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Molecular detection of rabies virus strain with N-gene that clustered with China lineage 2 co-circulating with Africa lineages in Monrovia, Liberia: first reported case in Africa

Published online by Cambridge University Press:  19 February 2019

A. O. Olarinmoye*
Affiliation:
Eng. Abdullah Bugshan Research Chair for Dental and Oral Rehabilitation (D.O.R), College of Dentistry, King Saud University, Riyadh, Kingdom of Saudi Arabia Center for Control and Prevention of Zoonoses, Faculty of Veterinary Medicine, University of Ibadan, Ibadan, Nigeria Department of Veterinary Public Health and Preventive Medicine, University of Ibadan, Ibadan, Nigeria
V. Kamara
Affiliation:
Ministry of Agriculture, Leon Quest Ledlum Central Veterinary Diagnostic Laboratory, Fendel, Monrovia, Liberia
N. D. Jomah
Affiliation:
Central Agricultural Research Institute (C.A.R.I.), Suakoko, Bong County, Liberia
B. O. Olugasa
Affiliation:
Center for Control and Prevention of Zoonoses, Faculty of Veterinary Medicine, University of Ibadan, Ibadan, Nigeria Department of Veterinary Public Health and Preventive Medicine, University of Ibadan, Ibadan, Nigeria
O. O. Ishola
Affiliation:
Center for Control and Prevention of Zoonoses, Faculty of Veterinary Medicine, University of Ibadan, Ibadan, Nigeria Department of Veterinary Public Health and Preventive Medicine, University of Ibadan, Ibadan, Nigeria
A. Kamara
Affiliation:
Ministry of Agriculture Sub-office, Buchanan, Grand Bassa County, Liberia
P. D. Luka
Affiliation:
National Veterinary Research Institute (N.V.R.I.), Vom, Plateau State, Nigeria
*
Author for correspondence: A. O. Olarinmoye, E-mail: aolarinmoye@gmail.com
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Abstract

Despite a long history of dog-transmitted human rabies outbreaks in Liberia, West Africa, no reports exist of molecular characterisation of the causative lyssaviruses. This study investigated Rabies lyssavirus (RABV) strains isolated at the dog–human interface in Monrovia, Liberia 2016 and 2017, by reverse transcription polymerase chain reaction, using primers specific for the nucleoprotein (N) gene. Out of 20 specimens (19 dog brain samples and one human saliva) tested as suspected rabies cases, three (15%) were positive. Purified amplicons from all three positive specimens were sequenced in both forward and reverse directions. Phylogenetic analysis was conducted in MEGA7 and PhyML3 to determine their relationship with RABV sequences accessioned in NCBI GenBank. The first of three RABV strains detected clustered with China lineage 2 RABVs of dogs (99% homology to KU963489 and DQ666322). The second strain segregated with Africa lineage 2 RABVs also of dog origin, and the third strain segregated with Africa lineage 3 RABVs of Southern Africa viverrids. Our results show a transcontinental strain of rabies virus co-circulating with Africa lineages in post-conflict Liberia. This finding should stimulate more effective sub-regional planning and execution of one-health actions, towards stepwise surveillance and elimination of rabies in West Africa by 2030.

Information

Type
Original Paper
Creative Commons
Creative Common License - CCCreative Common License - BY
This is an Open Access article, distributed under the terms of the Creative Commons Attribution licence (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted re-use, distribution, and reproduction in any medium, provided the original work is properly cited.
Copyright
Copyright © Cambridge University Press 2019
Figure 0

Fig. 1. Map of Liberia in the West coast of Africa (a), Montserrado in the West coast of the country (b), and the four districts of Montserrado including Monrovia, the national capital (c).

Figure 1

Table 1. Rabies diagnostic samples collected in Monrovia, Liberia for molecular and phylogenetic analysis

Figure 2

Table 2. Primers used for RT-PCR assay for amplification of the N gene of lyssaviruses

Figure 3

Table 3. Rabies lyssaviruses included in the phylogenetic analysis of the Monrovia rabies isolates MF765758, MH507336 and MH507337

Figure 4

Table 4. Estimates of evolutionary distances between N gene sequences of selected rabies lyssaviruses available in NCBI GenBank and Monrovia rabies lyssavirus isolate MF765758.

Figure 5

Fig. 2. Partial amplification products of Lyssavirus N gene on 1% agarose gel, visualised with UV light; lane 1, marker (50 base pairs DNA ladder); lane 2, Monrovia dog brain sample (Lab Id. No: CCPZUI/DBS/01); lane 3, positive control; lane 4, negative control.

Figure 6

Fig. 3. Partial amplification products of Lyssavirus N gene on 1% agarose gel, visualised with UV light; in lane 1 is the 100 bp DNA ladder while in lanes 2–5 are Monrovia samples nos. DBS/039, DBS/052, DBS/075 (GenBank Accession No. MH507336) and DBS/076 (GenBank Accession No. MH507337), respectively.

Figure 7

Fig. 4. Maximum likelihood (ML) phylogenetic tree of the first Monrovia RABV N-gene isolate (GenBank Accession No. MF756758) generated using ML algorithm (1000 bootstrap replications). The analysis involved 50 nucleotide sequences. All positions with <95% site coverage were eliminated. Evolutionary analyses were conducted in MEGA7 [17]. The bootstrap values (%) are shown next to the branches. The tree is drawn to scale, with branch lengths in the same units as those of the evolutionary distances used to infer the phylogenetic tree. The evolutionary distances were computed using the Kimura two-parameter method [18] and are in the units of the number of base substitutions per site.

Figure 8

Fig. 5. Maximum likelihood (ML) phylogenetic tree of the MH507336 and MH507337 generated using ML algorithm. The analysis involved 39 nucleotide sequences. Evolutionary analyses were conducted in PHYML3 [20]. The bootstrap values (%) are shown next to the branches. The tree is drawn to scale, with branch lengths in the same units as those of the evolutionary distances used to infer the phylogenetic tree. The evolutionary distances were computed using the Kimura two-parameter method [18] and are in the units of the number of base substitutions per site.