Identification of male sex-linked DNA sequence of the cultured Pacific bluefin tuna Thunnus orientalis

Agawa, Yasuo; Iwaki, Mayui; Komiya, Takafumi; Honryo, Tomoki; Tamura, K; Okada, Takeya; Yagishita, Naoki; Kobayashi, Toru; Sawada, Yoshifumi

doi:10.1007/s12562-014-0833-8

Cited by 27 publications

(17 citation statements)

References 24 publications

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“…The DNA sequence of the male characteristic fragment Md6 has been identified in cultured Pacific bluefin tuna and a BLAST search against the Pacific bluefin tuna genome assembly showed highest identity (Expect value: 8 e−139 ) with contig BADN01109032 on scaffold Ba00007445 [24]. We designed four appropriate PCR primer sets for four MS regions on the scaffold to locate Md6 on the genetic linkage map ( Supplementary Table S1).…”

Section: Mapping Sex-linked Sequencesmentioning

confidence: 99%

“…There are multiple sex-determining regions in teleost fishes that do not possess homology to one another due to the turnover of sex chromosomes [23]. In bluefin tuna the sex-determining region has been identified to by XY based, and male-specific marker (male delta 6 or Md6) has been characterized [24]. There is no syntenic information about Md6 and those sex-determining regions in teleost fishes.…”

Section: Introductionmentioning

confidence: 99%

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Constructing Genetic Linkage Maps Using the Whole Genome Sequence of Pacific Bluefin Tuna (<i>Thunnus orientalis</i>) and a Comparison of Chromosome Structure among Teleost Species

Uchino¹,

Nakamura²,

Sekino³

et al. 2016

ABB

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Pacific bluefin tuna (Thunnus orientalis) is one of the most economically important species in the Percomorpha group of teleost fishes. Their migrations are extensive and depend upon continuous swimming at a high rate of speed throughout their life. The draft genome sequence of this species has been reported but remains highly fragmented. We constructed a Pacific bluefin tuna genetic linkage map using microsatellite markers developed on each of the scaffolds from the draft genome sequence to link these genome fragments and understand the genomic structure of species in Percomorpha. Of the 606 polymerase chain reaction microsatellite primer pairs tested, 473 were polymorphic in the mapping populations for the linkage analysis. We constructed sex-specific maps for 24 linkage groups consisting of 470 markers, which allowed us to place scaffolds that cumulatively represented 20.8% (153.8 Mb) of the sequenced genome onto the linkage groups. The distribution of orthologous genes on the chromosomes of tuna and four other teleost fish species suggested that the constitution of tuna chromosomes is closest to that of medaka. Both species have the 24 chromosomes of the ancestral teleost, including several chromosomal inver-* Corresponding author.T. Uchino et al. 86 sions. The integrated map developed in this study will be useful to construct a complete physical map to conduct comparative teleost genomics and genetic studies on economically useful traits in Pacific bluefin tuna.

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Section: Mapping Sex-linked Sequencesmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Constructing Genetic Linkage Maps Using the Whole Genome Sequence of Pacific Bluefin Tuna (<i>Thunnus orientalis</i>) and a Comparison of Chromosome Structure among Teleost Species

Uchino¹,

Nakamura²,

Sekino³

et al. 2016

ABB

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“…One might think this is relatively large number. Our previous study showed that there were 7 haplotypes in F3 PBF microsatellite Ttho-34, and 5 maternal line (Takagi et al 1999 andAgawa et al 2015). It was expectable that 11 polymorphism can exist in sequence level.…”

Section: Discussionmentioning

confidence: 97%

“…It is a useful strategy for aquaculture fish genotyping research. Recently, a genetic linkage map of PBF was (Uchino, Nakamura, Sekino, Kai, Fujiwara, Yasuike, Sugaya, Fukuda, Sano & Sakamoto 2016), and male sex-linked sequence (Agawa et al 2015) was mapped on it. Currently, the fragment identified in the present study has not been linked on the PBF linkage map yet, which we plan to determine in the future.…”

