naa a22 4500 510787215 CHVBK 20180411083306.0 cr unu---uuuuu 180411e20130401xx s 000 0 eng 10.1007/s12041-013-0211-9 doi (NATIONALLICENCE)springer-10.1007/s12041-013-0211-9 Molecular adaptation within the coat protein-encoding gene of Tunisian almond isolates of Prunus necrotic ringspot virus [Elektronische Daten] [MONCEF BOULILA, SAWSSEN TIBA, SAOUSSEN JILANI] The sequence alignments of five Tunisian isolates of Prunus necrotic ringspot virus (PNRSV) were searched for evidence of recombination and diversifying selection. Since failing to account for recombination can elevate the false positive error rate in positive selection inference, a genetic algorithm (GARD) was used first and led to the detection of potential recombination events in the coat protein-encoding gene of that virus. The Recco algorithm confirmed these results by identifying, additionally, the potential recombinants. For neutrality testing and evaluation of nucleotide polymorphism in PNRSV CP gene, Tajima's D, and Fu and Li's D and F statistical tests were used. About selection inference, eight algorithms (SLAC, FEL, IFEL, REL, FUBAR, MEME, PARRIS, and GA branch) incorporated in HyPhy package were utilized to assess the selection pressure exerted on the expression of PNRSV capsid. Inferred phylogenies pointed out, in addition to the three classical groups (PE-5, PV-32, and PV-96), the delineation of a fourth cluster having the new proposed designation SW6, and a fifth clade comprising four Tunisian PNRSV isolates which underwent recombination and selective pressure and to which the name Tunisian outgroup was allocated. Indian Academy of Sciences, 2013 bioinformatics nationallicence molecular genetics nationallicence evolution nationallicence sequence nationallicence phylogeny nationallicence Prunus necrotic ringspot virus nationallicence BOULILA MONCEF Institut de l'Olivier, B.P. 14, 4061, Sousse Ibn-Khaldoun, Tunisia aut TIBA SAWSSEN Institut Supérieur de Biotechnologie de Monastir, Avenue Tahar Hadded. B.P. 74, 5019, Monastir, Tunisia aut JILANI SAOUSSEN Centre Régional de Transfusion Sanguine de Sousse, Centre Hospitalo-Universitaire Farhat Hached, 4000, Avenue Ibn El Jazzar-Sousse, Tunisia aut Journal of Genetics Springer-Verlag 92/1(2013-04-01), 11-24 0022-1333 92:1<11 2013 92 12041 https://doi.org/10.1007/s12041-013-0211-9 text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s12041-013-0211-9 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- BOULILA MONCEF Institut de l'Olivier, B.P. 14, 4061, Sousse Ibn-Khaldoun, Tunisia aut NATIONALLICENCE 700 1- TIBA SAWSSEN Institut Supérieur de Biotechnologie de Monastir, Avenue Tahar Hadded. B.P. 74, 5019, Monastir, Tunisia aut NATIONALLICENCE 700 1- JILANI SAOUSSEN Centre Régional de Transfusion Sanguine de Sousse, Centre Hospitalo-Universitaire Farhat Hached, 4000, Avenue Ibn El Jazzar-Sousse, Tunisia aut NATIONALLICENCE 773 0- Journal of Genetics Springer-Verlag 92/1(2013-04-01), 11-24 0022-1333 92:1<11 2013 92 12041 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer