Genome-wide SNP analysis suggests male heterogamety in bighead catfish (Clarias macrocephalus,  )

Nguyen, Dung Ho My; Ponjarat, Jatupong; Laopichienpong, Nararat; Kraichak, Ekaphan; Panthum, Thitipong; Singchat, Worapong; Ahmad, Syed Farhan; Muangmai, Narongrit; Duengkae, Prateep; Peyachoknagul, Surin; Ezaz, Tariq; Na-Nakorn, Uthairat; Srikulnath, Kornsorn

doi:10.1016/j.aquaculture.2021.737005

Cited by 22 publications

(33 citation statements)

References 92 publications

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“…Multiple libraries of the same individual were included in the DArTseq ™ genotyping process, enabling reproducibility scores to be calculated for each candidate marker. The outputs generated by DArTsoft14 included reproducibility values at >90%, with read depth >3.5 for SNPs and >5 for PA markers, with call rate >80% (proportion of samples for which the marker was scored) (Koomgun et al, 2020;Laopichienpong et al, 2021;Nguyen et al, 2021a;Nguyen et al, 2021b).…”

Section: Dart Sequencing and Genotypingmentioning

confidence: 99%

“…For an XX/XY sex chromosome system, the SNP and PA loci sequenced for at least 70%, 80%, 90% and 100% of males were involved in a separate data set. Loci, where all males passed the 100% filtering criterion, were designated as perfectly malelinked, whereas those that passed the 70%-90% criterion were considered moderately male-linked loci (Koomgun et al, 2020;Laopichienpong et al, 2021;Nguyen et al, 2021a;Nguyen et al, 2021b). A similar approach was used to target loci with ZZ/ZW system.…”

Section: Marker Selection and Dart Sequencing Analysismentioning

confidence: 99%

“…ZZ/ZW and XX/XY are the common SDSs in the female and male heterogametic systems, and they have evolved repeatedly and independently in the lineage. This results in the presence of rapidly evolving SDSs in closely related species (Gammerdinger and Kocher, 2018;Nguyen et al, 2021a;Nguyen et al, 2021b). Thus, a study of sister taxa retaining divergent sex chromosome systems would be informative when examining SDS evolution.…”

Section: Introductionmentioning

confidence: 99%

“…Interspecific hybridization has successfully improved the growth rate, body size, disease resistance, and tolerance to stressors in aquaculture (Suprapto et al, 2017). For instance, male African catfish (C. gariepinus, 2n = 56) have been crossed with female bighead catfish (Clarias macrocephalus, Günther, 1864, 2n = 54 with XX/XY) to produce fast growth and improved disease resistance traits in the resulting hybrids (2n = 55) (Na-Nakorn, 1995;Chaivichoo et al, 2020;Nguyen et al, 2021a;Nguyen et al, 2021b). However, reproductive failure can occur as a result of chromosomal incompatibility with parental genomes.…”

Section: Introductionmentioning

confidence: 99%

“…In this study, we proposed the following two hypotheses: 1) the hybrid might possess the dominant SDS from male African catfish when Y or W sex chromosomes is present in different individuals, or 2) the hybrid might exhibit new candidate loci or a combination of different alleles due to the influence of PSD found in male African catfish. To determine how sex determination affects the viability of hybrid catfish, genome-wide single-nucleotide polymorphism (SNP) analyses were performed using Diversity Arrays Technology (DArTseq ™ ) of captive-bred individuals scored with phenotypic sex, as described by Nguyen et al (2021a) and Nguyen et al (2021b). Results will provide insights to improve the understanding of SDSs in clariid fish.…”

Section: Introductionmentioning

confidence: 99%

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Genome-Wide SNP Analysis of Hybrid Clariid Fish Reflects the Existence of Polygenic Sex-Determination in the Lineage

et al. 2022

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The African catfish (Clarias gariepinus) may exhibit the co-existence of XX/XY and ZZ/ZW sex-determination systems (SDSs). However, the SDS of African catfish might be influenced by a polygenic sex-determination (PSD) system, comprising multiple independently segregating sex “switch” loci to determine sex within a species. Here, we aimed to detect the existence of PSD using hybrid. The hybrid produced by crossing male African catfish with female bighead catfish (C. macrocephalus, XX/XY) is a good animal model to study SDSs. Determining the SDS of hybrid catfish can help in understanding the interactions between these two complex SDS systems. Using the genotyping-by-sequencing “DART-seq” approach, we detected seven moderately male-linked loci and seventeen female-linked loci across all the examined hybrid specimens. Most of these loci were not sex-linked in the parental species, suggesting that the hybrid exhibits a combination of different alleles. Annotation of the identified sex-linked loci revealed the presence of one female-linked locus homologous with the B4GALNT1 gene, which is involved in the spermatogenesis pathway and hatchability. However, this locus was not sex-linked in the parental species, and the African catfish might also exhibit PSD.

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Section: Dart Sequencing and Genotypingmentioning

confidence: 99%

Section: Marker Selection and Dart Sequencing Analysismentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genome-Wide SNP Analysis of Hybrid Clariid Fish Reflects the Existence of Polygenic Sex-Determination in the Lineage

et al. 2022

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Sex determination mechanisms and sex control approaches in aquaculture animals

Mei

et al. 2022

Sci. China Life Sci.

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Aquaculture is one of the most efficient modes of animal protein production and plays an important role in global food security. Aquaculture animals exhibit extraordinarily diverse sexual phenotypes and underlying mechanisms, providing an ideal system to perform sex determination research, one of the important areas in life science. Moreover, sex is also one of the most valuable traits because sexual dimorphism in growth, size, and other economic characteristics commonly exist in aquaculture animals. Here, we synthesize current knowledge of sex determination mechanisms, sex chromosome evolution, reproduction strategies, and sexual dimorphism, and also review several approaches for sex control in aquaculture animals, including artificial gynogenesis, application of sex-specific or sex chromosome-linked markers, artificial sex reversal, as well as gene editing. We anticipate that better understanding of sex determination mechanisms and innovation of sex control approaches will facilitate sustainable development of aquaculture.

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Implications of genome-wide single nucleotide polymorphisms in jade perch (Scortum barcoo) reveals the putative XX/XY sex-determination system, facilitating a new chapter of sex control in aquaculture

et al. 2022

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Genome-wide SNP analysis suggests male heterogamety in bighead catfish (Clarias macrocephalus, )

Cited by 22 publications

References 92 publications

Genome-Wide SNP Analysis of Hybrid Clariid Fish Reflects the Existence of Polygenic Sex-Determination in the Lineage

Genome-Wide SNP Analysis of Hybrid Clariid Fish Reflects the Existence of Polygenic Sex-Determination in the Lineage

Sex determination mechanisms and sex control approaches in aquaculture animals

Implications of genome-wide single nucleotide polymorphisms in jade perch (Scortum barcoo) reveals the putative XX/XY sex-determination system, facilitating a new chapter of sex control in aquaculture

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