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Comparative genomics reveals the presence of putative toxin–antitoxin system in Wolbachia genomes

Abstract

Multiple toxin–antitoxin (TA) systems are housed in different locations within the bacterial genome and are known to be associated with various cellular processes and stress-related adaptation. In endosymbionts, although, the TA system has scarce occurrence but studies have highlighted its presence in enhancing host–symbiont interactions. Wolbachia, an obligate endosymbiont, has recently been proposed as a biocontrol agent which may be helpful in controlling vector-borne diseases. There are reports suggesting the role of TA system in inducing cytoplasmic incompatibility in case of Wolbachia, however, the underlying mechanism is still not known. The present study, therefore, aims at exploring the diversity of TA system in four novel (sourced from India) and three reference genomes (NCBI) of Wolbachia strains. Interestingly, we found several putative toxins and antitoxins of RelEB family of Type II TA system in these Wolbachia genomes. The results show wMel genome possessed more number of putative TA loci than wRi genome. In addition, searching through the other sequenced Wolbachia genomes in NCBI, a complete absence of TA system was observed in Wolbachia-infected nematodes. The sequence-wide analysis of all the putative RelEB proteins present amongst the Wolbachia endosymbiont and within the free-living bacterial genomes reveal strain-specific similarities and conserved sequences. However, large amount of sequence diversity was observed between Wolbachia and free-living bacteria. Understanding this sequence variation may help shed light on the differences between these two forms of bacteria and could also explain their niche preferences.

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Acknowledgements

The authors thank the Eurofins Genomics India Pvt Ltd. for providing WGS service. SM thanks to DST for bearing the sequencing expense. KS thanks CSIR for providing JRF-Fellowship. The authors would like to thank Dr Santosh Dev for english grammar editing. The authors also thank the Vice Chancellor, JIIT for providing infra-structure facilities for conducting this work.

Data accessibility

WGS of wRi_AMD: Accession Number: MSYL00000000 (BioProject Number: PRJNA344708; Biosample Number: SAMNO5862085).

WGS of wRi_KL: Accession Number: MKIF00000000 (BioProject Number: PRJNA344708; Biosample Number: SAMNO5831929).

WGS of wMel_KL: Accession Number: MLZJ00000000 (BioProject Number: PRJNA349098; Biosample Number: SAMNO592097).

WGS of wMel_AMD: Accession Number: MNCG00000000 (BioProject Number: PRJNA344708; Biosample Number: SAMNO5932998).

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Correspondence to Sujata Mohanty.

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The authors declare that they have no conflict of interest.

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This article does not contain any studies with animals performed by any of the authors.

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Communicated by S. Hohmann.

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Singhal, K., Mohanty, S. Comparative genomics reveals the presence of putative toxin–antitoxin system in Wolbachia genomes. Mol Genet Genomics 293, 525–540 (2018). https://doi.org/10.1007/s00438-017-1402-5

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Keywords

  • Toxin–antitoxin system
  • RelEB
  • Free living bacteria
  • Obligate endosymbionts
  • Wolbachia
  • Drosophila