POPULATION STRUCTURE OF FINLESS PORPOISES (<i>NEOPHOCAENA PHOCAENOIDES</i>) IN COASTAL WATERS OF JAPAN BASED ON MITOCHONDRIAL DNA SEQUENCES

Yoshida, Hiderou; Yoshioka, Motoi; Shirakihara, Miki; Chow, Seinen

doi:10.1644/1545-1542(2001)082<0123:psofpn>2.0.co;2

Cited by 59 publications

(48 citation statements)

References 12 publications

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“…A 345 bp portion of the mitochondrial DNA control region was amplified using the primers t-PRO and Primer-2 from Yoshida et al (2001), using the same PCR conditions as for the microsatellite loci, and an annealing temperature of 55 1C. After amplification, primers and unincorporated dNTPs were degraded using EXOSAP-IT (Dugan et al, 2002), and products were sequenced using the DYEnamic dye terminator kit (GE Healthcare, Piscataway, NJ, USA).…”

Section: Molecular Methodsmentioning

confidence: 99%

Detecting recent speciation events: the case of the finless porpoise (genus Neophocaena)

Wang

Frasier

Yang³

et al. 2008

Heredity

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Recent speciation events provide important insights into the understanding and conservation of Earth's biodiversity, representing recent adaptations to a changing environment and an important source of future evolutionary potential. However, the most frequently applied criterion for molecularbased speciation investigations, that of reciprocal monophyly of mitochondrial sequences, overlooks recent speciation events where insufficient time has passed for fixed molecular differences to develop between putative species. Two morphologically distinguishable forms of finless porpoise (genus Neophocaena) exist in sympatry in the strait of Taiwan, however the taxonomic relationship of these different forms is controversial. To test the hypothesis that the two forms represent different species, a study was conducted based on morphological characters and microsatellite and mitochondrial markers. The data suggest that the two forms are highly differentiated in terms of both morphology and genetic characteristics, despite being sympatric, and therefore represent different species as defined by the biological species concept. Moreover, the two forms appear to have been reproductively isolated since sharing a common ancestor prior to the last major glaciation event B18 000 years ago. However, this represents an insufficient amount of time for reciprocal monophyly to have developed, and thus previous studies based on this criterion have overlooked this speciation event and resulted in incorrect taxonomic classification of these forms.

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Section: Molecular Methodsmentioning

confidence: 99%

Detecting recent speciation events: the case of the finless porpoise (genus Neophocaena)

Wang

Frasier

Yang³

et al. 2008

Heredity

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“…These samples were obtained from the Institute of Cetacean Research, National Museum of Natural Sciences and the Marine World Uminonakamichi Aquarium (Table 1). The finless porpoise samples were the same as used in the previous study on mitochondrial DNA sequences (Yoshida et al 2001). About two to four mg of the tissue samples stored in 70% ethanol, and 100 ml of blood samples kept in 50 mM EDTA-2Na were used for DNA extraction.…”

Section: Methodsmentioning

confidence: 99%

Sequence variation of the DQB allele in the cetacean MHC.

Hayashi

Nishida

Yoshida³

et al. 2003

Mammal Study

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Abstract. Putative nucleotide sequences for DQB exon 2 alleles of the major histocompatibility complex (MHC) were amplified and determined in the 16 cetacean species using the PCR technique. The 172 bp sequences amplified showed no multiple alleles more than two in each of the examined individuals. The sequences of the 31 cetacean DQB alleles detected were monophyletic with the HLA-DQB1, and were separated from the lineages of HLA-DQB2 and DQB3. These results suggest that the locus is the homolog to the human DQB1 gene. The observed frequency of nonsynonymous substitutions in the cetacean DQB sequences was significantly higher than that of synonymous substitutions. The amino acid variation at the putative peptide binding region (PBR) was considerably high. These results imply that positive selection has promoted its variability at the cetacean DQB gene as other mammalian MHC. The DQB gene tree showed that four Mysticeti alleles branched off from the clade consisted of Mysticeti alleles only and were included in the clade consisted of Odontoceti alleles. This suggests trans-species polymorphism in the cetacean MHC gene.

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“…Therefore, the subspecies inhabiting the river (N. asiaeorientalis asiaeorientalis) is classified as 'Critically Endangered' (CR), the most serious threat level, according to Criteria A3 and A4 of the IUCN Red List (Wang et al 2013). The porpoise population in Ariake Sound and Tachibana Bay (32°34' N, 130°10' E) is the southernmost of 5 populations in Japan, identified by mitochondrial DNA variability (Yoshida et al 2001, Yoshida 2002. These waters are located in western Kyu shu, and most of them have topographical features that are favorable for the porpoises: shallow depth (< 50 m) and the predominance of non-rocky bottoms (Shirakihara et al 1992).…”

Section: Introductionmentioning

confidence: 99%

“…Tachibana Bay connects Ariake Sound to the open sea. The porpoise population in these waters is one of the most abundant, and has one of the highest population densities in Japanese waters (Yoshida et al 1997, Yoshida 2002, Amano et al 2003, Shirakihara et al 2007. Moreover, the population shows a distinct haplotype cluster (Aizu et al 2013); therefore, it is a valuable resource for discovering the origin of Japanese narrow-ridged finless porpoises.…”

Section: Introductionmentioning

confidence: 99%

Effects of bycatch on the population viability of the narrow-ridged finless porpoises in Ariake Sound and Tachibana Bay, Japan

Hashimoto

Shirakihara²,

Shirakihara³

2015

Endang. Species. Res.

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POPULATION STRUCTURE OF FINLESS PORPOISES (NEOPHOCAENA PHOCAENOIDES) IN COASTAL WATERS OF JAPAN BASED ON MITOCHONDRIAL DNA SEQUENCES

Cited by 59 publications

References 12 publications

Detecting recent speciation events: the case of the finless porpoise (genus Neophocaena)

Detecting recent speciation events: the case of the finless porpoise (genus Neophocaena)

Sequence variation of the DQB allele in the cetacean MHC.

Effects of bycatch on the population viability of the narrow-ridged finless porpoises in Ariake Sound and Tachibana Bay, Japan

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