The Genome Sequence of the 6-spot Burnet, (Linnaeus, 1758)

Overview

Journal Wellcome Open Res

Specialty Biomedical Engineering

Date 2024 Sep 26

PMID 39323974

Authors

Douglas Boyes

Liam M Crowley

Chelsea Skojec

David Plotkin

Akito Y Kawahara

Affiliations

Soon will be listed here.

Abstract

We present a genome assembly from an individual female (6-spot burnet; Arthropoda; Insecta; Lepidoptera; Zygaenidae). The genome sequence is 365.9 megabases in span. The majority of the assembly (99.99%) is scaffolded into 31 chromosomal pseudomolecules, with the W and Z sex chromosomes assembled. The complete mitochondrial genome was also assembled and is 15.6 kilobases in length. Gene annotation of this assembly on Ensembl has identified 12,493 protein coding genes.

References

Chow W, Brugger K, Caccamo M, Sealy I, Torrance J, Howe K . gEVAL - a web-based browser for evaluating genome assemblies. Bioinformatics. 2016; 32(16):2508-10. PMC: 4978925. DOI: 10.1093/bioinformatics/btw159. View

Rao S, Huntley M, Durand N, Stamenova E, Bochkov I, Robinson J . A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping. Cell. 2014; 159(7):1665-80. PMC: 5635824. DOI: 10.1016/j.cell.2014.11.021. View

Zagrobelny M, Dalsten L, Hille A . Colonization of Northern Europe by (Lepidoptera). Ecol Evol. 2019; 9(8):4796-4804. PMC: 6476778. DOI: 10.1002/ece3.5082. View

. UniProt: a worldwide hub of protein knowledge. Nucleic Acids Res. 2018; 47(D1):D506-D515. PMC: 6323992. DOI: 10.1093/nar/gky1049. View

Howe K, Chow W, Collins J, Pelan S, Pointon D, Sims Y . Significantly improving the quality of genome assemblies through curation. Gigascience. 2021; 10(1). PMC: 7794651. DOI: 10.1093/gigascience/giaa153. View

Allio R, Schomaker-Bastos A, Romiguier J, Prosdocimi F, Nabholz B, Delsuc F . MitoFinder: Efficient automated large-scale extraction of mitogenomic data in target enrichment phylogenomics. Mol Ecol Resour. 2020; 20(4):892-905. PMC: 7497042. DOI: 10.1111/1755-0998.13160. View

Kerpedjiev P, Abdennur N, Lekschas F, McCallum C, Dinkla K, Strobelt H . HiGlass: web-based visual exploration and analysis of genome interaction maps. Genome Biol. 2018; 19(1):125. PMC: 6109259. DOI: 10.1186/s13059-018-1486-1. View

Zagrobelny M, Bak S, Ekstrom C, Olsen C, Moller B . The cyanogenic glucoside composition of Zygaena filipendulae (Lepidoptera: Zygaenidae) as effected by feeding on wild-type and transgenic lotus populations with variable cyanogenic glucoside profiles. Insect Biochem Mol Biol. 2006; 37(1):10-8. DOI: 10.1016/j.ibmb.2006.09.008. View

Manni M, Berkeley M, Seppey M, Simao F, Zdobnov E . BUSCO Update: Novel and Streamlined Workflows along with Broader and Deeper Phylogenetic Coverage for Scoring of Eukaryotic, Prokaryotic, and Viral Genomes. Mol Biol Evol. 2021; 38(10):4647-4654. PMC: 8476166. DOI: 10.1093/molbev/msab199. View

10.

Zagrobelny M, Bak S, Olsen C, Moller B . Intimate roles for cyanogenic glucosides in the life cycle of Zygaena filipendulae (Lepidoptera, Zygaenidae). Insect Biochem Mol Biol. 2007; 37(11):1189-97. DOI: 10.1016/j.ibmb.2007.07.008. View

11.

Challis R, Richards E, Rajan J, Cochrane G, Blaxter M . BlobToolKit - Interactive Quality Assessment of Genome Assemblies. G3 (Bethesda). 2020; 10(4):1361-1374. PMC: 7144090. DOI: 10.1534/g3.119.400908. View

12.

Cheng H, Concepcion G, Feng X, Zhang H, Li H . Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm. Nat Methods. 2021; 18(2):170-175. PMC: 7961889. DOI: 10.1038/s41592-020-01056-5. View

13.

Aken B, Ayling S, Barrell D, Clarke L, Curwen V, Fairley S . The Ensembl gene annotation system. Database (Oxford). 2016; 2016. PMC: 4919035. DOI: 10.1093/database/baw093. View

14.

Ghurye J, Rhie A, Walenz B, Schmitt A, Selvaraj S, Pop M . Integrating Hi-C links with assembly graphs for chromosome-scale assembly. PLoS Comput Biol. 2019; 15(8):e1007273. PMC: 6719893. DOI: 10.1371/journal.pcbi.1007273. View

15.

Guan D, McCarthy S, Wood J, Howe K, Wang Y, Durbin R . Identifying and removing haplotypic duplication in primary genome assemblies. Bioinformatics. 2020; 36(9):2896-2898. PMC: 7203741. DOI: 10.1093/bioinformatics/btaa025. View

16.

Zagrobelny M, Olsen C, Pentzold S, Furstenberg-Hagg J, Jorgensen K, Bak S . Sequestration, tissue distribution and developmental transmission of cyanogenic glucosides in a specialist insect herbivore. Insect Biochem Mol Biol. 2013; 44:44-53. DOI: 10.1016/j.ibmb.2013.11.003. View