Whole-chromosome hitchhiking driven by a male-killing endosymbiont

Martin, Simon H.; Singh, Kumar Saurabh; Gordon, I.; Omufwoko, Kennedy Saitoti; Collins, Steve C.; Warren, Ian A.; Munby, Hannah; Brattström, Oskar; Traut, Walther; Martins, Dino J.; Smith, David A. S.; Jiggins, Chris D.; Bass, Chris; ffrench‐Constant, Richard H.

doi:10.1371/journal.pbio.3000610

Cited by 54 publications

(100 citation statements)

References 96 publications

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“…Such sweeps may be acting on mt variation directly or indirectly through maternally inherited genomes or chromosomes (e.g. Wolbachia (Jiggins, 2003) and the W chromosome) and have been documented in a number of Lepidopteran systems (Gaunet et al, 2019;Graham & Wilson, 2012;Kodandaramaiah et al, 2013;Martin et al, 2020;Ritter et al, 2013) (see Table 1 for species in this study with confirmed Wolbachia presence). Our results raise the intriguing possibility that such sweeps could play a role in the build-up of reproductive isolation (Giordano et al, 1997;Rokas, 2000;Shoemaker et al, 1999).…”

Section: Discussionmentioning

confidence: 78%

“…Finally, mtDNA does not evolve neutrally since transmission of mitochondria is completely linked to maternal inheritance of endosymbionts such as Wolbachia and Spiroplasma and, in organisms with Z/W sex determination, of the W chromosome. Thus, mt diversity and divergence may be driven largely by selective sweeps (including introgression sweeps) rather than neutral gene flow and genetic drift (Galtier et al, 2009;Hurst & Jiggins, 2005;Jiggins, 2003;Martin et al, 2020).…”

Section: Mitonuclear Discordancementioning

confidence: 99%

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The Pleistocene species pump past its prime: Evidence from European butterfly sister species

et al. 2021

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Divergence in allopatry provides a simple null model of speciation (Mayr, 1947). Following geographic isolation and given enough time, reproductive isolation is inevitable as incompatibilities will eventually become fixed as a result of genetic drift and/or selection (Bateson, 1909;Dobzhansky, 1937;Muller, 1942). Taxa that evolved partial reproductive isolation in allopatry may come into secondary contact as a result of range shifts and-depending on their degree of reproductive isolation and niche overlap-either form a contact zone or invade each other's range (Barton, 1985;Pigot, 2013). If allopatric divergence dominates speciation, then local alpha diversity for a given clade cannot accrue until secondary sympatry is achieved (Weir & Price, 2011). Thus, the forces that facilitate or hamper secondary sympatry and the timescale over which this occurs have profound consequences both for speciation and for the spatial distribution of species diversity. While modern ranges only provide a snapshot of the dynamic history of range shifts, understanding the

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Section: Discussionmentioning

confidence: 78%

Section: Mitonuclear Discordancementioning

confidence: 99%

The Pleistocene species pump past its prime: Evidence from European butterfly sister species

et al. 2021

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“…The nucleotide sequences obtained were aligned with representative sequences of known Spiroplasma species available in GenBank as implemented in MEGA7 [ 30 , 37 ]. The reference sequences of ITS region of S. ixodetis were obtained by de novo assembly of Illumina raw reads of Spiroplasma -infected African monarch butterfly Danaus chrysippus deposited in the sequence read archives (SRA) of the NCBI with accession numbers of SRX3872086 and SRX3872088-SRX3872090 [ 38 ] using CLC Genomics Workbench v 20.0.4 (Qiagen, Hilden, Germany). Phylogenetic trees were constructed using maximum likelihood (ML) method with bootstrap tests of 1000 replicates.…”

Section: Methodsmentioning

confidence: 99%

Spiroplasma Infection among Ixodid Ticks Exhibits Species Dependence and Suggests a Vertical Pattern of Transmission

et al. 2021

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Members of the genus Spiroplasma are Gram-positive bacteria without cell walls. Some Spiroplasma species can cause disease in arthropods such as bees, whereas others provide their host with resistance to pathogens. Ticks also harbour Spiroplasma, but their role has not been elucidated yet. Here, the infection status and genetic diversity of Spiroplasma in ticks were investigated using samples collected from different geographic regions in Japan. A total of 712 ticks were tested for Spiroplasma infection by PCR targeting 16S rDNA, and Spiroplasma species were genetically characterized based on 16S rDNA, ITS, dnaA, and rpoB gene sequences. A total of 109 samples originating from eight tick species were positive for Spiroplasma infection, with infection rates ranging from 0% to 84% depending on the species. A linear mixed model indicated that tick species was the primary factor associated with Spiroplasma infection. Moreover, certain Spiroplasma alleles that are highly adapted to specific tick species may explain the high infection rates in Ixodes ovatus and Haemaphysalis kitaokai. A comparison of the alleles obtained suggests that horizontal transmission between tick species may not be a frequent event. These findings provide clues to understand the transmission cycle of Spiroplasma species in wild tick populations and their roles in host ticks.

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“…We estimated four metrics representing different measures of population differentiation. We calculated absolute divergence (D XY ) with popgenWindows.py (https://github.com/simonhmartin/genomics_general/blob/master/popgenWindows.py) [44]. In addition, we assessed the fixation index (F ST [45], Tajima's D [46] and nucleotide diversity π [47] in 30 kb windows using VCFtools.…”

Section: (F ) Estimation Of Genetic Diversitymentioning

confidence: 99%

Whole-genome re-sequencing data to infer historical demography and speciation processes in land snails: the study of twoCandidulasister species

Chueca

Schell

Pfenninger

2021

Phil. Trans. R. Soc. B

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Despite the global biodiversity of terrestrial gastropods and their ecological and economic importance, the genomic basis of ecological adaptation and speciation in land snail taxa is still largely unknown. Here, we combined whole-genome re-sequencing with population genomics to evaluate the historical demography and the speciation process of two closely related species of land snails from western Europe, Candidula unifasciata and C. rugosiuscula . Historical demographic analysis indicated fluctuations in the size of ancestral populations, probably driven by Pleistocene climatic fluctuations. Although the current population distributions of both species do not overlap, our approximate Bayesian computation model selection approach on several speciation scenarios suggested that gene flow has occurred throughout the divergence process until recently. Positively selected genes diverging early in the process were associated with intragenomic and cyto-nuclear incompatibilities, respectively, potentially fostering reproductive isolation as well as ecological divergence. Our results suggested that the speciation between species entails complex processes involving both gene flow and ecological speciation, and that further research based on whole-genome data can provide valuable understanding on species divergence. This article is part of the Theo Murphy meeting issue ‘Molluscan genomics: broad insights and future directions for a neglected phylum’.

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Whole-chromosome hitchhiking driven by a male-killing endosymbiont

Cited by 54 publications

References 96 publications

The Pleistocene species pump past its prime: Evidence from European butterfly sister species

The Pleistocene species pump past its prime: Evidence from European butterfly sister species

Spiroplasma Infection among Ixodid Ticks Exhibits Species Dependence and Suggests a Vertical Pattern of Transmission

Whole-genome re-sequencing data to infer historical demography and speciation processes in land snails: the study of twoCandidulasister species

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