Assessment of homozygosity levels in the mito-gynogenetic torafugu (Takifugu rubripes) by genome-wide SNP analyses

Hong Zhang, Yusuke Hirose, Rintaro Yoshino, Shigeharu Kinoshita, Kazuyoshi Saito, Engkong Tan, Yutaka Suzuki, Atsushi Shimizu, Hideyuki Okano, Jun Kudo, Shugo Watabe, Shuichi Asakawa

Research output: Contribution to journalArticle

5 Citations (Scopus)

Abstract

The compact genome of torafugu (Takifugu rubripes) is a useful model for annotating the vertebrate genomes. However, the currently incomplete assembly of the torafugu genome has decreased its value for genetic and genomic analyses. This is partly due to the usage of naturally heterozygous diploid genome as a starting material. Therefore, we generated mito-gynogenetic torafugu using the eggs fertilized by UV-irradiated sperm, followed by cold shock treatment. After a preliminary confirmation of homozygosity by microsatellite genotyping in one mito-gynogenetic torafugu, genome-wide single nucleotide polymorphism (SNP) analyses were employed for an accurate assessment of whole-genome homozygosity levels. SNP genotyping results indicated that the torafugu obtained through mitotic gynogenesis induction was doubled haploid. We report the first instance of assessing homozygosity levels by genome-wide SNP analyses in mito-gynogenetic fishes.

Original languageEnglish
Pages (from-to)114-119
Number of pages6
JournalAquaculture
Volume380-383
DOIs
Publication statusPublished - 2013 Mar 4

Fingerprint

Takifugu rubripes
homozygosity
single nucleotide polymorphism
polymorphism
genome
genotyping
gynogenesis
doubled haploids
cold stress
sperm
genomics
vertebrate
diploidy
vertebrates
spermatozoa
microsatellite repeats
egg
fish

Keywords

  • Doubled haploid
  • Homozygosity
  • Mitotic gynogenesis
  • Next-generation sequencing
  • Single nucleotide polymorphism
  • Torafugu (Takifugu rubripes)

ASJC Scopus subject areas

  • Aquatic Science

Cite this

Zhang, H., Hirose, Y., Yoshino, R., Kinoshita, S., Saito, K., Tan, E., ... Asakawa, S. (2013). Assessment of homozygosity levels in the mito-gynogenetic torafugu (Takifugu rubripes) by genome-wide SNP analyses. Aquaculture, 380-383, 114-119. https://doi.org/10.1016/j.aquaculture.2012.12.003

Assessment of homozygosity levels in the mito-gynogenetic torafugu (Takifugu rubripes) by genome-wide SNP analyses. / Zhang, Hong; Hirose, Yusuke; Yoshino, Rintaro; Kinoshita, Shigeharu; Saito, Kazuyoshi; Tan, Engkong; Suzuki, Yutaka; Shimizu, Atsushi; Okano, Hideyuki; Kudo, Jun; Watabe, Shugo; Asakawa, Shuichi.

In: Aquaculture, Vol. 380-383, 04.03.2013, p. 114-119.

Research output: Contribution to journalArticle

Zhang, H, Hirose, Y, Yoshino, R, Kinoshita, S, Saito, K, Tan, E, Suzuki, Y, Shimizu, A, Okano, H, Kudo, J, Watabe, S & Asakawa, S 2013, 'Assessment of homozygosity levels in the mito-gynogenetic torafugu (Takifugu rubripes) by genome-wide SNP analyses', Aquaculture, vol. 380-383, pp. 114-119. https://doi.org/10.1016/j.aquaculture.2012.12.003
Zhang, Hong ; Hirose, Yusuke ; Yoshino, Rintaro ; Kinoshita, Shigeharu ; Saito, Kazuyoshi ; Tan, Engkong ; Suzuki, Yutaka ; Shimizu, Atsushi ; Okano, Hideyuki ; Kudo, Jun ; Watabe, Shugo ; Asakawa, Shuichi. / Assessment of homozygosity levels in the mito-gynogenetic torafugu (Takifugu rubripes) by genome-wide SNP analyses. In: Aquaculture. 2013 ; Vol. 380-383. pp. 114-119.
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