Frequent Recombination Events in Leishmania donovani: Mining Population Data

Rogozin, Igor B.; Charyyeva, Arzuv; Sidorenko, Ivan A.; Babenko, Vladimir N.; Yurchenko, Vyacheslav

doi:10.3390/pathogens9070572

Open AccessArticle

Frequent Recombination Events in Leishmania donovani: Mining Population Data

by

Igor B. Rogozin

¹

,

Arzuv Charyyeva

²

,

Ivan A. Sidorenko

³,

Vladimir N. Babenko

³

and

Vyacheslav Yurchenko

^2,4,*

¹

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA

²

Life Science Research Centre, Faculty of Science, University of Ostrava, 710 00 Ostrava, Czech Republic

³

Institute of Cytology and Genetics, 630090 Novosibirsk, Russia

⁴

Martsinovsky Institute of Medical Parasitology, Tropical and Vector Borne Diseases, Sechenov University, 119435 Moscow, Russia

^*

Author to whom correspondence should be addressed.

Pathogens 2020, 9(7), 572; https://doi.org/10.3390/pathogens9070572

Submission received: 10 April 2020 / Revised: 24 June 2020 / Accepted: 13 July 2020 / Published: 15 July 2020

(This article belongs to the Special Issue Kinetoplastid Phylogenomics and Evolution)

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Abstract

The Leishmania donovani species complex consists of all L. donovani and L. infantum strains mainly responsible for visceral leishmaniasis (VL). It was suggested that genome rearrangements in Leishmania spp. occur very often, thus enabling parasites to adapt to the different environmental conditions. Some of these rearrangements may be directly linked to the virulence or explain the reduced efficacy of antimonial drugs in some isolates. In the current study, we focused on a large-scale analysis of putative gene conversion events using publicly available datasets. Previous population study of L. donovani suggested that population variability of L. donovani is relatively low, however the authors used masking procedures and strict read selection criteria. We decided to re-analyze DNA-seq data without masking sequences, because we were interested in the most dynamic fraction of the genome. The majority of samples have an excess of putative gene conversion/recombination events in the noncoding regions, however we found an overall excess of putative intrachromosomal gene conversion/recombination in the protein coding genes, compared to putative interchromosomal gene conversion/recombination events.

Keywords: gene conversion; Leishmania donovani species complex; whole-genome sequencing; concerted evolution

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MDPI and ACS Style

Rogozin, I.B.; Charyyeva, A.; Sidorenko, I.A.; Babenko, V.N.; Yurchenko, V. Frequent Recombination Events in Leishmania donovani: Mining Population Data. Pathogens 2020, 9, 572. https://doi.org/10.3390/pathogens9070572

AMA Style

Rogozin IB, Charyyeva A, Sidorenko IA, Babenko VN, Yurchenko V. Frequent Recombination Events in Leishmania donovani: Mining Population Data. Pathogens. 2020; 9(7):572. https://doi.org/10.3390/pathogens9070572

Chicago/Turabian Style

Rogozin, Igor B., Arzuv Charyyeva, Ivan A. Sidorenko, Vladimir N. Babenko, and Vyacheslav Yurchenko. 2020. "Frequent Recombination Events in Leishmania donovani: Mining Population Data" Pathogens 9, no. 7: 572. https://doi.org/10.3390/pathogens9070572

APA Style

Rogozin, I. B., Charyyeva, A., Sidorenko, I. A., Babenko, V. N., & Yurchenko, V. (2020). Frequent Recombination Events in Leishmania donovani: Mining Population Data. Pathogens, 9(7), 572. https://doi.org/10.3390/pathogens9070572

Note that from the first issue of 2016, this journal uses article numbers instead of page numbers. See further details here.

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Frequent Recombination Events in Leishmania donovani: Mining Population Data

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