Section: Discussionmentioning

confidence: 99%

“…The F2 generation fish were produced in 2002 from the F1 group. The F3 in this study were produced 2007 from F2 (Seoka, Kurata, Tamagawa, Biswas, Biswas, Yong, Kim, Ji, Takii & Kumai 2008;Kumai, Miyashita, Sakamoto &Ono 2012 andAgawa, Iwaki, Komiya, Honryo, Tamura, Okada, Yagishita, Kobayashi &Sawada 2015). For broodstock organization, no particular selections were introduced.…”

Section: Pacific Bluefin Tunamentioning

confidence: 99%

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Identification of growth-related nucleotide polymorphism in cultured Pacific bluefin tuna, Thunnus orientalis

et al. 2016

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Pacific bluefin tuna (PBF), Thunnus orientalis, is commercially one of the most important species of tuna. In this study, amplified fragment length polymorphism (AFLP) screening was conducted to find the growth‐related polymorphic DNA in cultured PBF. Fish hatched in 2007 were harvested at an age of 818–1994 days. They were categorized into superior, average and inferior growth groups, depending on their growth score at the time of harvest. On AFLP screening of 24 fish, with eight fish from each group, 215 polymorphic DNA fragments were observed. A second amplification, with EcoRI + ACC and MseI + CCC primers, generated a polymorphic fragment of 630 bp at a rate of 80.0% (n = 15) in the superior, 56.3% (n = 16) in the average and 20.0% (n = 15) in the inferior growth groups. Polymerase chain reaction (PCR) primers, which could amplify both AFLP‐positive and AFLP‐negative loci, were developed using the consensus sequence outside the AFLP target fragment. Eleven haplotypes were obtained by sequence analysis of the PCR product at the AFLP target loci. Among those, haplotype 1 was statistically significant in the superior and average growth groups and could be used as a molecular marker for distinguishing the individuals with superior and average growth from those with inferior growth.

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Sex‐Specific Markers, Gynogenesis, and Sex Control in Spotted Halibut

Chen

2018

Sex Control in Aquaculture

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Identification of male sex-linked DNA sequence of the cultured Pacific bluefin tuna Thunnus orientalis

Cited by 27 publications

References 24 publications

Constructing Genetic Linkage Maps Using the Whole Genome Sequence of Pacific Bluefin Tuna (<i>Thunnus orientalis</i>) and a Comparison of Chromosome Structure among Teleost Species

Constructing Genetic Linkage Maps Using the Whole Genome Sequence of Pacific Bluefin Tuna (<i>Thunnus orientalis</i>) and a Comparison of Chromosome Structure among Teleost Species

Identification of growth-related nucleotide polymorphism in cultured Pacific bluefin tuna, Thunnus orientalis

Sex‐Specific Markers, Gynogenesis, and Sex Control in Spotted Halibut

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Identification of male sex-linked DNA sequence of the cultured Pacific bluefin tuna Thunnus orientalis

Cited by 27 publications

References 24 publications

Constructing Genetic Linkage Maps Using the Whole Genome Sequence of Pacific Bluefin Tuna (&lt;i&gt;Thunnus orientalis&lt;/i&gt;) and a Comparison of Chromosome Structure among Teleost Species

Constructing Genetic Linkage Maps Using the Whole Genome Sequence of Pacific Bluefin Tuna (&lt;i&gt;Thunnus orientalis&lt;/i&gt;) and a Comparison of Chromosome Structure among Teleost Species

Identification of growth-related nucleotide polymorphism in cultured Pacific bluefin tuna, Thunnus orientalis

Sex‐Specific Markers, Gynogenesis, and Sex Control in Spotted Halibut

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Product

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Constructing Genetic Linkage Maps Using the Whole Genome Sequence of Pacific Bluefin Tuna (<i>Thunnus orientalis</i>) and a Comparison of Chromosome Structure among Teleost Species

Constructing Genetic Linkage Maps Using the Whole Genome Sequence of Pacific Bluefin Tuna (<i>Thunnus orientalis</i>) and a Comparison of Chromosome Structure among Teleost Species