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Internal structure of the Balkan refugium using Erinaceus roumanicus as a model organism
Eliášová, Kristýna ; Černá Bolfíková, Barbora (advisor) ; Zemanová, Barbora (referee)
The aim of this work was to describe the spatial distribution of genetic variability of the northern white-breasted hedgehog (E. roumanicus), mainly within the Balkan Peninsula and Central Europe, as these areas are crucial for understanding the effects of Pleistocene climate oscillations on the genetic architecture of the species. Based on this spatial distribution, hypotheses about the possible structuring of the Balkan refugia were formulated. A total of 260 individuals and 9 microsatellite loci were used for the analysis. Using the approach of landscape and population genetics several possible isolated subpopulations within the area surveyed were identified. Unique status was proved for a population originating from Crete, probably influenced by mechanisms of island evolution. Differences from the rest of the range were ascertained also in population from the Czech Republic, located in a secondary contact zone with the E. europeaus. The role of interspecific interactions and possible introgression should be considered in this case. In the area of Romania and the area south of the Balkan Peninsula the highest genetic distances between individuals were identified, probably associated with the occurrence of geographical barriers and the possible presence of glacial subrefugia. Other identified...
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Diversity, distribution and genetic structure of the tribe Pipistrellini
Eliášová, Kristýna ; Hulva, Pavel (advisor) ; Fornůsková, Alena (referee)
This literature review discusses phylogenetic relationships within the family Vespertilionidae with a detailed focus on tribus Pipistrellini relations and then the individual genera and species within this tribe. A historical summary of efforts to resolve the phylogenetic relationships within the taxon first on the basis of morphological studies, comparison of karyotype and most recently on the basis of genetic markers. Mitochondrial genetic markers are useful in studying phylogeography, as this paper shows on the example of the Pipistrellus species complex and on species Nyctalus azoreum, Nyctalus leisleri, Nyctalus noctula and Pipistrellus abramus. Furthermore, this work describes the current distribution of individual taxa of tribe, the fossil record and migration behavior of European temperate species in the context of their population structure (also studied in some species using mtDNA and microsatellites) and Annex shows the areas extending all five genera Pipistrellini tribe. Key words: Pipistrellini, phylogenenetics, phylogeography, distribution, population structure
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Application of molecular methods in population genetic studies
Šurinová, Mária ; Münzbergová, Zuzana (advisor) ; van Loo, Marcela (referee) ; Mandák, Bohumil (referee)
A vast range of factors shape the genetic structure of plant populations. In this thesis, I focus on two of them. The first factor, polyploidization, is a process of chromosome set multiplication through whole-genome duplication within a single species (autopolyploids) or hybridization of two different species (allopolyploids). It rapidly brings changes into genomes, allowing species to occupy distinct niches, adapt to new habitats, colonize them, or adapt to changing environment in their native range. But it comes at a certain cost - difficulties in mitosis and meiosis, changes in cellular architecture. Furthermore, after cytotype establishment, new individuals have to deal with cytotype exclusion effect, competition with parental individuals and higher nutrition requirements. In this thesis, I present the effect of polyploidization on populations of three species- Arabidopsis arenosa, Aster amellus and Festuca rubra. The second factor changing the population genetic structure presented in this thesis is the fragmentation of populations. Population fragmentation can be caused by natural or anthropogenic activities and often leads to overall reduction in population size and reduced connectivity among fragments. Restricted gene flow may threaten long-term population survival due to inbreeding...
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Bottleneck and selection effects on MHC genes variability in relic and newly formed Eurasian beaver populations
Náhlovský, Jan ; Munclinger, Pavel (advisor) ; Bryja, Josef (referee)
MHC glycoproteins are an essential part of adaptive immunity and may also play a role in mate choice. In addition, MHC genes are the most variable of all known genes. For these reasons, they have been intensively studied for several last decades. However, research is complicated due to extreme variability and frequent duplications. The Eurasian beaver seems to serve as an interesting model. It underwent a dramatic bottleneck culminating in the end of 19th century, when only about 1,200 individuals survived in several isolated relic populations. Thanks to numerous reintroductions, beavers of various origin meet in newly established populations. However, knowledge of beaver MHC was very limited. Only a single MHC gene has been investigated in a detail, and some relic populations were not sampled. Utilising additional relic populations and additional MHC locus, I verified a significant reduction of the variability of beaver MHC genes and also found signs of selection in the past. Then I sequenced MHC loci in two newly formed populations. I confirmed the ongoing selection by the disruption of cytonuclear equilibrium and the advantage of divergent alleles. We therefore can have a unique insight into the several periods of the history of beaver populations: In the past, MHC diversity was shaped by a...
