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WBBiB

Wydział Biochemii, Biofizyki i Biotechnologii

Laboratory of Bioinformatics and Genome Biology

https://ylla-lab.github.io/

Dr hab. Guillem Ylla
room: L.0.40, phone: +48 12 664 67 17, e-mail: guillem.ylla@uj.edu.pl

Dr Edossa Fikiru Wayima
room: L.01.40, phone: +48 12 664 67 16, e-mail: edossa.wayima@uj.edu.pl

Dr Tomasz Gaczorek
room: L.01.40, phone: +48 12 664 67 16, e-mail: tomasz.gaczorek@uj.edu.pl

Dr Gabriela Machaj, Eng.
room: L.01.40, phone: +48 12 664 67 16, e-mail: gabriela.machaj@uj.edu.pl

Dr Takahisa Yamashita 
room: L.01.40,phone: 12 664 67 16, e-mail: takahisa.yamashita@uj.edu.p

 

Mgr Rafał Miłodrowski, room: L.01.40, phone: +48 12 664 67 16, e-mail: rafal.milodrowski@uj.edu.pl
Mgr Krystian Komenda, room: L.01.40, phone: +48 12 664 67 16, e-mail: krystian.komenda@student.uj.edu.pl

Szymon Szrajer (bioinformatics)
Paulina Prygiel (bioinformatics)

  • Regulatory roles of small RNAs (microRNAs, piRNAs, siRNA)
  • Evolution of Arthropod Genomes
  • Transcriptomics basis of insect evolution and development

  • Computer cluster with 120 cores, 640Gb of RAM, and 43Tb of SSD disk
  • Environmetnal chambers for insect rearing
  • Molecular biology equipment for generating different types of omics data

  1. Guillem Ylla Bou: The role of somatic piRNAs and their evolution. (2022–2025), SONATA 17, Nationa Science Centre (NCN).
  2. Guillem Ylla Bou: Evolution of gene expression regulatory networks.(2023–2026), FEBS Excellence Award.

  1. Fernandez-Nicolas A, Machaj G, Ventos-Alfonso A, Pagone V , Minemura T, Ohde T,  Daimon T, Ylla G, Belles X. Reduction of embryonic E93 expression as a hypothetical driver of the evolution of insect metamorphosis. Proc Natl Acad Sci USA. 2023 Feb 14;120(7):e2216640120.doi.10.1073/pnas.2216640120
  2. Ylla G, Nakamura T, Itoh T, et al. Insights into the genomic evolution of insects from cricket genomes. Commun Biol. 2021;4(1):733. doi:10.1038/s42003-021-02197-9
  3. Tarikere S, Ylla G, Extavour CG. Distinct gene expression dynamics in germ line and somatic tissue during ovariole morphogenesis in Drosophila melanogaster. G3 Genes|Genomes|Genetics. Published online 2021. gada 6. septembrī. doi:10.1093/g3journal/jkab305
  4. Ylla G, Liu T, Conesa A. MirCure: a tool for quality control, filter and curation of microRNAs of animals and plants. Bioinformatics. 2020;36(Supplement_2):i618–i624. doi:10.1093/bioinformatics/btaa889
  5. Ylla G, Fromm B, Piulachs MD, Belles X. The microRNA toolkit of insects. Sci Rep. 2016;6:37736. doi:10.1038/srep37736
  6. Ylla G, Piulachs M-D, Belles X. Comparative transcriptomics in two extreme neopterans reveal general trends in the evolution of modern insects. iScience. 2018;4:164–179. doi:10.1016/j.isci.2018.05.017
  7. Blondel L, Besse S, Rivard EL, Ylla G, Extavour CG. Evolution of a cytoplasmic determinant: evidence for the biochemical basis of functional evolution of the novel germ line regulator oskar. Mol Biol Evol. Published online 2021. gada 22. septembrī. doi:10.1093/molbev/msab284

We will be happy to host theses on the following fields:

  • development of bioinformatics applications in R or Python,
  • small RNA (microRNA, siRNA, piRNA) functions and evolution,
  • gene expression analysis,
  • comparative genomics,
  • genome assemblies and annotation.

Interest in bioinformatics.  Fluent English.