Discordance between Mitochondrial DNA Genealogy and Nuclear DNA Genetic Structure in the Two Morphotypes of<i>Rana tagoi tagoi</i>(Amphibia: Anura: Ranidae) in the Kinki Region, Japan

Eto, Kojiro; Matsui, Masafumi; Sugahara, Takahiro

doi:10.2108/zsj.30.553

Cited by 9 publications

(5 citation statements)

References 18 publications

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“…In the present study, two individuals of D. japonicus displayed a high level of admixture, with D. Japonicus mtDNA haplotype and a predominantly D. suweonensis nuDNA background. Similar instances of genetic mismatches between mtDNA and nuDNA have been observed in other amphibian species ( Ambu et al, 2023 ; Cairns et al, 2021 ; Eto, Matsui & Sugahara, 2013 ). Majtyka et al (2022) showed that the introgression of mtDNA was a consequence of repeated backcrossing and some hybrids between Hyla arborea and H. orientalis exhibited instances of cyto-nuclear discordance.…”

Section: Discussionsupporting

confidence: 79%

Development of molecular identification methods for Dryophytes suweonensis and D. japonicus, and their hybrids

Yoo,

Yoon,

Yoo

et al. 2024

PeerJ

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Background As hybridization can reduce biodiversity or cause extinction, it is important to identify both purebred parental species and their hybrids prior to conserving them. The Suwon tree frog, Dryophytes suweonensis, is an endangered wildlife species in Korea that shares its habitat and often hybridizes with the Japanese tree frog, D. japonicus. In particular, D. suweonensis, D. japonicus, and their hybrids often have abnormal ovaries and gonads, which are known causes that could threaten their existence. Methods We collected 57 individuals from six localities where D. suweonensis is known to be present. High-resolution melting curve (HRM) analysis of the mitochondrial 12S ribosomal RNA gene was performed to determine the maternal species. Thereafter, the DNA sequences of five nuclear genes (SIAH, TYR, POMC, RAG1, and C-MYC) were analyzed to determine their parental species and hybrid status. Results The HRM analysis showed that the melting temperature of D. suweonensis was in the range of 79.0–79.3 °C, and that of D. japonicus was 77.7–78.0 °C, which clearly distinguished the two tree frog species. DNA sequencing of the five nuclear genes revealed 37 single-nucleotide polymorphism (SNP) sites, and STRUCTURE analysis showed a two-group structure as the most likely grouping solution. No heterozygous position in the purebred parental sequences with Q values ≥ 0.995 were found, which clearly distinguished the two treefrog species from their hybrids; 11 individuals were found to be D. suweonensis, eight were found to be D. japonicus, and the remaining 38 individuals were found to be hybrids. Conclusion Thus, it was possible to unambiguously identify the parental species and their hybrids using HRM analysis and DNA sequencing methods. This study provided fundamental information for D. suweonensis conservation and restoration research.

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Section: Discussionsupporting

confidence: 79%

Development of molecular identification methods for Dryophytes suweonensis and D. japonicus, and their hybrids

Yoo,

Yoon,

Yoo

et al. 2024

PeerJ

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“…This kind of event involving deep mitochondrial divergence that implies past mitochondrial introgression from an unknown and not closely related species is uncommon in anurans. Historical interspecific introgressions events were reported in several groups of Anura: Ameerega (Dendrobatidae; Brown and Twomey, 2009); Anaxyrus, Bufo, and Bufotes (Bufonidae; Malmos et al, 2001;Yamazaki et al, 2008;Colliard et al, 2010;Dufresnes et al, 2019); Bombina (Bombinatoridae; Hofman and Szymura, 2007;De Cahsan et al, 2019); Dyscophus (Microhylidae; Orozco-terWengel et al, 2013); Hyla (Hylidae;Lamb and Avise, 1986;Bryson et al, 2010Bryson et al, , 2014Klymus et al, 2010); Mantella (Mantellidae; Crottini et al, 2019); Pelophylax and Rana (Ranidae; Liu et al, 2010;Zhou et al, 2012;Eto et al, 2013); Quasipaa (Dicroglossidae; Zhang et al, 2018); and Scutiger (Megophryidae; Chen et al, 2009). However, most of these events (except in Bombina, Bufotes, Quasipaa, and Scutiger) occurred among closely related species.…”

Section: Percentage Of Uncorrected P-distances Between 16s Sequences Among Species Of the Rhinella Margaritifera Groupmentioning

confidence: 99%

Evolution in the Genus Rhinella: A Total Evidence Phylogenetic Analysis of Neotropical True Toads (Anura: Bufonidae)

