Geographic variations of skull morphology in the Rhinolophus ferrumequinum species complex (Mammalia: Chiroptera)

Ikeda, Yugo; Jiang, Tinglei; Oh, Hong-Shik; Csorba, Gábor; Motokawa, Masaharu

doi:10.1016/j.jcz.2020.08.004

Cited by 6 publications

(6 citation statements)

References 31 publications

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“…Our poor knowledge of horseshoe bat taxonomy also hinders understanding of their role as Sarbecovirus reservoir. For instance, some taxonomists have proposed to split R. ferrumequinum into two different species: R. ferrumequinum in Europe and West Asia, and Rhinolophus nippon in East Asia [ 32 ]. Similarly, a molecular study based on a set of ~1500 nuclear loci has suggested that the R. sinicus complex may contain three different species [ 33 ]: R. sinicus , apparently distributed from northern Vietnam to East China, through Hainan Island and Central China; Rhinolophus septentrionalis in Yunnan; and an undescribed species of Rhinolophus in Vietnam.…”

Section: Discussionmentioning

confidence: 99%

Retracing Phylogenetic, Host and Geographic Origins of Coronaviruses with Coloured Genomic Bootstrap Barcodes: SARS-CoV and SARS-CoV-2 as Case Studies

Hassanin

Rambaud

2023

Viruses

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Phylogenetic trees of coronaviruses are difficult to interpret because they undergo frequent genomic recombination. Here, we propose a new method, coloured genomic bootstrap (CGB) barcodes, to highlight the polyphyletic origins of human sarbecoviruses and understand their host and geographic origins. The results indicate that SARS-CoV and SARS-CoV-2 contain genomic regions of mixed ancestry originating from horseshoe bat (Rhinolophus) viruses. First, different regions of SARS-CoV share exclusive ancestry with five Rhinolophus viruses from Southwest China (RfYNLF/31C: 17.9%; RpF46: 3.3%; RspSC2018: 2.0%; Rpe3: 1.3%; RaLYRa11: 1.0%) and 97% of its genome can be related to bat viruses from Yunnan (China), supporting its emergence in the Rhinolophus species of this province. Second, different regions of SARS-CoV-2 share exclusive ancestry with eight Rhinolophus viruses from Yunnan (RpYN06: 5.8%; RaTG13: 4.8%; RmYN02: 3.8%), Laos (RpBANAL103: 3.3%; RmarBANAL236: 1.7%; RmBANAL52: 1.0%; RmBANAL247: 0.7%), and Cambodia (RshSTT200: 2.3%), and 98% of its genome can be related to bat viruses from northern Laos and Yunnan, supporting its emergence in the Rhinolophus species of this region. Although CGB barcodes are very useful in retracing the origins of human sarbecoviruses, further investigations are needed to better take into account the diversity of coronaviruses in bats from Cambodia, Laos, Myanmar, Thailand and Vietnam.

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Section: Discussionmentioning

confidence: 99%

Retracing Phylogenetic, Host and Geographic Origins of Coronaviruses with Coloured Genomic Bootstrap Barcodes: SARS-CoV and SARS-CoV-2 as Case Studies

Hassanin

Rambaud

2023

Viruses

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“…As mentioned above, R. nippon was regarded as conspecific with R. ferrumequinum (Andersen, 1905;Corbet, 1978;Dobson, 1876;Ellerman & Morrison-Scott, 1951;Koopman, 1994;Simmons, 2005) for a long time. Currently, R. nippon is generally acknowledged as a separate species (Burgin, 2019;Sano, 2015); this is supported by further genetic analyses (Ikeda & Motokawa, 2021;Koh et al, 2014) and morphologic examinations (Ikeda et al, 2020). However, some authors still consider the taxonomic status of R. nippon to be unresolved (see e.g.…”

Section: Introductionmentioning

confidence: 99%

“…Further, R. ferrumequinum is arguably the most extensively studied species of the ferrumequinum group (e.g. Andersen, 1905; Benda et al., 2006, 2012; Ikeda et al., 2020; Jiang et al., 2019; Kryštufek, 1993; Strelkov, 1971; Thomas, 1997), including its presence in numerous molecular studies (Benda & Vallo, 2012; Demos et al., 2019; Dool et al., 2016; Flanders et al., 2009, 2011; Koh et al., 2014; Rossiter et al., 2007; Stoffberg et al., 2010). Rhinolophus ferrumequinum is the largest horseshoe bat in the western Palaearctic and it morphologically resembles R. clivosus .…”

