Phylostratigraphy of gene gain and loss (PhyLoss)

CROATIAN SCIENCE FOUNDATION PROJECT IP-2016-06-5924
Starting date: 01.03.2017. — Closing date: 28.02.2021.​

The evolutionary life cycle of genes is powered by the process of gene birth and death. Although this mechanism directly impacts the genome content by generating the gain and loss of genes its dynamics within the phylogeny of eukaryotes is still unclear.

The gain and loss of entire gene families is another level of the evolutionary turnover in genomes which is rather frequent but often ignored phenomena. To trace gene family gain and loss one can in principle use phylostratigraphic approach.

In this project, we propose to get a comprehensive and synchronized estimate of gene family gain and loss across phylogeny of eukaryotes using hundreds of eukaryotic genomes within the phylostratigraphic framework.

This knowledge will allow us to estimate rates of gene family gain and loss relate over evolutionary time, and to reconstruct the ancestral genomes. To achieve these goals, we will develop novel algorithms and implement a new computational strategy within the phylostratigraphic framework which will be available as a publicly accessible web resource.

Once the catalogue of gene family gain and loss is complete, we aim to link the gene-and-loss patterns to the evolution of phenotypes. ž

Beside evolutionary biology, our gene gain and loss collection that cover wide range of eukaryotes will provide valuable information for many fields including comparative genomics, developmental biology and translational medicine. For instance, it will allow us to look for the organisms that are ‘evolutionary knockouts’ for genes related to human pathologies and to find new candidate genes for diseases.

Tomislav Domazet-Lošo

IZV. PROF. DR. RER. NAT.

VIŠI ZNANSTVENI SURADNIK

PROJECT TEAM MEMBERS

  • DR. SC. MOMIR FUTO
  • DR. SC. ŽELJKA PEZER SAKAČ
  • DOC. DR. SC. MIRJANA DOMAZET-LOŠO
  • MAG. BIOL. EXP. SARA KOSKA
  • MAG. BIOL. MOL. NINA ČORAK
  • DR. SC. MARTIN SEBASTIJAN ŠESTAK

PUBLISHED PAPERS:

Ravikumar V, Nalpas NC, Anselm V, Krug K, Lenuzzi M, Šestak MS, Domazet-Lošo T, Mijakovic I, Macek B. In-depth analysis of Bacillus subtilis proteome identifies new ORFs and traces the evolutionary history of modified proteins. Sci Rep. 2018 Nov 22;8(1):17246. doi: 10.1038/s41598-018-35589-9.

Contact

Domazet-Lošo Research Group

Macroevolution Research. Our lab focuses on macro-evolutionary patterns across the tree of life.
Ruđer Bošković Institute

Division of Molecular Biology
Laboratory of Evolutionary Genetics
wing 5 / rooms 109-111

Biljenička cesta 54
HR-10000 Zagreb
Croatia
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