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https://doi.org/10.21256/zhaw-26232| Publication type: | Article in scientific journal |
| Type of review: | Peer review (publication) |
| Title: | Co-transfer of functionally interdependent genes contributes to genome mosaicism in lambdoid phages |
| Authors: | Kupczok, Anne Bailey, Zachary M. Refardt, Dominik Wendling, Carolin C. |
| et. al: | No |
| DOI: | 10.1099/mgen.0.000915 10.21256/zhaw-26232 |
| Published in: | Microbial Genomics |
| Volume(Issue): | 8 |
| Issue: | 11 |
| Page(s): | 000915 |
| Issue Date: | 2022 |
| Publisher / Ed. Institution: | Microbiology Society |
| ISSN: | 2057-5858 |
| Language: | English |
| Subjects: | Horizontal gene transfer; Phage lambda; Co-transfer; Phage evolution |
| Subject (DDC): | 572: Biochemistry 579: Microbiology |
| Abstract: | Lambdoid (or Lambda-like) phages, are a group of related temperate phages that can infect Escherichia coli and other gut bacteria. A key characteristic of these phages is their mosaic genome structure which served as basis for the "modular genome hypothesis". Accordingly, lambdoid phages evolve by transferring genomic regions, each of which constitutes a functional unit. Nevertheless, it is unknown which genes are preferentially transferred together and what drives such co-transfer events. Here we aim to characterize genome modularity by studying co-transfer of genes among 95 distantly related lambdoid (pro-)phages. Based on gene content, we observed that the genomes cluster into twelve groups, which are characterized by a highly similar gene content within the groups and highly divergent gene content across groups. Highly similar proteins can occur in genomes of different groups, indicating that they have been transferred. About 26% of homologous protein clusters in the four known operons (i.e., the early left, early right, immunity, and late operon) engage in gene transfer, which affects all operons to a similar extent. We identified pairs of genes that are frequently co-transferred and observed that these pairs tend to be in close proximity to one another on the genome. We find that frequently co-transferred genes are involved in related functions and highlight interesting examples involving structural proteins, the CI repressor and Cro regulator, proteins interacting with DNA, and membrane-interacting proteins. We conclude that epistatic effects, where the functioning of one protein depends on the presence of another, plays an important role in the evolution of the modular structure of these genomes. |
| URI: | https://digitalcollection.zhaw.ch/handle/11475/26232 |
| Fulltext version: | Published version |
| License (according to publishing contract): | CC BY 4.0: Attribution 4.0 International |
| Departement: | Life Sciences and Facility Management |
| Organisational Unit: | Institute of Natural Resource Sciences (IUNR) |
| Appears in collections: | Publikationen Life Sciences und Facility Management |
Files in This Item:
| File | Description | Size | Format | |
|---|---|---|---|---|
| 2022_Kupczok-etal_Co-transfer-functionally-interdependent-genes-mosaicism-lambdoid-phages.pdf | 1.93 MB | Adobe PDF |  View/Open |
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Kupczok, A., Bailey, Z. M., Refardt, D., & Wendling, C. C. (2022). Co-transfer of functionally interdependent genes contributes to genome mosaicism in lambdoid phages. Microbial Genomics, 8(11), 915. https://doi.org/10.1099/mgen.0.000915
Kupczok, A. et al. (2022) ‘Co-transfer of functionally interdependent genes contributes to genome mosaicism in lambdoid phages’, Microbial Genomics, 8(11), p. 000915. Available at: https://doi.org/10.1099/mgen.0.000915.
A. Kupczok, Z. M. Bailey, D. Refardt, and C. C. Wendling, “Co-transfer of functionally interdependent genes contributes to genome mosaicism in lambdoid phages,” Microbial Genomics, vol. 8, no. 11, p. 000915, 2022, doi: 10.1099/mgen.0.000915.
KUPCZOK, Anne, Zachary M. BAILEY, Dominik REFARDT und Carolin C. WENDLING, 2022. Co-transfer of functionally interdependent genes contributes to genome mosaicism in lambdoid phages. Microbial Genomics. 2022. Bd. 8, Nr. 11, S. 000915. DOI 10.1099/mgen.0.000915
Kupczok, Anne, Zachary M. Bailey, Dominik Refardt, and Carolin C. Wendling. 2022. “Co-Transfer of Functionally Interdependent Genes Contributes to Genome Mosaicism in Lambdoid Phages.” Microbial Genomics 8 (11): 915. https://doi.org/10.1099/mgen.0.000915.
Kupczok, Anne, et al. “Co-Transfer of Functionally Interdependent Genes Contributes to Genome Mosaicism in Lambdoid Phages.” Microbial Genomics, vol. 8, no. 11, 2022, p. 915, https://doi.org/10.1099/mgen.0.000915.
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