Transcriptome analysis of three critical periods of ovarian development in Yellow River carp ( Cyprinus carpio )

Jia, Yongfang; Peng, Nan; Zhang, Wanwan; Wang, Fang; Zhang, Ruihua; Liang, Tingting; Ji, Xiaolin; Du, Qiyun; Chang, Zhongjie

doi:10.1016/j.theriogenology.2017.08.027

Cited by 26 publications

(9 citation statements)

References 57 publications

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“…In the rainbow trout, three stages of precocious ovaries were analyzed for DEGs as compared to normal ovary by subtractive hybridization and microarray ( 54 ). A recent RNA-seq study in the common carp examined gene expression profiles at three stages of ovarian development, namely undifferentiated gonads, immature juvenile ovary and mature adult ovary, with a large number of DEGs assigned to biological processes related to reproduction ( 55 ). In the zebrafish, an early study used SAGE to analyze the transcriptome of full-grown follicles and compared it with similar transcriptomes of other vertebrate species ( 56 ).…”

Section: Introductionmentioning

confidence: 99%

Transcriptomic Analysis for Differentially Expressed Genes in Ovarian Follicle Activation in the Zebrafish

et al. 2018

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In teleosts, the onset of puberty in females is marked by the appearance of the first wave of pre-vitellogenic (PV) follicles from the pool of primary growth (PG) follicles (follicle activation) in the ovary during sexual maturation. To understand the mechanisms underlying follicle activation and therefore puberty onset, we undertook this transcriptomic study to investigate gene expression profiles in the event. Our analysis revealed a total of 2,027 up-regulated and 859 down-regulated genes during the PG-PV transition. Gene Ontology (GO) analysis showed that in addition to basic cellular functions such as gene transcription, cell differentiation, and cell migration, other biological processes such as steroidogenesis, cell signaling and angiogenesis were also enriched in up-regulated genes; by comparison, some processes were down-regulated including piRNA metabolism, gene silencing and proteolysis. Further Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis identified a variety of signaling pathways that might play pivotal roles in PG-PV transition, including MAPK, TGF-β, Hedgehog, FoxO, VEGF, Jak-STAT, and phosphatidylinositol signaling pathways. Other pathways of particular interest included endocytosis and glycosaminoglycan biosynthesis. We also analyzed expression changes of genes expressed in different compartments viz. oocytes and follicle cells. Interestingly, most oocyte-specific genes remained unchanged in expression during follicle activation whereas a great number of genes specifically expressed in the follicle cells showed significant changes in expression. Overall, this study reported a comprehensive analysis for genes, biological processes and pathways involved in follicle activation, which also marks female puberty onset in the zebrafish when occurring for the first time in sexual maturation.

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Section: Introductionmentioning

confidence: 99%

Transcriptomic Analysis for Differentially Expressed Genes in Ovarian Follicle Activation in the Zebrafish

et al. 2018

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“…Some of the GSGs have been found to exhibit female-biased 16 16 expression in later diverging vertebrates, and some are involved in ovarian development, suggesting that the tissue (gonad) of expression may be conserved, but the function (male vs. female gonadogenesis) is not. Importantly, however, we find orthologues or paralogues of most of the core genes involved in sex-determination across vertebrates e.g., fibroblast growth factor 8 (fgf8), which is involved in sex determination in mice [32][33][34] , as well as fibroblast growth factor receptor 3 (fgfr3), which is involved in sex determination in sturgeon (Acipenser dabryanus) 35 .…”

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confidence: 95%

The germline-specific region of the sea lamprey genome plays a key role in spermatogenesis

Yasmin

Grayson

Docker

et al. 2021

Preprint

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The sea lamprey genome undergoes programmed genome rearrangement (PGR) in which ~20% is jettisoned from somatic cells soon after fertilization. Although the role of PGR in embryonic development has been studied, the role of the germline-specific region (GSR) in gonad development is unknown. We analysed RNA-sequence data from 28 sea lamprey gonads sampled across life-history stages, generated a genome-guided de novo superTransciptome with annotations, and identified genes in the GSR. We found that the 638 genes in the GSR are enriched for reproductive processes, exhibit 36x greater odds of being expressed in testes than ovaries, show little evidence of conserved synteny with other chordates, and most have putative paralogues in the GSR and/or somatic genomes. Further, several of these genes play known roles in sex determination and differentiation in other vertebrates. We conclude that the GSR of sea lamprey plays an important role in testicular differentiation and potentially sex determination.

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“…The artificial control of fish sex, especially to select for best growth performance, is widely applied in aquaculture. Currently, at least 50 species of fish have been successfully induced to artificially reverse sex, including Pelteobagrus fulvidraco [ 2 ], Dicentrarchus labrax [ 3 ], Scophthalmus maximus [ 4 ], Cyprinus carpio [ 5 ], Chlamys nobilis [ 6 ], Oreochromis niloticus [ 7 ], and Cynoglossus semilaevis [ 8 ]. Takifugu rubripes is among the most commonly cultured fishes in China, Korea, and Japan; the annual production of Takifugu rubripes in 2019 was 9911 tons.…”

Section: Introductionmentioning

confidence: 99%

A Transcriptomic Analysis of Gonads from the Low-Temperature-Induced Masculinization of Takifugu rubripes

Sun

et al. 2021

Animals

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The phenotypic sex of fish is usually plastic. Low-temperature treatment induces the masculinization of Takifugu rubripes, resulting in pseudo-males (PM) with the physiological sex of a male (M) and genetic sex of a female (F). For a comparison of gonadal transcriptomes, we collected gonads from three groups of T. rubripes (F, M, and PM) for high-throughput transcriptome sequencing. The results provided 467,640,218 raw reads (70.15 Gb) and a total of 436,151,088 clean reads (65.43 Gb), with an average length of 150 bp. Only 79 differentially expressed genes (DEGs) were identified between F and PM, whereas 12,041 and 11,528 DEGs were identified between F and M, and PM and M, respectively. According to the functional annotation of DEGs, 13 DEGs related to gonadal development were screened (LOC101066759, dgat1, limk1, fbxl3, col6a3, fgfr3, dusp22b, svil, abhd17b, srgap3, tmem88b, bud4, and mustn10) which might participate in formating PM. A quantitative PCR of the DEGs confirmed the reliability of the RNA-seq. Our results provide an important contribution to the genome sequence resources for T. rubripes and insight into the molecular mechanism of masculinization in a cultured fish subject to low-temperature treatment.

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Transcriptome analysis of three critical periods of ovarian development in Yellow River carp ( Cyprinus carpio )

Cited by 26 publications

References 57 publications

Transcriptomic Analysis for Differentially Expressed Genes in Ovarian Follicle Activation in the Zebrafish

Transcriptomic Analysis for Differentially Expressed Genes in Ovarian Follicle Activation in the Zebrafish

The germline-specific region of the sea lamprey genome plays a key role in spermatogenesis

A Transcriptomic Analysis of Gonads from the Low-Temperature-Induced Masculinization of Takifugu rubripes

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