Whole-genome sequencing of 84 japanese eels reveals evidence against panmixia and support for sympatric speciation

Yoji Igarashi, Hong Zhang, Engkong Tan, Masashi Sekino, Kazutoshi Yoshitake, Shigeharu Kinoshita, Susumu Mitsuyama, Tatsuki Yoshinaga, Seinen Chow, Hiroaki Kurogi, Akira Shinoda, Yu San Han, Ryoshiro Wakiya, Noritaka Mochioka, Toshihiro Yamamoto, Hiroshi Kuwada, Yoshitsugu Kaji, Yutaka Suzuki, Takashi Gojobori, Takanori KobayashiKenji Saitoh, Shugo Watabe, Shuichi Asakawa

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

The Japanese eel (Anguilla japonica), European eel (Anguilla anguilla), and American eel (Anguilla rostrata) are migratory, catadromous, temperate zone fish sharing several common life cycle features. The population genetics of panmixia in these eel species has already been investigated. Our extensive population genetics analysis was based on 1400 Gb of whole-genome sequence (WGS) data from 84 eels. It demonstrated that a Japanese eel group from the Kuma River differed from other populations of the same species. Even after removing the potential adapted/selected single nucleotide polymorphism (SNP) data, and with very small differences (fixation index [Fst] = 0.01), we obtained results consistently indicating that panmixia does not occur in Japanese eels. The life cycle of the Japanese eel is well-established and the Kuma River is in the center of its habitat. Nevertheless, simple reproductive isolation is not the probable cause of non-panmixia in this species. We propose that the combination of spawning area subdivision, philopatry, and habitat preference/avoidance accounts for the non-panmixia in the Japanese eel population. We named this hypothesis the “reproductive isolation like subset mapping” (RISM) model. This finding may be indicative of the initial stages of sympatric speciation in these eels.

Original languageEnglish
Pages (from-to)1.-16
JournalGenes
Volume9
Issue number10
DOIs
Publication statusPublished - Oct 2018

Fingerprint

Eels
Genome
Anguilla
Reproductive Isolation
Population Genetics
Life Cycle Stages
Rivers
Ecosystem
Population
Single Nucleotide Polymorphism
Fishes

All Science Journal Classification (ASJC) codes

  • Genetics
  • Genetics(clinical)

Cite this

Igarashi, Y., Zhang, H., Tan, E., Sekino, M., Yoshitake, K., Kinoshita, S., ... Asakawa, S. (2018). Whole-genome sequencing of 84 japanese eels reveals evidence against panmixia and support for sympatric speciation. Genes, 9(10), 1.-16. https://doi.org/10.3390/genes9100474

Whole-genome sequencing of 84 japanese eels reveals evidence against panmixia and support for sympatric speciation. / Igarashi, Yoji; Zhang, Hong; Tan, Engkong; Sekino, Masashi; Yoshitake, Kazutoshi; Kinoshita, Shigeharu; Mitsuyama, Susumu; Yoshinaga, Tatsuki; Chow, Seinen; Kurogi, Hiroaki; Shinoda, Akira; Han, Yu San; Wakiya, Ryoshiro; Mochioka, Noritaka; Yamamoto, Toshihiro; Kuwada, Hiroshi; Kaji, Yoshitsugu; Suzuki, Yutaka; Gojobori, Takashi; Kobayashi, Takanori; Saitoh, Kenji; Watabe, Shugo; Asakawa, Shuichi.

In: Genes, Vol. 9, No. 10, 10.2018, p. 1.-16.

Research output: Contribution to journalArticle

Igarashi, Y, Zhang, H, Tan, E, Sekino, M, Yoshitake, K, Kinoshita, S, Mitsuyama, S, Yoshinaga, T, Chow, S, Kurogi, H, Shinoda, A, Han, YS, Wakiya, R, Mochioka, N, Yamamoto, T, Kuwada, H, Kaji, Y, Suzuki, Y, Gojobori, T, Kobayashi, T, Saitoh, K, Watabe, S & Asakawa, S 2018, 'Whole-genome sequencing of 84 japanese eels reveals evidence against panmixia and support for sympatric speciation', Genes, vol. 9, no. 10, pp. 1.-16. https://doi.org/10.3390/genes9100474
Igarashi, Yoji ; Zhang, Hong ; Tan, Engkong ; Sekino, Masashi ; Yoshitake, Kazutoshi ; Kinoshita, Shigeharu ; Mitsuyama, Susumu ; Yoshinaga, Tatsuki ; Chow, Seinen ; Kurogi, Hiroaki ; Shinoda, Akira ; Han, Yu San ; Wakiya, Ryoshiro ; Mochioka, Noritaka ; Yamamoto, Toshihiro ; Kuwada, Hiroshi ; Kaji, Yoshitsugu ; Suzuki, Yutaka ; Gojobori, Takashi ; Kobayashi, Takanori ; Saitoh, Kenji ; Watabe, Shugo ; Asakawa, Shuichi. / Whole-genome sequencing of 84 japanese eels reveals evidence against panmixia and support for sympatric speciation. In: Genes. 2018 ; Vol. 9, No. 10. pp. 1.-16.
@article{53469d68fbc24598973f75a3d72bc6ed,
title = "Whole-genome sequencing of 84 japanese eels reveals evidence against panmixia and support for sympatric speciation",
abstract = "The Japanese eel (Anguilla japonica), European eel (Anguilla anguilla), and American eel (Anguilla rostrata) are migratory, catadromous, temperate zone fish sharing several common life cycle features. The population genetics of panmixia in these eel species has already been investigated. Our extensive population genetics analysis was based on 1400 Gb of whole-genome sequence (WGS) data from 84 eels. It demonstrated that a Japanese eel group from the Kuma River differed from other populations of the same species. Even after removing the potential adapted/selected single nucleotide polymorphism (SNP) data, and with very small differences (fixation index [Fst] = 0.01), we obtained results consistently indicating that panmixia does not occur in Japanese eels. The life cycle of the Japanese eel is well-established and the Kuma River is in the center of its habitat. Nevertheless, simple reproductive isolation is not the probable cause of non-panmixia in this species. We propose that the combination of spawning area subdivision, philopatry, and habitat preference/avoidance accounts for the non-panmixia in the Japanese eel population. We named this hypothesis the “reproductive isolation like subset mapping” (RISM) model. This finding may be indicative of the initial stages of sympatric speciation in these eels.",
author = "Yoji Igarashi and Hong Zhang and Engkong Tan and Masashi Sekino and Kazutoshi Yoshitake and Shigeharu Kinoshita and Susumu Mitsuyama and Tatsuki Yoshinaga and Seinen Chow and Hiroaki Kurogi and Akira Shinoda and Han, {Yu San} and Ryoshiro Wakiya and Noritaka Mochioka and Toshihiro Yamamoto and Hiroshi Kuwada and Yoshitsugu Kaji and Yutaka Suzuki and Takashi Gojobori and Takanori Kobayashi and Kenji Saitoh and Shugo Watabe and Shuichi Asakawa",
year = "2018",
month = "10",
doi = "10.3390/genes9100474",
language = "English",
volume = "9",
pages = "1.--16",
journal = "Genes",
issn = "2073-4425",
publisher = "Multidisciplinary Digital Publishing Institute (MDPI)",
number = "10",

