Arenavirus Diversity and Phylogeography of Mastomys natalensis Rodents, Nigeria
, Adeoba Obadare, Akinlabi Oyeyiola, Joseph Igbokwe, Ayobami Fasogbon, Felix Igbahenah, Daniel Ortsega, Danny Asogun, Prince Umeh, Innocent Vakkai, Chukwuyem Abejegah, Meike Pahlman, Beate Becker-Ziaja, Stephan Günther, and Elisabeth Fichet-Calvet
Author affiliations: Obafemi Awolowo University, Ile-Ife, Nigeria (A. Olayemi, A. Obadare, A. Oyeyiola, J. Igbokwe); Ambrose Alli State University, Ekpoma, Nigeria (A. Fasogbon); Benue State University, Makurdi, Nigeria (F. Igbahenah, D. Ortsega); Irrua Specialist Teaching Hospital, Irrua, Nigeria (D. Asogun, C. Abejegah); Nigerian Montane Forest Project, Ngel-Nyaki, Nigeria (P. Umeh); Federal Medical Centre, Jalingo, Nigeria (I. Vakkai); Bernhard Nocht Institute for Tropical Medicine, Hamburg, Germany (M. Pahlman, B. Becker-Ziaja, S. Günther, E. Fichet-Calvet)
Figure 2. A) Phylogenetic analyses of glycoprotein precursor gene (GPC) of Old World arenaviruses and cytochrome b sequences of 16 arenavirus-positive Mastomys natalensis rodents captured in Nigeria during January 2011–March 2013 (boldface). The GPC tree (949 nt) was inferred by using the Bayesian Markov Chain Monte Carlo method, in a general time reversible plus gamma plus relaxed uncorrelated lognormal clock model. A random local clock was used for the cytochrome b tree. Bayesian posterior probabilities are shown at the node of the branches. The 4 lineages of the Lassa virus clade are indicated to the right of the GPC tree, and the 2 clades of M. natalensis rodents (A-I and A-II) are indicated on left of the cytochrome b tree. Scale bars indicate genetic distance. B) Phylogenetic analysis of the L (polymerase) gene in Old World arenaviruses, including the 16 new sequences found in M. natalensis rodents in Nigeria (boldface). The L tree (340 nt) was inferred by using the same method used for GPC analysis. GenBank numbers for reference isolate sequences are shown in parentheses.
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