Duplicating the genome
It is a major challenge for the proliferating cell to replicate the entire genome before each cell division, due to the large size and high accuracy by which it must be accomplished. It must also be a very efficient process because the cell has a very limited time to finish the task. We are studying on the molecular level how DNA replication is accomplished in eukaryotic cells. There still remain many large questions that have not been completely resolved.
We have focused on how and when DNA polymerase epsilon (Pol epsilon) build DNA. Ours and others work in yeast have shown that Pol epsilon is primarily involved in leading strand synthesis, thus building nearly half the eukaryotic genome each time it is duplicated. Pol epsilon is one of the most accurate DNA polymerases in the cell and the low number of replication errors protects the genome from mutations that may transform cells into cancer cells. A subclass of mutations in POLE (the human Pol epsilon gene) was recently classified as drivers in cancer development, and these mutations are all located in the proofreading domain. We have applied X-ray crystallography to obtain high-resolution structures of such Pol epsilon variants and wild-type Pol epsilon to address how Pol epsilon sense lesions or mis-incorporations in the DNA and remove replication errors with a proofreading activity. Furthermore, the influence of an Fe-S cluster in the catalytic domain of Pol epsilon on the activity and fidelity of Pol epsilon is under investigation. These projects provide new molecular insights about how the eukaryotic genome is duplicated with only a limited number of replication errors each cell division.
Recently a new project was initiated to study the molecular events when a replication fork encounters a single-stranded break, a nick. We have found that a nick can be converted by the replication fork to a substrate that allows localized re-replication. In turn this may promote genome instability that is often found in tumors. Our aim is to explore how the cell can be protected from nick induced re-replication. For further information, please read: Unchecked nick ligation can promote localized re-replication. Current Biology
We have an opening for a post-doc.
Johansson, E. and Diffley, J.F.X. (2021) Unchecked nick ligation can promote localized re-replication. Current Biology 31:R710-R711
ter Beek, J., Parkash, V., Bylund, G.O., Osterman, P., Sauer-Eriksson, A.E., and Johansson, E. (2019) Structural evidence for an essential Fe-S cluster in the catalytic core domain of DNA polymerase ε. Nucleic Acids Res 47:5712-5722
Parkash, V., Kulkarni, Y., ter Beek, J., Shcherbakova, P.V., Kamerlin, S.C.L., and Johansson, E. (2019) Structural consequence of the most frequently recurring cancer-associated substitution in DNA polymerase ε. Nature Communications 10:373
Yu, C., Gan, H., Serra-Cardona, A., Zhang, L., Gan, S., Sharma, S., Johansson, E., Chabes, A., Xu, R.-M., and Zhang, Z. (2018) A mechanism for preventing asymmetric histone segregation onto replicating DNA strands. Science 361:1386-1389
Ganai, R.A., and Johansson, E. (2016) DNA replication – a matter of fidelity. Molecular Cell 62: 745-755 Invited review
Hogg, M., Osterman, P., Bylund, G.O., Ganai, R.A., Lundström, E.-B., Sauer- Eriksson, A.E. and Johansson, E. (2014) Structural basis for processive DNA synthesis by yeast DNA polymerase ε. Nature Structural & Molecular Biology 21:49-55
Aksenova, A., Volkov, K., Macheluch, J., Pursell, Z.F., Rogozin, I.B., Kunkel, T.A., Pavlov, Y.I. and Johansson, E. (2010) Mismatch repair-independent increase in spontaneous mutagenesis in yeast lacking non-essential subunits of DNA polymerase epsilon. PLoS Genetics 6:e1001209
Chilkova, O., Stenlund, P., Isoz, I., Stith, C.M., Grabowski, P.M., Lundström, E-B., Burgers, P.M., and Johansson, E. (2007) The eukaryotic leading and lagging strand DNA polymerases are loaded onto the primer-end via separate mechanisms but have comparable processivity in the presence of PCNA. Nucleic Acids Res. 35: 6588 – 6597
Pursell, Z.F., Isoz, I., Lundström, E.-B., Johansson, E., and Kunkel, T.A. (2007) Yeast DNA polymerase epsilon participates in leading-strand DNA replication. Science 317: 127-130