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Abstract

Since the beginning of 2023, the number of people with suspected monkeypox virus (MPXV) infection have sharply increased in the Democratic Republic of the Congo (DRC). We report near-to-complete MPXV genome sequences derived from six cases from the South Kivu province. Phylogenetic analyses reveal that the MPXV affecting the cases belongs to a novel Clade I sub-lineage. The outbreak strain genome lacks the target sequence of the probe and primers of a commonly used Clade I-specific real-time PCR.

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/content/10.2807/1560-7917.ES.2024.29.11.2400106
2024-03-14
2024-11-21
http://instance.metastore.ingenta.com/content/10.2807/1560-7917.ES.2024.29.11.2400106
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References

  1. World Health Organization (WHO). Mpox (monkeypox) - Democratic Republic of the Congo. Geneva: WHO; 23 Nov 2023. Available from: https://www.who.int/emergencies/disease-outbreak-news/item/2023-DON493
  2. Multi-country outbreak of mpox. External situation report#30 – 25 November 2023. Geneva: World Health Organization. [Accessed 14 Feb 2024]. Available from: https://www.who.int/publications/m/item/multi-country-outbreak-of-mpox--external-situation-report-30---25-november-2023
  3. Kibungu EM, Vakaniaki EH, Kinganda-Lusamaki E, Kalonji-Mukendi T, Pukuta E, Hoff NA, et al. , International Mpox Research Consortium. Clade I-Associated Mpox Cases Associated with Sexual Contact, the Democratic Republic of the Congo. Emerg Infect Dis. 2024;30(1):172-6.  https://doi.org/10.3201/eid3001.231164  PMID: 38019211 
  4. Murhula LM, Udahemuka JC, Ndishimye P, Sganzerla Martinez G, Kelvin P, Bubala Nadine M, et al. Epidemiology, clinical characteristics, and transmission patterns of a novel Mpox (Monkeypox) outbreak in eastern Democratic Republic of the Congo (DRC): an observational, cross-sectional cohort study.  medRxiv. 2024.03.05.24303395. Preprint.  https://doi.org/10.1038/s41598-021-92315-8  PMID: 34158533 
  5. Welkers M, Jonges M, Van Den Ouden A. Monkeypox virus whole genome sequencing using combination of NextGenPCR and Oxford Nanopore. protocols.io. 12 Jul 2022. Available from: https://protocols.io/view/monkeypox-virus-whole-genome-sequencing-using-comb-ccc7sszn
  6. Martin M. Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet J. 2011;17(1):10.  https://doi.org/10.14806/ej.17.1.200 
  7. Schuele L, Boter M, Nieuwenhuijse DF, Götz H, Fanoy E, de Vries H, et al. Circulation, viral diversity and genomic rearrangement in mpox virus in the Netherlands during the 2022 outbreak and beyond. J Med Virol. 2024;96(1):e29397.  https://doi.org/10.1002/jmv.29397  PMID: 38235923 
  8. Nieuwenhuijse DF, van der Linden A, Kohl RHG, Sikkema RS, Koopmans MPG, Oude Munnink BB. Towards reliable whole genome sequencing for outbreak preparedness and response. BMC Genomics. 2022;23(1):569.  https://doi.org/10.1186/s12864-022-08749-5  PMID: 35945497 
  9. Hadfield J, Megill C, Bell SM, Huddleston J, Potter B, Callender C, et al. Nextstrain: real-time tracking of pathogen evolution. Bioinformatics. 2018;34(23):4121-3.  https://doi.org/10.1093/bioinformatics/bty407  PMID: 29790939 
  10. Katoh K, Misawa K, Kuma K, Miyata T. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res. 2002;30(14):3059-66.  https://doi.org/10.1093/nar/gkf436  PMID: 12136088 
  11. Minh BQ, Schmidt HA, Chernomor O, Schrempf D, Woodhams MD, von Haeseler A, et al. IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era. Mol Biol Evol. 2020;37(5):1530-4.  https://doi.org/10.1093/molbev/msaa015  PMID: 32011700 
  12. Rambaut A. FigTree. 2016. Available from: http://tree.bio.ed.ac.uk/software/figtree/
  13. Elbe S, Buckland-Merrett G. Data, disease and diplomacy: GISAID’s innovative contribution to global health. Glob Chall. 2017;1(1):33-46.  https://doi.org/10.1002/gch2.1018  PMID: 31565258 
  14. World Health Organization (WHO). Multi-country monkeypox outbreak in non-endemic countries. Geneva: WHO; 21 May 2022. Available from: https://www.who.int/emergencies/disease-outbreak-news/item/2022-DON385
  15. Li Y, Zhao H, Wilkins K, Hughes C, Damon IK. Real-time PCR assays for the specific detection of monkeypox virus West African and Congo Basin strain DNA. J Virol Methods. 2010;169(1):223-7.  https://doi.org/10.1016/j.jviromet.2010.07.012  PMID: 20643162 
  16. World Health Organization (WHO). Monkeypox: experts give virus variants new names. Geneva: WHO; 12 August 2022. Available from: https://www.who.int/news/item/12-08-2022-monkeypox--experts-give-virus-variants-new-names
  17. Ladnyj ID, Ziegler P, Kima E. A human infection caused by monkeypox virus in Basankusu Territory, Democratic Republic of the Congo. Bull World Health Organ. 1972;46(5):593-7. PMID: 4340218 
  18. Brinkmann A, Pape K, Uddin S, Woelk N, Förster S, Jessen H, et al. Genome sequencing of the mpox virus 2022 outbreak with amplicon-based Oxford Nanopore MinION sequencing. J Virol Methods. 2024;325:114888.  https://doi.org/10.1016/j.jviromet.2024.114888  PMID: 38246565 
  19. Nakazawa Y, Mauldin MR, Emerson GL, Reynolds MG, Lash RR, Gao J, et al. A phylogeographic investigation of African monkeypox. Viruses. 2015;7(4):2168-84.  https://doi.org/10.3390/v7042168  PMID: 25912718 
  20. Berthet N, Descorps-Declère S, Besombes C, Curaudeau M, Nkili Meyong AA, Selekon B, et al. Genomic history of human monkey pox infections in the Central African Republic between 2001 and 2018. Sci Rep. 2021;11(1):13085.  https://doi.org/10.1038/s41598-021-92315-8  PMID: 34158533 
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