Sex-specific markers developed by next-generation sequencing confirmed a male heterogametic sex determination in small abalone, Haliotis diversicolor

Weng, Xiaoxia; Xu, Yangru; Dong, Xufeng; Luo, Xuan; Wang, You; Cai, Kai; Cai, Mingyi

doi:10.1016/j.aquaculture.2022.738256

Cited by 7 publications

(2 citation statements)

References 47 publications

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“…In a wholegenome resequencing (WGRS-seq) study of Gadus morhua, a total of 227 samples were used with sequencing at a depth of ~10.9 × [48]. Another disadvantage of WGRS-seq is the dependency on the reference genome of the sequenced species [49,50]; meanwhile, reduced-representation genome sequencing (RRGS-seq), including RAD-seq, ddRAD-seq, and 2bRAD-seq, shares the same shortcoming [21,51,52]. Additionally, the sex-specific sequences obtained from RRGS-seq are too few and too short [44], which is attributed to the restriction of enzyme sites, resulting in the difficulties in their detection using simple methods (PCR amplification and electrophoresis) and the risk of loss of more sex-specific sequences.…”

Section: Discussionmentioning

confidence: 99%

Identification of Sex-Specific Markers and Candidate Genes Using WGS Sequencing Reveals a ZW-Type Sex-Determination System in the Chinese Soft-Shell Turtle (Pelodiscus sinensis)

Zhu,

Wang,

Chen

et al. 2024

IJMS

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Male and female Chinese soft-shelled turtles (Pelodiscus sinensis) have sex-dimorphic growth patterns, and males have higher commercial value because of their larger size and thicker calipash. Thus, developing sex-specific markers is beneficial to studies on all-male breeding in P. sinensis. Here, we developed an accurate and efficient workflow for the screening of sex-specific sequences with ZW or XY sex determination systems. Based on this workflow, female and male P. sinensis reference genomes of 2.23 Gb and 2.26 Gb were obtained using de novo assembly. After aligning and filtering, 4.01 Mb female-specific sequences were finally identified. Subsequently, the seven developed sex-specific primer pairs were 100% accurate in preliminary, population, and embryonic validation. The presence and absence of bands for the primers of P44, P45, P66, P67, P68, and P69, as well as two and one bands for the PB1 primer, indicate that the embryos are genetically female and male, respectively. NR and functional annotations identified several sex-determining candidate genes and related pathways, including Ran, Eif4et, and Crkl genes, and the insulin signaling pathway and the cAMP signaling pathway, respectively. Collectively, our results reveal that a ZW-type sex-determination system is present in P. sinensis and provide novel insights for the screening of sex-specific markers, sex-control breeding, and the studies of the sex determination mechanism of P. sinensis.

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Section: Discussionmentioning

confidence: 99%

Identification of Sex-Specific Markers and Candidate Genes Using WGS Sequencing Reveals a ZW-Type Sex-Determination System in the Chinese Soft-Shell Turtle (Pelodiscus sinensis)

Zhu,

Wang,

Chen

et al. 2024

IJMS

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“…Recently, based on many molecular biology techniques, such as Amplified fragment length polymorphism (AFLP), Restriction-site-associated DNA sequencing (RAD-seq), genomic sequencing and re-sequencing, transcriptome sequencing, etc., the genetic factors of sex determination have been studied in greater detail. Up to now, not only have many sex-related markers, sex-related genes and pathways and quantitative trait loci (QTLs) for sex been identified [ 16 , 17 , 18 , 19 ], but some novel insights into the sex-determination mechanism in mollusks were provided. For example, the research conducted by Yue et al [ 20 ] based on the RAD-seq showed no evidence for sex chromosomes or single-locus models for Crassostrea gigas primary sex determination, and they proposed a sex-determination hypothesis involving multiple genetic factors.…”

Section: Introductionmentioning

confidence: 99%

Gonadal Transcriptome Sequencing Analysis Reveals the Candidate Sex-Related Genes and Signaling Pathways in the East Asian Common Octopus, Octopus sinensis

Li,

Chen,

Zhang

et al. 2024

Genes

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The East Asian common octopus (Octopus sinensis) is an economically important species among cephalopods. This species exhibits a strict dioecious and allogamous reproductive strategy, along with a phenotypic sexual dimorphism, where the third right arm differentiates into hectocotylus in males. However, our understanding of the molecular mechanisms that underlie sex determination and differentiation in this species remains limited. In the present study, we surveyed gene-expression profiles in the immature male and female gonads of O. sinensis based on the RNA-seq, and a total of 47.83 Gb of high-quality data were generated. Compared with the testis, we identified 8302 differentially expressed genes (DEGs) in the ovary, of which 4459 genes were up-regulated and 3843 genes were down-regulated. Based on the GO enrichment, many GO terms related to sex differentiation were identified, such as sex differentiation (GO: 0007548), sexual reproduction (GO: 0019953) and male sex differentiation (GO: 0046661). A KEGG classification analysis identified three conserved signaling pathways that related to sex differentiation, including the Wnt signaling pathway, TGF-β signaling pathway and Notch signaling pathway. Additionally, 21 sex-related DEGs were selected, of which 13 DEGs were male-biased, including Dmrt1, Foxn5, Foxj1, Sox30, etc., and 8 DEGs were female-biased, including Sox14, Nanos3, β-tubulin, Suh, etc. Ten DEGs were used to verify the expression patterns in the testis and ovary using the RT-qPCR method, and the results showed that the expression level shown by RT-qPCR was consistent with that from the RNA-seq, which confirmed the reliability of the transcriptome data. The results presented in this study will not only contribute to our understanding of sex-formation mechanisms in O. sinensis but also provide the foundational information for further investigating the molecular mechanisms that underline its gonadal development and facilitate the sustainable development of octopus artificial breeding.

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Unveiling potential sex-determining genes and sex-specific markers in autotetraploid Carassius auratus

Zhang,

Huang,

Wang

et al. 2024

Sci. China Life Sci.

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Sex-specific markers developed by next-generation sequencing confirmed a male heterogametic sex determination in small abalone, Haliotis diversicolor

Cited by 7 publications

References 47 publications

Identification of Sex-Specific Markers and Candidate Genes Using WGS Sequencing Reveals a ZW-Type Sex-Determination System in the Chinese Soft-Shell Turtle (Pelodiscus sinensis)

Identification of Sex-Specific Markers and Candidate Genes Using WGS Sequencing Reveals a ZW-Type Sex-Determination System in the Chinese Soft-Shell Turtle (Pelodiscus sinensis)

Gonadal Transcriptome Sequencing Analysis Reveals the Candidate Sex-Related Genes and Signaling Pathways in the East Asian Common Octopus, Octopus sinensis

Unveiling potential sex-determining genes and sex-specific markers in autotetraploid Carassius auratus

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