We performed a phylogeographic analysis of mitochondrial DNA in the edible dormouse, Glis glis (Linnaeus, 1766), including 15 known haplotypes obtained across large part the European species’ range along with a fragment of the cytochrome b gene of one specimen from Alonissos island (Sporades archipelago, Greece). The haplotype of this specimen did not cluster with any other haplotypes, which were grouped into four lineages. The genetic divergence (mean K2P distance) between the Greek specimen and these four lineages, comprised between 3.3 % and 5.9 %, was comparable to the genetic divergence found between the aforesaid lineages (1.9-6.4 %). Accordingly, the specimen most likely falls into a new, never described before, Mediterranean mitochondrial lineage of G. glis.
Large-scale phylogeographical patterns and the underlying factors driving species divergence in Mesoamerica are poorly understood, but it is widely documented that tectonic events and Pleistocene climate changes play an important role in determining species diversification. As glaciations in Mesoamerica developed only around high mountains, one hypothesis is that the known effects of the Last Glacial Maximum on the geographical distribution and genetic diversity of bird populations, producing the contraction/ expansion latitudinal pattern observed in temperate bird species, should be largely undetected in resident bird populations inhabiting environmentally more stable habitats. To gain insight into the effects of Quaternary habitat and climate stability on the genetic diversity, we use ecological niche modelling and generalised linear modelling to determine the role of changes in habitat stability on the genetic diversity in eight widespread or range restricted hummingbird species. We found lesser changes in suitable habitat from past to present in most of the species than those predicted by palaeodistribution models at northern temperate regions. Contemporary seasonal precipitation, Quaternary habitat and climate stability had superior explanatory power, but the magnitude and directionality of their effects on genetic diversity varied between range-restricted and widely distributed species. We observed that the species studied have not responded equally to changes in climate stability in this complex region, suggesting that habitat differences and/or the altitudinal range of the hummingbird species influenced genetic diversity, and that the species-specific responses are not only linked to habitat stability in the region but also to contemporary seasonality associated with the availability of floral resources.
Plebejus argus is a model species for studying the biology, population ecology and genetics of butterflies. It is patchily distributed throughout most of its European range and considered to be sedentary. Habitats of the butterfly have to encompass two vital larval-resources, i.e. specific food plants and ants, since caterpillars are obligatorily myrmecophilous. The genetic structure of nine P. argus populations (85 individuals) was studied at an intermediate geographical scale (Eastern Poland, diameter of about 400 km) using two kinds of molecular markers i.e. COI (mtDNA) and EF-1α (nuclear gene). Both markers were highly variable with as many as 16 haplotypes and 39 alleles, respectively. Great genetic differentiation in the COI gene was detected (overall FST = 0.411, P < 0.001) but little genetic differentiation in the EF-1α gene (FST = 0.021, P < 0.001). The number of COI haplotypes (ranging from one to seven) and their distribution varied considerably among P. argus populations. The possibility that this heterogeneity was related to Wolbachia was excluded as this endoparasitic bacterium was not detected in samples from any of the populations studied. PCA and SAMOVA analyses divided the sampled populations into two or three groups, which could indicate different colonization routes. Moreover, the differences in genetic differentiation with respect to mtDNA and nuclear markers may suggest male-biased dispersal of P. argus at a larger scale. The hypothesis that females are philopatric is consistent with direct observations of the restricted colonization abilities of the butterfly, while the relatively homogeneous genetic structure revealed by previous allozyme studies in some areas might be explained by the possible higher mobility of males. and Marcin Sielezniew, Donata Ponikwicka-Tyszko, Miroslaw Ratkiewicz, Izabela Dziekanska, Agata Kostro-Ambroziak, Robert Rutkowski.
Black rats (Rattus rattus) are native to the Indian subcontinent but have now colonized most continents and islands following human movements and international trade. They are involved in the circulation and transmission to humans of many zoonotic agents as well as in massive damage to food stocks and native biodiversity in the regions they have settled. This study investigates the genetic diversity and possible origins of black rats from Benin, West Africa. We sequenced the complete mitochondrial cytochrome b gene in 90 individuals from nine localities in Benin. These sequences were subsequently compared to 390 other cytochrome b haplotypes from individuals from various European, Asian, American and African localities. Nucleotide polymorphism analysis, haplotype network and maximum likelihood phylogenetic tree reconstructions showed low mitochondrial diversity in black rats from Benin. Our results also suggest at least two distinct introduction events: one introduction probably occurred during the spice trade (15th-17th century) through the Indies Road connecting Europe to Asia. Other introduction events could have occurred more recently following the intensification of globalized trade from the eighteenth century, and onwards.
We examined the phylogeography and the variation of the mitochondrial DNA (mtDNA) cytochrome c oxidase subunit 1 gene (cox1) of the Chinese liver fluke Clonorchis sinensis (Cobbold, 1875) in two geographic localities in the Russian southern Far East and compared them with those from different geographical regions (China, Korea, Japan and Vietnam). The Russian samples differed from those of the other regions in haplotype frequencies, haplotype and nucleotide diversities, and AT/GC ratios. Only 4 of the 18 haplotypes were common to Russian and Chinese samples, and two haplotypes were common to Russia and other regions. The intraspecific genetic distances ranged from 0 to 1.58% for the entire dataset studied and from 0 to 1.25% among the samples from Russia. Phylogenetic trees revealed no significant genealogical clades of samples corresponding to sampling localities and no strong isolation by distance was estimated with Mantel test. Neutrality test analysis suggested a relatively recent population expansion for C. sinensis, whereas goodness-of-fit tests indicated deviation from the strict model of uniform expansion. Therefore, the sequences of the mtDNA cox1 gene provide useful genetic markers for evaluating intraspecific diversity and generating phylogeographic reconstructions for this fish-borne trematode.
