TY  - JOUR
AU  - Stefanović, Milomir
AU  - Đan, Mihajla
AU  - Velicković, Nevena
AU  - Beuković, Dejan
AU  - Lavadinović, Vukan
AU  - Zhelev, Chavdar Dinev
AU  - Demirbas, Yasin
AU  - Paule, Ladislav
AU  - Gedeon, Csongor Istvan
AU  - Mamuris, Zissis
AU  - Posautz, Annika
AU  - Beiglbock, Christoph
AU  - Kuebber-Heiss, Anna
AU  - Suchentrunk, Franz
PY  - 2019
UR  - https://omorika.sfb.bg.ac.rs/handle/123456789/994
AB  - Previous studies in hares and jackrabbits have indicated that positive selection has shaped the genetic diversity of mitochondrial genes involved in oxidative phosphorylation, which may affect cellular energy production and cause regional adaptation to different environmental (climatic) pressures. In the present study, we sequenced the NADH dehydrogenase subunit 6 (MT-ND6) gene of 267 brown hares (L. europaeus) from Europe and Asia Minor and tested for positive selection and adaptations acting on amino acid sequences (protein variants). Molecular diversity indices and spatial clustering were assessed by DnaSP, Network, and Geneland, while the presence of selection signals was tested by codeml in PAML, and by using the Datamonkey Adaptive Evolution web server. The SPSS software was used to run multinomial regression models to test for possible effects of climate parameters on the currently obtained protein variants. Fifty-eight haplotypes were revealed with a haplotype diversity of 0.817, coding for 17 different protein variants. The MT-ND6 phylogeographic pattern as determined by the nucleotide sequences followed the earlier found model based on the neutrally evolving D-loop sequences, and reflected the earlier found phylogeographic Late Pleistocene scenario. Based on several selection tests, only one codon position consistently proved to be under positive selection. It did occur exclusively in the evolutionarily younger hares from Europe and it gave rise to several protein variants from the southeastern and south-central Balkans. The occurrence of several of those variants was significantly favored under certain precipitation conditions, as proved by our multinomial regression models. Possibly, the great altitudinal variation in the Balkans may have lead to bigger changes in precipitation across that region and this may have imposed an evolutionarily novel selective pressure on the protein variants and could have led to regional adaptation.
T2  - PLoS One
T1  - Positive selection and precipitation effects on the mitochondrial NADH dehydrogenase subunit 6 gene in brown hares ( Lepus europaeus ) under a phylogeographic perspective
IS  - 11
VL  - 14
DO  - 10.1371/journal.pone.0224902
UR  - conv_1480
ER  - 

@article{
author = "Stefanović, Milomir and Đan, Mihajla and Velicković, Nevena and Beuković, Dejan and Lavadinović, Vukan and Zhelev, Chavdar Dinev and Demirbas, Yasin and Paule, Ladislav and Gedeon, Csongor Istvan and Mamuris, Zissis and Posautz, Annika and Beiglbock, Christoph and Kuebber-Heiss, Anna and Suchentrunk, Franz",
year = "2019",
abstract = "Previous studies in hares and jackrabbits have indicated that positive selection has shaped the genetic diversity of mitochondrial genes involved in oxidative phosphorylation, which may affect cellular energy production and cause regional adaptation to different environmental (climatic) pressures. In the present study, we sequenced the NADH dehydrogenase subunit 6 (MT-ND6) gene of 267 brown hares (L. europaeus) from Europe and Asia Minor and tested for positive selection and adaptations acting on amino acid sequences (protein variants). Molecular diversity indices and spatial clustering were assessed by DnaSP, Network, and Geneland, while the presence of selection signals was tested by codeml in PAML, and by using the Datamonkey Adaptive Evolution web server. The SPSS software was used to run multinomial regression models to test for possible effects of climate parameters on the currently obtained protein variants. Fifty-eight haplotypes were revealed with a haplotype diversity of 0.817, coding for 17 different protein variants. The MT-ND6 phylogeographic pattern as determined by the nucleotide sequences followed the earlier found model based on the neutrally evolving D-loop sequences, and reflected the earlier found phylogeographic Late Pleistocene scenario. Based on several selection tests, only one codon position consistently proved to be under positive selection. It did occur exclusively in the evolutionarily younger hares from Europe and it gave rise to several protein variants from the southeastern and south-central Balkans. The occurrence of several of those variants was significantly favored under certain precipitation conditions, as proved by our multinomial regression models. Possibly, the great altitudinal variation in the Balkans may have lead to bigger changes in precipitation across that region and this may have imposed an evolutionarily novel selective pressure on the protein variants and could have led to regional adaptation.",
journal = "PLoS One",
title = "Positive selection and precipitation effects on the mitochondrial NADH dehydrogenase subunit 6 gene in brown hares ( Lepus europaeus ) under a phylogeographic perspective",
number = "11",
volume = "14",
doi = "10.1371/journal.pone.0224902",
url = "conv_1480"
}

Stefanović, M., Đan, M., Velicković, N., Beuković, D., Lavadinović, V., Zhelev, C. D., Demirbas, Y., Paule, L., Gedeon, C. I., Mamuris, Z., Posautz, A., Beiglbock, C., Kuebber-Heiss, A.,& Suchentrunk, F.. (2019). Positive selection and precipitation effects on the mitochondrial NADH dehydrogenase subunit 6 gene in brown hares ( Lepus europaeus ) under a phylogeographic perspective. in PLoS One, 14(11).
https://doi.org/10.1371/journal.pone.0224902
conv_1480

Stefanović M, Đan M, Velicković N, Beuković D, Lavadinović V, Zhelev CD, Demirbas Y, Paule L, Gedeon CI, Mamuris Z, Posautz A, Beiglbock C, Kuebber-Heiss A, Suchentrunk F. Positive selection and precipitation effects on the mitochondrial NADH dehydrogenase subunit 6 gene in brown hares ( Lepus europaeus ) under a phylogeographic perspective. in PLoS One. 2019;14(11).
doi:10.1371/journal.pone.0224902
conv_1480 .

