Phylogeographic Analysis of African Swine Fever Virus, Western Europe, 2018

Garigliany, Mutien-Marie; Desmecht, Daniël; Tignon, Marylène; Cassart, Dominique; Lesenfant, Christophe; Paternostre, Julien; Volpe, Rosario; Cay, Ann Brigitte; Berg, Thierry van den; Lindén, Annick

doi:10.3201/eid2501.181535

Cited by 60 publications

(65 citation statements)

References 4 publications

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“…Fortunately, the isolates included in this study covered a long time period from 1950 to 2018, and also covered a large area including Africa, Europe and China, which were the major areas of the ASFV circulation. Besides, the genotype II, the most widely spread genotype in recent years (Ge et al, 2018;Zhou et al, 2018;Quembo et al, 2018;Garigliany et al, 2019), were also included and constituted nearly half of all ASFVs. Thus the results based on these isolates could reflect the genetic diversity of the ASFVs to a large extent.…”

Section: Discussionmentioning

confidence: 99%

Homologous recombination shapes the genetic diversity of African swine fever viruses

Zhu

Xiao

Fan

et al. 2019

Veterinary Microbiology

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A B S T R A C TThe African swine fever virus (ASFV) has severely influenced the swine industry of the world. Currently, there is no effective vaccine or drugs against the ASFV. How to effectively control the virus is challenging. In this study, we have analyzed all the publicly available ASFV genomes and demonstrated that there was a large genetic diversity of ASFV genomes. Interestingly, the genetic diversity was mainly caused by extensive genomic insertions and/or deletions (indels) instead of the point mutations. Further analyses showed that the indels may be attributed much to the homologous recombination, as supported by significant associations between the occurrence of extensive recombination events and the indels in the ASFV genomes. Besides, the homologous recombination also led to changes of gene content of ASFVs. Finally, repeated elements of dozens of nucleotides in length were observed to widely distribute and cluster in the adjacent positions of ASFV genomes, which may facilitate the occurrence of homologous recombination. This work highlighted the importance of homologous recombination in shaping the genetic diversity of the ASFVs, and could help understand the evolution of the virus.

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Section: Discussionmentioning

confidence: 99%

Homologous recombination shapes the genetic diversity of African swine fever viruses

Zhu

Xiao

Fan

et al. 2019

Veterinary Microbiology

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“…The DNA sequences retrieved were identical in both animals (GenBank accession no ). Alignments were performed using ClustalW implemented in Geneious v10.0.9 (Biomatters, Auckland, New Zealand), and a first phylogenetic analysis was performed (Garigliany et al, ). The Belgian strain of African swine fever clearly belonged to genotype II.…”

Section: The Studymentioning

confidence: 99%

“…Because unaffected by a significant post‐mortem decay and because of its high concentration in viral DNA (Ct = 23.3 ± 1), the piglet spleen was used as a source of viral DNA for sequencing and de novo reconstruction of the ASFV genome. Briefly, 500 mg of spleen tissue was homogenized and submitted to a viral enrichment step and total DNA extraction as described in Garigliany et al (), (). The sequencing library was prepared using Illumina's Nextera XT DNA library Prep kit, and the MiSeq reagent kit v3 (ref.…”

Section: The Studymentioning

confidence: 99%

Newly emerged African swine fever virus strain Belgium/Etalle/wb/2018: Complete genomic sequence and comparative analysis with reference p72 genotype II strains

Gilliaux

Garigliany

Licoppe

et al. 2019

Transbound Emerg Dis

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In a new example of pathogens hopscotching the globe, African swine fever virus hit north‐western Europe's wildlife in summer 2018, marking a further spread of a disease that had invaded Central and Eastern Europe recently. The complete genomic sequence of the Belgium/Etalle/wb/2018 virus is reported, with the hope it will provide a valuable tool for tracing geographical spread and biologic evolution of the virus.

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“…The molecular characterization of outbreak samples showed that isolates belong to genotype II (Ge et al., ). Similarly, in September 2018, Belgium reported ASF in two wild boars near the village of Etalle in the province of Luxembourg caused by isolates belonging to genotype II (Garigliany et al., ).…”

Section: Introductionmentioning

confidence: 97%

Re‐emergence of genotype I of African swine fever virus in Ivory Coast

Couacy‐Hymann

Kouakou

Achenbach

et al. 2018

Transbound Emerg Dis

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In July 2014, an outbreak of severe haemorrhagic disease in a domestic pig population, was reported in San‐Pedro, the second seaport city of Ivory Coast. Animals of all age groups developed clinical signs consistent with African swine fever (ASF). Tissue and serum samples from dead pigs were sent to the laboratory for diagnostic confirmation and molecular characterization based on the partial B646L (p72), the full E183L (p54) gene and the central variable region of the B602L gene. The PCR results confirmed the outbreak of ASF. Phylogenetic analyses based on p72 and p54 sequences showed that the San‐Pedro 2014 outbreak virus strain belongs to p72 genotype I. The Analysis of the tetrameric amino acid repeat regions of the B602L gene showed two repeat signatures which differ by an extra A = CAST in the second signature. The ASFV sequence of the San‐Pedro 2014 outbreak strain is closely related to historical and recent ASFV strains collected in Angola and Cameroon whose ships have repeatedly visited the seaport of San‐Pedro from March to June 2014. The 2014 viruses are distinct from the strains involved in the previous ASF wave in 1996 in Ivory Coast.

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Phylogeographic Analysis of African Swine Fever Virus, Western Europe, 2018

Cited by 60 publications

References 4 publications

Homologous recombination shapes the genetic diversity of African swine fever viruses

Homologous recombination shapes the genetic diversity of African swine fever viruses

Newly emerged African swine fever virus strain Belgium/Etalle/wb/2018: Complete genomic sequence and comparative analysis with reference p72 genotype II strains

Re‐emergence of genotype I of African swine fever virus in Ivory Coast

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