Vienna Graduate School of Population Genetics

Link to all students of the FWF DK PhD program 1

Link to BINGO 2

 

Claire Burny

 

In December 2014 I got a diploma in Bioinformatics engineering from the National Institute of Applied Sciences in Lyon (France), which I complemented with a Master degree in Biostatistics at the University of Lyon. During my Master thesis I developed a model-based classification method of longitudinal data to identify groups of typical biomarker trajectories. I worked then as research assistant in the quantitative genetics research group at the Ecole Normale Superieure of Lyon, headed by Dr. Gaël Yvert, which studies the ability of a phenotypic traits to vary and to adapt. I have been involved in a diverse set of research projects, one of them focused on small-effect genetic factors on complex traits at the single cell level taking advantage of the accessibility of flow-cytometry measurements in S. cerevisiae yeast.

I am happy to join the Vienna Graduate School of Population Genetics to dive into the field of Population Genetics. During my PhD, I will study adaptive QTLs, with particular focus on the inference of selection signatures from time series SNP allele frequency data (e.g. Barghi et al., 2018). The goal of my PhD is to develop methods to identify and characterize targets of selection, using state of the art statistical methods including machine learning.

 

Sheng-Kai Hsu

 

I was awarded both my bachelor and master degree by the department of Agronomy at National Taiwan University (NTU). During my undergraduate study, I started a research project investigating the genetic architecture of anaerobic germination in rice and I continued working on this project for my master thesis. Using approaches in both genomics and transcriptomics, we associated natural variation during the anaerobic germination trait to the variation in genomic haplotypes and crucial gene expression. After that, I spent a year as a research assistant, involved in several research projects including a study on the diversity of the mitochondrial genome in rice as well as a population genetic study on the plumage coloration of bulbuls, a native Taiwanese bird species.

My research experience motivated me in pursuing further knowledge in the field of genetics. Therefore, I joined the Vienna Graduate School of Population Genetics and jumped into the world of population genetics of Drosophila. I’m sure that I can broaden my view in this field during my PhD, studying the sexually antagonistic evolution in experimentally evolved populations. Due to their different roles in reproduction, males and females could have opposing trait optima for a given phenotype, leading to sexual conflict in selection and resulting in sexual dimorphism at both transcriptomic and phenotypic levels. Evidence of this sexual dimorphism was widely observed in a  number of organisms. However, the resolving mechanisms of the sexual conflict remain obscured. The main goal of my PhD project is to unveil this mystery, taking advantage of a special design in experimental evolution. By investigating the evolution of the transcriptomes of both sexes in experimentally evolved populations, we are able to acquire direct evidence on how evolution works in the population and we aim to obtain novel insights into how sexual conflict is resolved during  evolution.

 

Wei-Yun Lai

 

I received my bachelor's degree from the department of Agronomy at Nation Chung Hsing University (NCHU) and my master's degree from the department of Agronomy at National Taiwan University. During undergraduate study, I worked on the identification of alternative splicing events caused by Ds transposon family during abiotic stresses in maize. This study was focusing effort into the detailed influence of Ds transposition on the transcriptomic flexibility in response to abiotic stresses in maize. As a research assistant in the Institute of Information Science at Academia Sinica, I developed an analytical pipeline aiming to identify potential trait- associated regulators over multiple traits in yeast. 

During my PhD the Vienna Graduate School of Population Genetics, I’m going to study the evolution of gene expression variance in Drosophila simulans. The major aim of my project is to identify the genes showing significant changes in their expression variance during the evolution, and we anticipate to unveil the underlying evolutionary forces and fitness benefits.

 

Anna Langmüller

 

I completed my bachelor's degree in Ecology and Biodiversity at the University of Salzburg. For my master's degree I decided to shift toward bioinformatics and graduated in March 2015. In my master thesis I detected and investigated copy number variations in low coverage sequencing data of the human genome using a newly developed algorithm cn.MOPS.

During my master studies I developed an interest in population genetics. Therefore, I am grateful for the opportunity to do my PhD at the Vienna Graduate School of Population Genetics. The main goal of my PhD project is to explore and understand the genomic response of Drosophila simulans populations evolving in a hot fluctuating environment. Because of the special experimental design and possible comparisons to populations developing under different environmental conditions, I am optimistic that I can demystify some dynamics of adaption.

 

Dan Liu

 

I got my bachelor and master degree in computer science specializing in computational biology and machine learning. I developed a novel logistic matrix factorization with neighborhood regularization algorithm on heterogeneous networks to predict potential virus-host associations, apply Bayesian matrix factorization to find unknown associations between microbes and diseases, and to visualize microbe networks by statistical analysis.

During my PhD at the Vienna Graduate School of Population Genetics, I will analyze highly replicated Drosophila populations adapting to a novel temperature regime for more than 100 generations. Our aim is to develop suitable summary statistics for Approximate Bayesian Computation to estimate the adaptation architecture. We will take advantage of a nested design of founder genotypes to investigate polygenic adaptation traits by QTL-check experiments.

 

Manolis Lirakis

 

I have been interested in insects since my Bachelor studies. For my Bachelor thesis, I studied insect communities in rivers. For my Master thesis, I shifted towards bioinformatics and -omics, studying insecticide resistance in mosquitoes, in a genomic and transcriptomic context. All my previous studies were conducted at the Biology Department, University of Crete, Greece.

Currently, I am a Ph.D. student of the BINGO 3 (Breeding Invertebrates for Next Generation BioControl) Innovative Training Network. I am hosted by the Vienna Graduate School of Population Genetics, where I study diapause in the fruit fly, Drosophila melanogaster. Diapause is an important adaptation that allows many insects to overwinter and can occur at any developmental stage, depending on the species. D. melanogaster enters an ovarian reproductive diapause, where adult females have immature ovaries and previtellogenic oocytes. The genetic basis of this ecologically extremely important trait is not yet understood. During this project, I will map the genetic variants contributing to diapause in natural D. melanogaster populations. My goal will be accomplished by using a population genetic approach, which incorporates Experimental Evolution and Pool-GWAS and takes advantage of Next Generation Sequencing.

 

Dagny Runarsdottir

 

more info coming, soon

 

Lauri Törmä

 

I studied genetics and physiology at the University of Turku in Finland. My interest in evolutionary developmental biology drove me to study eye development in Drosophila melanogaster with former institute group leader Dr. Alistair McGregor at Oxford Brookes University (UK). During my time working with Alistair, I realised how crucial population genetics is to understand evolution. Before finishing my master’s I also investigated the cytology of spindle formation in D. melanogaster at University of Turku.

In my project at the Institute of Population Genetics I am using CRISPR-Cas9 to functionally validate loci linked to temperature adaptation during experimental evolution in Drosophila simulans. After validation, my aim is to understand how these alleles make the flies fitter in hot temperature.

  

Kontakt

Gruppe C. Schlötterer
Institut für Populationsgenetik

1210 Wien, Veterinärplatz 1

T +43 1 25077-4301
F +43 1 25077-4390

Anreise Flughafen 4
Anreise PKW, Bahn 5

Gebäude HA, 4. Stock 6