Stefanović, Milomir, Đan, Mihajla, Velicković, Nevena, Beuković, Dejan, Lavadinović, Vukan, Zhelev, Chavdar Dinev, Demirbas, Yasin, Paule, Ladislav, Gedeon, Csongor Istvan, Mamuris, Zissis, Posautz, Annika, Beiglbock, Christoph, Kuebber-Heiss, Anna, Suchentrunk, Franz, "Positive selection and precipitation effects on the mitochondrial NADH dehydrogenase subunit 6 gene in brown hares ( Lepus europaeus ) under a phylogeographic perspective" in PLoS One, 14, no. 11 (2019),
https://doi.org/10.1371/journal.pone.0224902 .,
conv_1480 .

TY  - JOUR
AU  - Đan, Mihajla
AU  - Stefanović, Milomir
AU  - Velicković, Nevena
AU  - Lavadinović, Vukan
AU  - Alves, Paulo C.
AU  - Suchentrunk, Franz
PY  - 2017
UR  - https://omorika.sfb.bg.ac.rs/handle/123456789/889
AB  - The contemporary geographical distribution and genetic structure of temperate species have been strongly influenced by the climatic oscillations during the Late Quaternary. As spatial genetic reconstructions are often markedly affected by geographically meaningful sample distributions, we focused in our study on the analyses of mtDNA control region sequences of brown hares from different regions in northern, central and south-central Balkans that have so far not been covered, with the aim to delineate the most likely glacial refugia wherefrom the postglacial northward expansion into central Europe has originated. Three major haplogroups ("Anatolia/Middle East", "the Balkans", and "central Europe") were revealed with apparent south-north gradual decrease in molecular diversity indices. Moreover, phylogenetic and demographic history analyses identified the southeastern central Balkans as the putative origin for most populations from the southern and northern Balkans, while populations from central and northwestern Europe have originated from the northern Balkans.
T2  - Hystrix-Italian Journal of Mammalogy
T1  - Brown hares ( Lepus europaeus Pallas, 1778) from the Balkans: a refined phylogeographic model
EP  - 193
IS  - 2
SP  - 186
VL  - 28
DO  - 10.4404/hystrix-28.2-12202
UR  - conv_1382
ER  - 

@article{
author = "Đan, Mihajla and Stefanović, Milomir and Velicković, Nevena and Lavadinović, Vukan and Alves, Paulo C. and Suchentrunk, Franz",
year = "2017",
abstract = "The contemporary geographical distribution and genetic structure of temperate species have been strongly influenced by the climatic oscillations during the Late Quaternary. As spatial genetic reconstructions are often markedly affected by geographically meaningful sample distributions, we focused in our study on the analyses of mtDNA control region sequences of brown hares from different regions in northern, central and south-central Balkans that have so far not been covered, with the aim to delineate the most likely glacial refugia wherefrom the postglacial northward expansion into central Europe has originated. Three major haplogroups ("Anatolia/Middle East", "the Balkans", and "central Europe") were revealed with apparent south-north gradual decrease in molecular diversity indices. Moreover, phylogenetic and demographic history analyses identified the southeastern central Balkans as the putative origin for most populations from the southern and northern Balkans, while populations from central and northwestern Europe have originated from the northern Balkans.",
journal = "Hystrix-Italian Journal of Mammalogy",
title = "Brown hares ( Lepus europaeus Pallas, 1778) from the Balkans: a refined phylogeographic model",
pages = "193-186",
number = "2",
volume = "28",
doi = "10.4404/hystrix-28.2-12202",
url = "conv_1382"
}

Đan, M., Stefanović, M., Velicković, N., Lavadinović, V., Alves, P. C.,& Suchentrunk, F.. (2017). Brown hares ( Lepus europaeus Pallas, 1778) from the Balkans: a refined phylogeographic model. in Hystrix-Italian Journal of Mammalogy, 28(2), 186-193.
https://doi.org/10.4404/hystrix-28.2-12202
conv_1382

Đan M, Stefanović M, Velicković N, Lavadinović V, Alves PC, Suchentrunk F. Brown hares ( Lepus europaeus Pallas, 1778) from the Balkans: a refined phylogeographic model. in Hystrix-Italian Journal of Mammalogy. 2017;28(2):186-193.
doi:10.4404/hystrix-28.2-12202
conv_1382 .

Đan, Mihajla, Stefanović, Milomir, Velicković, Nevena, Lavadinović, Vukan, Alves, Paulo C., Suchentrunk, Franz, "Brown hares ( Lepus europaeus Pallas, 1778) from the Balkans: a refined phylogeographic model" in Hystrix-Italian Journal of Mammalogy, 28, no. 2 (2017):186-193,
https://doi.org/10.4404/hystrix-28.2-12202 .,
conv_1382 .