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Genomic diversity across the Rickettsia and ‘Candidatus Megaira’ genera and proposal of genus status for the Torix group

Author

Listed:
  • Helen R. Davison

    (University of Liverpool)

  • Jack Pilgrim

    (University of Liverpool)

  • Nicky Wybouw

    (Ghent University)

  • Joseph Parker

    (California Institute of Technology)

  • Stacy Pirro

    (Iridian Genomes)

  • Simon Hunter-Barnett

    (University of Liverpool)

  • Paul M. Campbell

    (University of Liverpool
    the University of Manchester)

  • Frances Blow

    (University of Liverpool
    New York University)

  • Alistair C. Darby

    (University of Liverpool)

  • Gregory D. D. Hurst

    (University of Liverpool)

  • Stefanos Siozios

    (University of Liverpool)

Abstract

Members of the bacterial genus Rickettsia were originally identified as causative agents of vector-borne diseases in mammals. However, many Rickettsia species are arthropod symbionts and close relatives of ‘Candidatus Megaira’, which are symbiotic associates of microeukaryotes. Here, we clarify the evolutionary relationships between these organisms by assembling 26 genomes of Rickettsia species from understudied groups, including the Torix group, and two genomes of ‘Ca. Megaira’ from various insects and microeukaryotes. Our analyses of the new genomes, in comparison with previously described ones, indicate that the accessory genome diversity and broad host range of Torix Rickettsia are comparable to those of all other Rickettsia combined. Therefore, the Torix clade may play unrecognized roles in invertebrate biology and physiology. We argue this clade should be given its own genus status, for which we propose the name ‘Candidatus Tisiphia’.

Suggested Citation

  • Helen R. Davison & Jack Pilgrim & Nicky Wybouw & Joseph Parker & Stacy Pirro & Simon Hunter-Barnett & Paul M. Campbell & Frances Blow & Alistair C. Darby & Gregory D. D. Hurst & Stefanos Siozios, 2022. "Genomic diversity across the Rickettsia and ‘Candidatus Megaira’ genera and proposal of genus status for the Torix group," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-30385-6
    DOI: 10.1038/s41467-022-30385-6
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    References listed on IDEAS

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    1. Palmiro Poltronieri & Nataša Čerekovic, 2018. "Roles of Nicotinamide Adenine Dinucleotide (NAD + ) in Biological Systems," Challenges, MDPI, vol. 9(1), pages 1-14, January.
    2. Chirag Jain & Luis M. Rodriguez-R & Adam M. Phillippy & Konstantinos T. Konstantinidis & Srinivas Aluru, 2018. "High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries," Nature Communications, Nature, vol. 9(1), pages 1-8, December.
    3. Luis M. Rodriguez-R & Chirag Jain & Roth E. Conrad & Srinivas Aluru & Konstantinos T. Konstantinidis, 2021. "Reply to: “Re-evaluating the evidence for a universal genetic boundary among microbial species”," Nature Communications, Nature, vol. 12(1), pages 1-7, December.
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