A robust, cost-effective and widely applicable whole-genome sequencing protocol for capripoxviruses.

"table 1 id strain species sample type amplicon length sequencing platform genbank accession (sra bioproject) reference sa-neethling attenuated lsdv strain sa-neethling lsdv cell culture 5500-7500 miseq (7500) rsii (7500) minion (7500) mw435866 (prjna661421) this study lsdv skin sample 7500 - - caprivac gorgan gtpv vaccine batch 5500-7500 rsii (5500) kx576657 ( ) jovivac yugoslavian rm65 sppv vaccine batch 5500-7500 - kj818284 kj818291 (tuppurainen et al 2014) kenyavac ksgp 0240 lsdv vaccine batch 5500 rsii kx683219 ( ) lumpyvax attenuated strain sis lsdv vaccine batch 5500 rsii kx764643 (mathijs et al 2017 2016b) herbivac attenuated strains sa-neethling kx764644 lsd obp kx764645 evros/grc/15 field strain greece 2015 lsdv cell culture 7500 miseq ky829023 ( ) kubash/kaz/16 field strain kazakhstan 2016 lsdv skin sample 7500 miseq mn642592 (prjna587601) ( ) 219-249/bul/16 field strain bulgaria 2016 lsdv blood sample 7500 miseq mt643825 (prjna641001) ( ) 20l42_quyet-thang/vnm/20 field strain vietnam 2020 lsdv skin sample 7500 miseq mz577073 (submitted for publication) 20l43_ly-quoc/vnm/20 mz577074 20l70_dinh-to/vnm/20 mz577075 20l81_bang-thanh/vnm/20 mz577076 lsd(v) = lumpy skin disease (virus); gtpv = goatpox virus; sppv = sheeppox virus.; the annotated full genome sequence can be accessed at genbank accession number mw435866 3 3 1 due to the at-rich nature of the capv genome finding suitable regions for primer design was challenging.; the raw sequencing data for these libraries have been submitted to the short read archive under the bioproject number prjna661421."

"Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper."

"We thank Maria Matic Vastag, Ina Musch and Lotte Weckx for their technical assistance. This work was supported by funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 773701 (DEFEND), the GALVmed project Nr CAO-R34A0856 on lumpy skin disease, 10.13039/100000865Bill and Melinda Gates Foundation (Grant Agreement; Investment ID OPP1126866), EU reference laboratory for diseases caused by capripox viruses and Sciensano intramural funding. Kris De Clercq: Supervision, Funding acquisition"