Pereyra

Blotto

Baldo

et al. 2021

Bulletin of the American Museum of Natural History

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True toads of the genus Rhinella are among the most common and diverse group of Neotropical anurans. These toads are widely distributed throughout South America, inhabiting a great diversity of environments and ecoregions. Currently, however, the genus is defined solely on the basis of molecular characters, and it lacks a proper diagnosis. Although some phenetic species groups have traditionally been recognized within Rhinella, the monophyly of some of them have been rejected in previous phylogenetic analyses, and many species remain unassigned to these poorly defined groups. Additionally, the identity and taxonomy of several species are problematic and hinder the specific recognition and description of undescribed taxa. In this work, we first perform phylogenetic analyses of separate mitochondrial and nuclear datasets to test the possible occurrence of hybridization and/or genetic introgression in the genus. The comparative analysis of both datasets revealed unidirectional mitochondrial introgressions of an unknown parental species into R . horribilis ("ghost introgression") and of R . dorbignyi into R . bernardoi; therefore, the mitochondrial and nuclear datasets of these species were considered separately in subsequent analyses. We performed total-evidence phylogenetic analyses that included revised molecular (four mitochondrial and five nuclear genes) and phenotypic (90 characters) datasets for 83 nominal species of Rhinella, plus several undescribed and problematic species and multiple outgroups. Results demonstrate that Rhinella was nonmonophyletic due to the position of R . ceratophrys, which was recovered as the sister taxon of Rhaebo nasicus with strong support. Among our outgroups, the strongly supported Anaxyrus + Incilius is the sister clade of all other species of Rhinella. Once R . ceratophrys is excluded, the genus Rhinella is monophyletic, well supported, and composed of two major clades. One of these is moderately supported and includes species of the former R . spinulosa Group (including R . gallardoi); the monophyletic R . granulosa, R . crucifer, and R . marina Groups; and a clade composed of the mitochondrial sequences of R . horribilis. The other major clade is strongly supported and composed of all the species from the non-monophyletic R . veraguensis and R . margaritifera Groups, the former R . acrolopha Group, and R . sternosignata. Consistent with these results, we define eight species groups of Rhinella that are mostly diagnosed by phenotypic synapomorphies in addition to a combination of morphological character states. Rhinella sternosignata is the only species that remains unassigned to any group. We also synonymize nine species, treat three former subspecies as full species, and suggest that 15 lineages represent putative undescribed species. Lastly, we discuss the apparently frequent occurrence of hybridization, deep mitochondrial divergence, and "ghost introgression"; the incomplete phenotypic evidence (including putative character systems that could be used for future phylogenetic...

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“…Azuma et al (2006) through long wavelength rhodopsin (LWRh) analysis categorized the Indian and SE Asian type of O. smaragdina population as Smaragdina B and Smaragdina A and suggested that SE Asian are derived and monophyletic while the Indian type is the ancestral. Discordant genetic 1 Detection of Heterozygosity and Allelic Frequency of Indian and Southeast Asian Types of Oecophylla smaragdina (Fabricius)... relationships usually occurred from mitochondrial introgression or the incomplete lineage sorting (Eto et al 2013) which was observed from the two types of weaver ants in Bangladesh (Rahman et al 2020). The occured discordancy can partially reveal the hybrid phenomenon but cannot fully detect the hybridization status of the colony by revealing the identical alleles.…”

Section: Introductionmentioning

confidence: 99%

Detection of Heterozygosity and Allelic Frequency of Indian and Southeast Asian Types of Oecophylla smaragdina (Fabricius) (Hymenoptera, Formicidae) in Bangladesh using Microsatellite Markers

Rahman

Hosoishi²,

Ogata

2021

ASD

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Background: The two types of Asian weaver ant species, Oecophylla smaragdina, Indian types and Southeast (SE) Asian types can co-occur in the same habitat. Previous study on mtDNA based phylogenesis of O. smaragdina in Bangladesh has revealed the presence of the mixture of both Indian and SE Asian type of O. smaragdina. However, the nuclear DNA based study showed some inconsistency leading the chance of hybridization as colonies encountered from two localities contained O. smaragdina workers from more than one type as identified via longwave length rhodopsin (LWRh) and mitochondrial COI and Cytb gene analysis. The purpose of present study was to detect hybridization status and to find out the identical allele for Indian and SE Asian type of O. smaragdina from different colonies. Method: A total of seven O. smaragdina colonies had been collected from Bangladesh during 2013 to December 2016. Microsatellite analysis were performed for Gene mapping and heterozygosity study with 11 microsatellite loci through electropherogrum study generated by peak scanner software.Result: Among 11 microsatellite loci, two loci, MS 8.24 and MS 6.45 provided the identical allele position for Indian and SE Asian types while no allelic position were identified with nine microsatellite loci. The results inferred that weaver ant of both Indian and SE Asian type engage in bidirectional interspecific gene flow. The strong possibility of hybridization between these two types is inferred, which indicates that barriers to hybridization do not exist or can be completely overcome. This is unexpected, given that they are non-sister species and broadly sympatric in nature. These findings also indicate the possible occurrence of hybrid-hybrid crosses in some localities of weaver ant, a phenomenon rarely observed in ants.

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Discordance between Mitochondrial DNA Genealogy and Nuclear DNA Genetic Structure in the Two Morphotypes ofRana tagoi tagoi(Amphibia: Anura: Ranidae) in the Kinki Region, Japan

Cited by 9 publications

References 18 publications

Development of molecular identification methods for Dryophytes suweonensis and D. japonicus, and their hybrids

Development of molecular identification methods for Dryophytes suweonensis and D. japonicus, and their hybrids

Evolution in the Genus Rhinella: A Total Evidence Phylogenetic Analysis of Neotropical True Toads (Anura: Bufonidae)

Detection of Heterozygosity and Allelic Frequency of Indian and Southeast Asian Types of Oecophylla smaragdina (Fabricius) (Hymenoptera, Formicidae) in Bangladesh using Microsatellite Markers

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