Phylogeography, genetic diversity, and demography of central European populations of two flightless xerothermic weevils, Polydrusus inustus and Centricnemus leucogrammus, were studied based on the polymorphism of three mtDNA genes (COII, CytB, and ND1). Results indicate that these xerothermic beetles may have different origins. P. inustus is a recent migrant as the parthenogenetic form has a low level of genetic diversity and lacks a geographic population structure. This is probably a result of a recent (before the end of last glaciation) expansion and/or present dispersal mediated by humans. On the other hand, C. leucogrammus appears to be a relic species as the populations of this species are much more genetically diverse (six distinct clades) and some of the populations are allopatric and others sympatric. They probably diverged and expanded during the last few glaciations. Genetic discontinuities were detected among localities that are now separated by gaps in the distribution. Boundaries (mountains or farmland) separate the populations into three groups: (1) Moravia and Slovakia, (2) the lower Vistula Valley in northern Poland and (3) south-eastern Poland together with western Ukraine. Evidence for recent gene flow was found only among populations from south-eastern Poland and western Ukraine, and between these two groups. One population from northern Poland was surprisingly related to populations in southern Poland, which may be due to extinction of intermediate populations.
A sequence analysis of the mitochondrial cytochrome oxidase subunit II (COII) gene in Russian and Turkish maize-associated populations of Ostrinia nubilalis and a Slovenian population of O. nubilalis probably infesting maize revealed little diversity. This lack of diversity may have resulted from bottleneck event(s) when the maize-associated population of O. nubilalis expanded from small population(s) in association with the cultivation of maize in Europe ca. 500 years ago. In the genealogy of COII genes obtained in the present and previous studies, Eurasian samples were substantially differentiated from North American samples. Since the North American population of O. nubilalis came from Europe, our finding suggests that there is geographical differentiation in European maize-associated O. nubilalis, and that maize-associated populations of O. nubilalis expanded multiple times in Europe. Finally, a phylogenetic analysis of the COII gene did not support that O. nubilalis and O. furnacalis are the closest relatives within the O. furnacalis species group.
We analyzed sequences of two variable segments of the mitochondrial control region (CR) and flanking regions in the house mouse (Mus musculus). Most of the material was sampled from the eastern Mediterranean and the Middle East, i.e., a source area for the colonization of Europe. These sequences were supplemented with other samples from the whole range of the species including the Yemeni island of Socotra. This island was shown to harbour mice bearing M. m. domesticus and M. m. castaneus CR haplotypes. In addition, we found 10 distinct sequences at the same locality that were markedly different from all known CR sequences. Sequencing of the whole mitochondrial genome suggested these sequences to represent nuclear fragments of the mitochondrial origin (numts). We assessed genetic variation and phylogeography within and among the house mouse subspecies and estimated the substitution rate, coalescence times, and times of population expansion. We show the data to be consistent with time dependency of substitution rates and recent expansion of mouse populations. The expansion of European populations of M. m. musculus and M. m. domesticus estimated from the CR sequences coincide with presumed time of colonization of the continent in the Holocene.
The Sympetrum vulgatum (Linnaeus, 1758) complex is composed of the subspecies S. vulgatum vulgatum, S. vulgatum decoloratum (Selys, 1884) and S. vulgatum ibericum Ocharan, 1985 in the West Palaearctic. These taxa have parapatric distributions and noticeable morphological differences in colour and body size, and their taxonomic status is debated. Here we revise the systematics of this group using molecular taxonomy, including molecular analyses of mitochondrial (cytochrome c oxidase subunit I, COI) and nuclear (internal transcribed spacer, ITS1) DNA taking into account known morphological differences. Each subspecies has a unique and differentiated COI haplotype, although divergences among them are low (0.4% maximum uncorrected p-distance). The subspecies are not differentiated by the nuclear marker ITS1. The genetic results for these taxa contrast with the deep divergence of the sister species S. striolatum (Charpentier, 1840). Given current evidence, we propose to maintain the subspecific status of the S. vulgatum complex and hypothesize their biogeographical history. It is likely that the three subspecies became isolated during one of the latest glacial periods, each in a different refugium: S. vulgatum ibericum possibly occupied the Iberian Peninsula, S. vulgatum vulgatum the Balkan Peninsula or territories further east and S. vulgatum decoloratum Anatolia., Joan C. Hinojosa, Ricard Martín, Xavier Maynou, Roger Vila., and Obsahuje bibliografii
The phylogeographical structure of the temperate shrub Rosa pendulina at 45 locations in Europe was studied using sequencing of a non-coding cpDNA region (trnL-trnF). Our study revealed a clear geographic structure of cpDNA haplotypes. Three main haplotypes were geographically widespread, but showed little overlap in their distributions, suggesting that postglacial expansion occurred from at least two distinct glacial refugia, probably located (1) at the edge of the Alps, N Apennines or Dinaric Alps, and (2) in the Balkan Peninsula or S Carpathians. All populations at locations in the Czech Republic and surrounding regions are of Carpathian origin. This finding disproved an Alpine origin of R. pendulina populations in the Šumava Mts (Czech Republic). A contact zone between Carpathian and Alpine migration routes of R. pendulina is probably located in the Danube valley.