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Resources » Paper

Teterina, Anastasia et al. (2021) International Worm Meeting "Genome organization of Caenorhabditis brenneri"

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  • Overview

    Status:
    Publication type:
    Meeting_abstract
    WormBase ID:
    WBPaper00063482

    Teterina, Anastasia, Willis, John, Baer, Charles, & Phillips, Patrick (2021). Genome organization of Caenorhabditis brenneri presented in International Worm Meeting. Unpublished information; cite only with author permission.

    Caenorhabditis brenneri is an outcrossing species of nematodes in the 'Elegans' supergroup (Rhabditida) formally described by Sudhaus and Kiontke in 2007. C. brenneri is one of the most genetically diverse eukaryotes, roughly every tenth nucleotide is polymorphic, which makes it comparable to hyperdiverse bacteria (Dey et al. 2013). To study such a tremendous amount of diversity on the genome-scale, we need high-quality data and a chromosome-scale reference genome. We created a super-inbred C. brenneri strain VX0223 (300 generations of inbreeding) to remove the residual heterozygosity and constructed a telomere-to-telomere genome assembly using highly accurate long-reads, short-reads, and genome-wide chromatin organization data, as well as full-length transcript sequencing and RNA-seq for the genome annotation. We have shown that C. brenneri has a similar pattern of genome organization to other Caenorhabditis species, with a higher gene density in the central regions of chromosomes and the peripheral parts of chromosomes enriched with repeats. However, the percentage of the repetitive elements in the genome is lower than in other outcrossing species of Caenorhabditis, only 16.3% (C. remanei and C. inopinata have 23% and 30%). That is inconsistent with the previously reported higher repeat abundance in C. brenneri (Feschotte et al. 2009, Fierst at al. 2015), which is probably connected to the higher duplication level and redundancy in the previously available genome assemblies (caePb2 and GCA_000143925.2).

    Affiliations:
    - Center of Parasitology, Severtsov Institute of Ecology and Evolution RAS, Moscow, Russia
    - Department of Biology, University of Florida, Gainesville, FL
    - Institute of Ecology and Evolution, University of Oregon, Eugene, OR


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