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Chromosome-level genome assembly of the European Green woodpecker Picus viridis

Forest, T.; Achaz, G.; Marbouty, M.; Bignaud, A.; Thierry, A.; Koszul, R.; Milhes, M.; Lledo, J.; Pons, J.-M.; Fuchs, J.

2023-12-20 genomics
10.1101/2023.12.18.572251 bioRxiv
Show abstract

The European Green Woodpecker, Picus viridis, is a widely distributed species found in the Western Palearctic region. Here we assembled a highly contiguous genome assembly for this species using a combination of short and long reads sequencing and scaffolded with chromatin conformation capture (Hi-C). The final genome assembly was 1.28 Gb and features a scaffold N50 of 37Mb and a scaffold L50 of 39.165 Mb. The assembly incorporates 89.4% of the genes identified in birds in OrthoDB. Gene and repetitive content annotation on the assembly detected 15,805 genes and a [~]30.1% occurrence of repetitive elements, respectively. Analysis of synteny demonstrates the fragmented nature of the Picus viridis genome when compared to the chicken (Gallus gallus). The assembly and annotations produced in this study will certainly help for further research into the genomics of P. viridis and the comparative evolution of woodpeckers.

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