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Updated: Nov 11, 2025
Small-Scale Extraction of Caenorhabditis elegans Genomic DNA
Published on: June 7, 2022
First Genomic Resource of the Columbia Lance Nematode Hoplolaimus columbus
Xinyuan Ma1, J Antonio Baeza2,3,4, Vincent P Richards2
1Department of Plant and Environmental Sciences, Clemson University, Clemson, SC 29634, U.S.A.
Abstract:
The Columbia lance nematode Hoplolaimus columbus has been reported frequently from North America due to its negative impact on agricultural production. In this study, for the first time, we sequenced the whole genome of a female specimen by using whole-genome amplification and Illumina MiSeq. Data were de novo assembled to form scaffolds of 205.75 Mbp consisting of 118,374 contigs. The largest scaffold was 636,881 bp. Benchmarking Universal Single-Copy Orthologs completeness was 66.6% (eukaryotic dataset), and >8,000 unique genes were predicted by GeneMark-ES. In total, 61,855 protein sequences were predicted by AUGUSTUS, and 10,085 of them were annotated by PANNZER2 with at least one function. These data will provide valuable resources for studies focusing on pathogenicity and phylogenomics of plant-parasitic nematodes.