}

TY - JOUR

T1 - Whole-genome sequencing of 84 japanese eels reveals evidence against panmixia and support for sympatric speciation

AU - Igarashi, Yoji

AU - Zhang, Hong

AU - Tan, Engkong

AU - Sekino, Masashi

AU - Yoshitake, Kazutoshi

AU - Kinoshita, Shigeharu

AU - Mitsuyama, Susumu

AU - Yoshinaga, Tatsuki

AU - Chow, Seinen

AU - Kurogi, Hiroaki

AU - Shinoda, Akira

AU - Han, Yu San

AU - Wakiya, Ryoshiro

AU - Mochioka, Noritaka

AU - Yamamoto, Toshihiro

AU - Kuwada, Hiroshi

AU - Kaji, Yoshitsugu

AU - Suzuki, Yutaka

AU - Gojobori, Takashi

AU - Kobayashi, Takanori

AU - Saitoh, Kenji

AU - Watabe, Shugo

AU - Asakawa, Shuichi

PY - 2018/10

Y1 - 2018/10

N2 - The Japanese eel (Anguilla japonica), European eel (Anguilla anguilla), and American eel (Anguilla rostrata) are migratory, catadromous, temperate zone fish sharing several common life cycle features. The population genetics of panmixia in these eel species has already been investigated. Our extensive population genetics analysis was based on 1400 Gb of whole-genome sequence (WGS) data from 84 eels. It demonstrated that a Japanese eel group from the Kuma River differed from other populations of the same species. Even after removing the potential adapted/selected single nucleotide polymorphism (SNP) data, and with very small differences (fixation index [Fst] = 0.01), we obtained results consistently indicating that panmixia does not occur in Japanese eels. The life cycle of the Japanese eel is well-established and the Kuma River is in the center of its habitat. Nevertheless, simple reproductive isolation is not the probable cause of non-panmixia in this species. We propose that the combination of spawning area subdivision, philopatry, and habitat preference/avoidance accounts for the non-panmixia in the Japanese eel population. We named this hypothesis the “reproductive isolation like subset mapping” (RISM) model. This finding may be indicative of the initial stages of sympatric speciation in these eels.

AB - The Japanese eel (Anguilla japonica), European eel (Anguilla anguilla), and American eel (Anguilla rostrata) are migratory, catadromous, temperate zone fish sharing several common life cycle features. The population genetics of panmixia in these eel species has already been investigated. Our extensive population genetics analysis was based on 1400 Gb of whole-genome sequence (WGS) data from 84 eels. It demonstrated that a Japanese eel group from the Kuma River differed from other populations of the same species. Even after removing the potential adapted/selected single nucleotide polymorphism (SNP) data, and with very small differences (fixation index [Fst] = 0.01), we obtained results consistently indicating that panmixia does not occur in Japanese eels. The life cycle of the Japanese eel is well-established and the Kuma River is in the center of its habitat. Nevertheless, simple reproductive isolation is not the probable cause of non-panmixia in this species. We propose that the combination of spawning area subdivision, philopatry, and habitat preference/avoidance accounts for the non-panmixia in the Japanese eel population. We named this hypothesis the “reproductive isolation like subset mapping” (RISM) model. This finding may be indicative of the initial stages of sympatric speciation in these eels.

UR - http://www.scopus.com/inward/record.url?scp=85054830134&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85054830134&partnerID=8YFLogxK

U2 - 10.3390/genes9100474

DO - 10.3390/genes9100474

M3 - Article

AN - SCOPUS:85054830134

VL - 9

SP - 1.-16

JO - Genes

JF - Genes

SN - 2073-4425

IS - 10

ER -