Section: Introductionmentioning

confidence: 99%

Phylogenetic relationships among horseshoe bats within the Rhinolophus ferrumequinum group (Mammalia, Chiroptera)

Uvizl,

Kotyková Varadínová,

Benda

2024

Zoologica Scripta

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The horseshoe bats of the Rhinolophus ferrumequinum group form a well‐defined lineage within the Afro‐Palaearctic clade of the genus Rhinolophus. The group currently comprises four species widely distributed across the Palaearctic and Afrotropic regions: R. bocharicus (Central Asia), R. clivosus (from northern Africa and the Levant through Arabian Peninsula and eastern Africa to southern Africa), R. ferrumequinum (from western Europe and northern Africa through the Balkans and Middle East to Central Asia and India) and R. nippon (southern and central China, Korea, and Japan). The broad ranges and geographical variations within these species have led to the proposal of numerous subspecies. The phylogenetic relationships and intraspecific variation of the R. ferrumequinum group were investigated using a genetic approach. One mitochondrial marker and five nuclear markers were sequenced and supplemented with available sequences for all four species of the group. Our study revealed five major lineages within the R. ferrumequinum group, resulting in the recognition of four currently known species and identification of a new species. The prior name available for this lineage/species is R. acrotis. The relationships between the lineages varied depending on the chosen marker, leaving the interspecific relations within the ferrumequinum group unresolved. In addition, the results indicated that R. clivosus experienced historic introgression from northern Africa and the Levant, resulting in replacement of its mtDNA by that of R. ferrumequinum. Together, this study introduces a new Rhinolophus species, which increases the number of species in the ferrumequinum group to five.

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“…ferrumequinum (Schreber, 1774) in the western Palearctic and the Japanese greater horseshoe bat R . nippon Temminck, 1835 in the eastern Palearctic became recognized as separate species (Burgin, 2019 ), which were subsequently diagnosed from each other and redescribed based on skull morphological characters (Ikeda, Jiang, et al, 2020 ). However, unresolved taxonomic problems remain for R .…”

Section: Introductionmentioning

confidence: 99%

“…subsequently diagnosed from each other and redescribed based on skull morphological characters (Ikeda, Jiang, et al, 2020). However, unresolved taxonomic problems remain for R. nippon populations in Northeast Asia, which includes northeastern China (Jilin and Liaoning provinces), the Korean Peninsula, the Japanese Archipelago, and peripheral islands.…”

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confidence: 99%

Phylogeography of the Japanese greater horseshoe bat Rhinolophus nippon (Mammalia: Chiroptera) in Northeast Asia: New insight into the monophyly of the Japanese populations

Ikeda

Motokawa

2021

Ecology and Evolution

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The bat order Chiroptera (Mammalia) is the second most speciose order of mammals, consisting of at least 21 families, 230 genera, and 1401 species (Wilson & Mittermeier, 2019). It is distributed worldwide, including on various islands, but not in the polar regions.Evolutionary biological studies of organisms on islands-island biological studies-have focused on birds that evolved dramatically as the result of isolation and adaptive radiation to the island environment as represented by Darwin's finches (

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Geographic variations of skull morphology in the Rhinolophus ferrumequinum species complex (Mammalia: Chiroptera)

Cited by 6 publications

References 31 publications

Retracing Phylogenetic, Host and Geographic Origins of Coronaviruses with Coloured Genomic Bootstrap Barcodes: SARS-CoV and SARS-CoV-2 as Case Studies

Retracing Phylogenetic, Host and Geographic Origins of Coronaviruses with Coloured Genomic Bootstrap Barcodes: SARS-CoV and SARS-CoV-2 as Case Studies

Phylogenetic relationships among horseshoe bats within the Rhinolophus ferrumequinum group (Mammalia, Chiroptera)

Phylogeography of the Japanese greater horseshoe bat Rhinolophus nippon (Mammalia: Chiroptera) in Northeast Asia: New insight into the monophyly of the Japanese populations

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