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Conservation genetics of Eurasian lynx in the Western Carpathians
Ungrová, Lenka ; Hulva, Pavel (advisor) ; Kaňuch, Peter (referee)
Robust monitoring combined with genetic analyses are important approaches to protect and manage large carnivore populations successfully. The aim of this master thesis is to analyse Eurasian lynx (Lynx lynx) population within whole Slovakia for the first time using 15 microsatellite loci. Noninvasive genetics is an effective tool for monitoring animal species with large home ranges and low population densities. Noninvasive samples including feces, hair, urine and buccal swabs were collected together with tissue samples from dead (mostly roadkill) individuals. 187 samples were collected between 2017-2019, resulting in 59 successful genotypes. Two samples were incorrectly determined in the field and excluded from further analyses since they were wildcat samples. For population genetics analyses and demography, the dataset from the "Veľké šelmy 2" project was extended with 98 genotypes in collaboration with the Institute of Vertebrate Biology CAS. Overall, 68 lynx individuals were detected in the dataset of 155 genotypes. Relatedness analysis resulted in 67 significant relationships of the first degree and 9 significant relationships of the second degree. These results suggest a high relatedness among the whole population. According to the present thesis, Slovakian lynx population has the third lowest...
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Czechization of Ceske Budejovice
Andršová, Justýna ; Županič, Jan (advisor) ; Hogenová, Anna (referee)
This bachelor's thesis focuses on select aspects of the process of Czechization of České Budějovice between the mid-19th century until the early 20th century. The aspects in question are mainly the following: economic development, evolution of the population structure, and political competition on a municipal level. In regard to the evolution of the population structure, this thesis primarily focuses on the ambivalence of national identity. As concerns the economic shift, the focal point is the contemporary development of business life in the city and the competition between the Czech and German parties involved. When it comes to political competition, it follows the inner workings of municipal administration and elections, which played a major part the particular way that the national emancipation of the Czech population of České Budějovice developed, not only on a political level. KEYWORDS České Budějovice, Czechization, Czech-German relations, municipal self-government, population structure
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Automation of genotype data calculations
Vybíhal, Adam ; Richter, Miloslav (referee) ; Štohl, Radek (advisor)
The goal of this paper is to automate work with programs for the study of population structure using genotype data. Specifically, we describe properties of four programs for this use, Structure, Structure Harvester, CLUMPP and distruct. There's proposed a process of automation of work with these programs within the paper. Based on proposed process, an application is then created on the .NET platform, which allows you to work with mentioned software. This application provides a graphical user interface for creating input files, entering the necessary parameters, setting up automatic execution of individual programs and displaying their results.
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Population structure, migration and dynamics in Africa and Arabia
Čížková, Martina ; Černý, Viktor (advisor) ; Frynta, Daniel (referee) ; Zrzavý, Jan (referee)
In addition to the interaction of evolutionary forces, the population history of the African Sahel and Arabia has been influenced by the spread of Neolithic cultural innovations. The reflection of these processes today is a very complex structured diversity of the current populations, which is presented here through the analysis of several genetic markers. The aim is to provide a comprehensive view of the history of demographic processes in the Sahel and Arabia, by combining genetic, linguistic, subsistence and geographical data obtained from local populations. A study of a large dataset of mtDNA sequences showed that Arabia was a major crossroads in gene flow, and although it was colonized by anatomically modern humans from East Africa, today's differentiation from Africa is greater than the differentiation between local populations in these regions. Even the Sahel was an important biocorridor in the past. Today, we encounter populations of various subsistence strategies (nomadic pastoralists and settled farmers), between which gene flow has been severely restricted. A comparison of uniparently inherited loci in both groups points to different migratory activity in the eastern and western parts of the Sahel. Analyzes of Alu elements, which indicated the inclination of West African herders (Fulbs)...
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Why so specious? The role of pollinators and symbionts in plant population structure and speciation along elevational gradients.
SOUTO VILARÓS, Daniel
This thesis explores the role mutualist pollinators and their symbionts play in the genetic structuring and speciation of their host plants along an elevational gradient in Papua New Guinea. Using the fig and fig-wasp mutualism as a model system, we employed high-throughput sequencing techniques to explore fine-scale population genomics of both fig and wasps along their elevational range. We found there to be clear lowland and highland clustering of tree populations along the gradient, often with a mid-elevation contact zone. In the case of the pollinating wasps, we retrieved the same clustering except in this case, the genetic difference between clusters was high enough as to consider them as separate species. This result supports evidence from other studies challenging the cospeciation paradigm of one wasp species per fig species. In addition, we explore ecological traits which may promote, or at least, maintain, reproductive isolation between fig (sub)species along with behavioural preference tests from pollinating wasps. In order to further investigate the mechanisms promoting wasp speciation along the gradient, we describe Wolbachia infection status as well as strain type. Wolbachia-induced cytoplasmic incompatibility (CI) is often invoked as a possible speciation agent since it can rapidly provoke and maintain reproductive isolation between otherwise freely interbreeding insect populations. Finally, we explore non-pollinating fig wasp (NPFW) diversity along the gradient for a subset of our focal species. Our study reveals that there is a tight relationship between NPFW diversity and host species, and a mid-elevation peak.
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