI: 10.1101/2023.03.10.532097

Authors: Jeremiah J Minich, Malia L Moore, Nicholas A Allsing, Emily R Murray, Loi Tran, Todd P Michael

Institutions: Salk Institute for Biological Studies, Scripps Institution of Oceanography

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: green

Funders: National Science Foundation, Bill and Melinda Gates Foundation

Awards: Salk Institute for Biological Studies - to develop high-quality genome assemblies of heterozygous cassava varieties and new tools for pangenome analyses to serve breeding programs that ne..., NSF Postdoctoral Fellowship in Biology FY 2020