2026-08-05T15:43:02Zhttps://repisalud.isciii.es/rest/oai/request

oai:repisalud.isciii.es:20.500.12105/204492024-11-29T06:07:07Zcom_20.500.12105_15322com_20.500.12105_2051col_20.500.12105_16967

00925njm 22002777a 4500 dc Hermida-Carrera, Carmen author Fares, Mario A author Fernandez, Angel author Gil-Pelegrin, Eustaquio author Kapralov, Maxim V author Mir, Arnau author Molins, Arantzazu author Peguero-Pina, Jose Javier author Rocha, Jairo author Sancho-Knapik, Domingo author Galmes, Jeroni author 2017-08-31 Phylogenetic analysis by maximum likelihood (PAML) has become the standard approach to study positive selection at the molecular level, but other methods may provide complementary ways to identify amino acid replacements associated with particular conditions. Here, we compare results of the decision tree (DT) model method with ones of PAML using the key photosynthetic enzyme RuBisCO as a model system to study molecular adaptation to particular ecological conditions in oaks (Quercus). We sequenced the chloroplast rbcL gene encoding RuBisCO large subunit in 158 Quercus species, covering about a third of the global genus diversity. It has been hypothesized that RuBisCO has evolved differentially depending on the environmental conditions and leaf traits governing internal gas diffusion patterns. Here, we show, using PAML, that amino acid replacements at the residue positions 95, 145, 251, 262 and 328 of the RuBisCO large subunit have been the subject of positive selection along particular Quercus lineages associated with the leaf traits and climate characteristics. In parallel, the DT model identified amino acid replacements at sites 95, 219, 262 and 328 being associated with the leaf traits and climate characteristics, exhibiting partial overlap with the results obtained using PAML. Hermida-Carrera C, Fares MA, Fernandez A, Gil-Pelegrin E, Kapralov MV, Mir Torres A, et al. Positively selected amino acid replacements within the RuBisCO enzyme of oak trees are associated with ecological adaptations. PLoS One. 2017 Aug 31;12(8):e0183970. 10.1371/journal.pone.0183970 1932-6203 PloS One http://hdl.handle.net/20.500.13003/9702 28859145 L618095023 2-s2.0-85028804987 http://hdl.handle.net/20.500.12105/20449 408740500053 Positively selected amino acid replacements within the RuBisCO enzyme of oak trees are associated with ecological adaptations