Phylogenetic analysis of near full-length sequences of the Desmodus rotundus genetic lineage of rabies virus

Campos, Angélica Cristine de Almeida; Romano, Camila Malta; Melo, Fernando Lucas; Araújo, Danielle Bastos; Cunha, Elenice Maria Sequetin; Sacramento, D.; Durigon, Edison Luiz; Lazarini, Silvana Regina Favoretto

doi:10.1016/j.meegid.2020.104179

Cited by 3 publications

(3 citation statements)

References 73 publications

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“…Phylogenetic analysis was performed on the full-length genome of 79 RABV strains from the database and 21 newly sequenced strains ( Table 1 and Supplementary Table S1 ). A phylogenetic analysis using MEGA10 software with the NJ algorithm and a consensus of 1000 bootstrap replicates revealed two major phylogenetic groups corresponding to bat- and dog-related RABVs, which were further subdivided into several clades ( Figure 1 ), consistent with previously reported analyses of smaller datasets and individual RABV genes [ 25 , 26 , 27 ].…”

Section: Resultssupporting

confidence: 86%

Genetic Characterization of Human Rabies Vaccine Strain in Japan and Rabies Viruses Related to Vaccine Development from 1940s to 1980s

Horiya

Posadas-Herrera

Takayama-Ito

et al. 2022

Viruses

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The rabies virus is widely distributed and vaccines are an important strategy to prevent its spread. The whole-genome sequences of rabies strains in relation to vaccine development provide essential information to maintain vaccine quality and develop new vaccines. However, the genetic characteristics of the purified chick embryo cell culture rabies vaccine, KM Biologics (PCECV-KMB), developed in Japan in the 1970s, have not been explored. In this study, we conducted a genome-wide analysis of the open reading frame regions of rabies strains discovered from the 1940s–1980s and used to develop chick embryo cell-adapted HEP-Flury small plaque-forming (CEF-S) strain, which is a vaccine strain of PCECV-KMB. The genetic characteristic of CEF-S, developed by acclimation of the HEP-Flury-NIID strain to one-day eggs and subsequently to chick embryo cells, were confirmed by comparing the genome identity and revealing the nine amino acid mutations between CEF-S and HEP-Flury-NIID. The efficacy of PCECV-KMB was evaluated using attack strains isolated in Thailand in the 1960s–1970s during vaccine development. Phylogenetic analyses of the attack strains classified them in the same Asian clade as the 2000s imported cases from the Philippines to Japan, suggesting that PCECV-KMB is adequate for preventing the spread of the current rabies virus.

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Section: Resultssupporting

confidence: 86%

Genetic Characterization of Human Rabies Vaccine Strain in Japan and Rabies Viruses Related to Vaccine Development from 1940s to 1980s

Horiya

Posadas-Herrera

Takayama-Ito

et al. 2022

Viruses

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“…Genomes phylogenetic analysis and nucleoprotein sequence show that isolate D03-18 did not cluster in the same subclade as isolates D01-18, D02-18, and D04-18. The differences observed in isolate D03-18 with the other national isolates can be due to adaptations in the evolutionary dynamics of the virus lineages in D. rotundus (Brunker et al, 2018;de Almeida Campos et al, 2020) based on the spread of the virus strain in bat colonies (León et al, 2021;Streicker et al, 2019).…”

Section: Discussionmentioning

confidence: 99%

Phylogenetic relationships of a rabies virus isolate in Costa Rica

Rodriguez

León

Carvajal

2021

URJ

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Introduction: The sylvatic cycle of rabies is a significant sanitary burden in Central America. The Costa Rican government monitors cases since 1985 and infections from bats are still reported for wild animals, livestock, and humans, generating a need of further pathogen characterization in the region. Objective: To compare rabies phylogenetic analyses from complete genomes with nucleoprotein gene studies. Methods: For the phylogenetic analyses we used four rabies tissue samples collected in 2018, and generated complete genomes by Next-Generation sequencing (NGS). We also extracted RNA from tissues of confirmed cases and generated ssDNA using several primers. Double-stranded DNA was generated and used to generate genomic libraries. Results: We describe, for the first-time, the complete genome of four sequences of the rabies virus isolated in Costa Rica in 2018. Complete genome trees resembled the topology of nucleoprotein gene trees. All isolates were related to Desmodus rotundus. One sample group into Lineage (L)2, and the remaining samples group in L1, matched previous reports from regional rabies viruses. Conclusion: Our method produces valid viral assemblies from clinical specimens without target enrichment or viral isolation.

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“…For a better understanding of the epidemiology of rabies transmitted to dogs and cats and the evolution of RABV in the bat species Artibeus lituratus and Desmodus rotundus, the study of viral genomes with a representative sample size is critical. Few RABV genome sequences with the Desmodus rotundus/Artibeus lituratus lineage have been characterized and are available in GenBank (Mochizuki et al 2011, Campos et al, 2020, Oliveira et al, 2020.…”

Section: Introductionmentioning

confidence: 99%

Evolution and divergence of the genetic lineage Desmodus rotundus/Artibeus lituratus of rabies virus in São Paulo State

de Souza,

Oliveira,

Asprino

et al. 2023

Arch Virol

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Since 1998, with the occurrence of the last case of rabies in dogs or cats in São Paulo State related to the dog-speci c rabies virus (RABV) lineage, 55 cases of rabies in these animals have been reported until 2021, and the vast majority (51) have been genetically characterized as belonging to the Desmodus rotundus/Artibeus lituratus lineage of RABV, However, it has not been demonstrated so far if there is the possibility to infer which of these bats acted as a source of infection in these cases through the genetic sequencing of isolated RABV. In order to characterize the Desmodus rotundus/Artibeus lituratus lineage aiming at the possibility of differentiating its isolates in RABV associated with each of these reservoirs, this research performed the DNA sequencing technique by ampli cation on the Illumina Miseq platform in 70 RABV isolates from the State of São Paulo, sent to the virology laboratory of the Pasteur Institute of São Paulo between 2006-2015, being 33 related to the hematophagous bat D. rotundus and 37 to the fruit bat A. lituratus. A genomic approach using phylogenetic and nucleotide identity analyses demonstrated that the isolates investigated in this study can be considered as belonging to the same genetic lineage of RABV and that in São Paulo State the D. rotundus/A. lituratus lineage is subdivided into at least four phylogenetic sub lineages, two associated with D. rotundus and two with A. lituratus, and that these results can be practically applied to the epidemiological surveillance of rabies in this state.

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Phylogenetic analysis of near full-length sequences of the Desmodus rotundus genetic lineage of rabies virus

Cited by 3 publications

References 73 publications

Genetic Characterization of Human Rabies Vaccine Strain in Japan and Rabies Viruses Related to Vaccine Development from 1940s to 1980s

Genetic Characterization of Human Rabies Vaccine Strain in Japan and Rabies Viruses Related to Vaccine Development from 1940s to 1980s

Phylogenetic relationships of a rabies virus isolate in Costa Rica

Evolution and divergence of the genetic lineage Desmodus rotundus/Artibeus lituratus of rabies virus in São Paulo State

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