Conclusion

In summary, we present the most complete H. glycines assembly, with a consensus gene prediction pipeline sensitive to the prediction of high-copy parasitism-related genes. We confirm this with a high percentage of synteny to previous assemblies, high read mapping rates, and the complete integration of all contigs into nine pseudomolecules. Using currently available data, we compiled a comprehensive resource that extensively annotates H. glycines genes, a critical resource for the development of advanced technology to combat this pest. This resource will be integrated into SCNBase.org, which further extends the transparency and availability of H. glycines genomic data. To demonstrate the utility of this new resource, we assessed the conservation of previously published effectors and leveraged published RNAseq and gene features to further explore effector expression during the host-parasite exchange.

Data availability

All scripts and notes used to prepare this genome are available at Dovetail2SCNGenome@github.com. The genome, annotation, and Hi-C reads were uploaded to Genbank and SRA under the Bioproject PRJNA603076 and SRR8381095. All genome track data and annotations will also be hosted on SCNBase.org.

Author Contributions

Conceptualization – REM, AJS, TM, TB; Data curation – REM, MH; formal analysis – REM, AS, TM; funding acquisition – AJS, TM, TB; investigations – REM, AJS, TM, TB; methodology – REM, TM, AJS, TB; resources – AJS, TM, MH, TB; Software – REM, AJS; Validation – REM; Visualization – REM; Writing – REM; Review and Editing – REM, TM, MH, AJS, TB