Transcriptome analysis reveals key genes and pathways related to sex differentiation in the Chinese soft-shelled turtle (Pelodiscus sinensis)

Luo, Lei; Chen, Chen; Zhu, Junxian; Wang, Yakun; Liu, Xiaoli; Liu, Haiyang; Geng, Lulu; Su, Junyu; Li, Wei; Zhu, Xiaoyan

doi:10.1016/j.cbd.2022.100986

Cited by 7 publications

(7 citation statements)

References 65 publications

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“…SOX30 , which is required for male fertility in mice [ 34 ] and is highly expressed in the testes for sex differentiation [ 35 ], was found highly expressed in cells isolated from both males and females, regardless of gender ( Figure 6 E).…”

Section: Resultsmentioning

confidence: 99%

Human Oral Mucosa as a Potentially Effective Source of Neural Crest Stem Cells for Clinical Practice

Bardag Gorce,

Al Dahan,

Narwani

et al. 2023

Cells

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We report in this study on the isolation and expansion of neural crest stem cells (NCSCs) from the epithelium of oral mucosa (OM) using reagents that are GMP-certified and FDA-approved for clinical use. Characterization analysis showed that the levels of keratins K2, K6C, K4, K13, K31, and K15—specific to OM epithelial cells—were significantly lower in the experimental NCSCs. While SOX10 was decreased with no statistically significant difference, the earliest neural crest specifier genes SNAI1/2, Ap2a, Ap2c, SOX9, SOX30, Pax3, and Twist1 showed a trend in increased expression in NCSCs. In addition, proteins of Oct4, Nestin and Noth1 were found to be greatly expressed, confirming NCSC multipotency. In conclusion, our study showed that the epithelium of OM contains NCSCs that can be isolated and expanded with clinical-grade reagents to supply the demand for multipotent cells required for clinical applications in regenerative medicine. Supported by Emmaus Medical Inc.

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Section: Resultsmentioning

confidence: 99%

Human Oral Mucosa as a Potentially Effective Source of Neural Crest Stem Cells for Clinical Practice

Bardag Gorce,

Al Dahan,

Narwani

et al. 2023

Cells

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“…According to previous studies (Lei et al, 2022) (Zhou et al, 2019), the gonads of P. sinensis were undifferentiated at 9-day and the 16-day was the critical period for gonad differentiation, under incubation conditions at a temperature of 31 °C and 75% humidity. To verify the reliability of RNA-Seq results and explore the functions of Bmp gene family members initially, the relative expression of the Bmp gene family members was detected in the gonads of 9-day, 16-day male and female embryos and in 6-month-old male and female gonads by qRT-PCR.…”

Section: Quantitative Real-time Pcr (Qrt-pcr) Of Bmp Gene Family 271 ...mentioning

confidence: 93%

“…All experimental P. sinensis and embryos were obtained from Caixing Industrial Co. (Huizhou, China). According to the sample collection method of Lei et al (2022) , embryos were collected on 9 and 16-day and gonads (including kidneys and gonads) were rapidly isolated under a light microscope, and stored in liquid nitrogen for RNA extraction. According to the Tissue DNA Extraction CZ Kit (Mabio, China) instructions, the rest of the tissue was used as DNA extraction to identify the sex of the embryos by PCR ( Li et al, 2020 ).…”

Section: Methodsmentioning

confidence: 99%

Genome-wide identification, evolution and expression analysis of bone morphogenetic protein (BMP) gene family in chinese soft-shell turtle (Pelodiscus sinensis)

et al. 2023

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Introduction: Bone morphogenetic proteins (BMPs) play a crucial role in bone formation and differentiation. Recent RNA-Seq results suggest that BMPs may be involved in the sex differentiation of P. sinensis, yet more relevant studies about BMPs in P. sinensis are lacking.Methods: Herein, we identified BMP gene family members, analyzed the phylogeny, collinear relationship, scaffold localization, gene structures, protein structures, transcription factors and dimorphic expression by using bioinformatic methods based on genomic and transcriptomic data of P. sinensis. Meanwhile, qRT-PCR was used to verify the RNA-Seq results and initially explore the function of the BMPs in the sex differentiation of P. sinensis.Results: A total of 11 BMP genes were identified, 10 of which were localized to their respective genomic scaffolds. Phylogenetic analysis revealed that BMP genes were divided into eight subfamilies and shared similar motifs (“WII”, “FPL”, “TNHA”, “CCVP”, and “CGC”) and domain (TGF-β superfamily). The results of the sexually dimorphic expression profile and qRT-PCR showed that Bmp2, Bmp3, Bmp15l, Bmp5, Bmp6 and Bmp8a were significantly upregulated in ovaries, while Bmp2lb, Bmp7, Bmp2bl and Bmp10 were remarkable upregulated in testes, suggesting that these genes may play a role in sex differentiation of P. sinensis.Discussion: Collectively, our comprehensive results enrich the basic date for studying the evolution and functions of BMP genes in P. sinensis.

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“…Three adult male and three adult female P. sinensis , all sourced from Huizhou Wealth Xing Industrial Co. (Huizhou, China), were chosen as the subjects for this experiment. The corresponding tissue samples were obtained following the sample collection protocol described by Lei et al [ 31 ] and were promptly preserved in liquid nitrogen for RNA isolation.…”

Section: Methodsmentioning

confidence: 99%

“…However, there is still an extreme lack of relevant studies on the DKK family in P. sinensis . In this study, Based on the whole set of transcriptome data available in our group, we screened to obtain the gene sequences of the DKK-able family members [ 31 ]. We used bioinformatics to identify the members of the DKK gene family in the P. sinensis genome and further analyzed their phylogenetic relationships, covariance analysis, genetic structure, conserved motifs, structural domains, conserved sites in the promoter region, gonadal expression profiles, transcriptional profile, and tissue expression profiles.…”

Section: Introductionmentioning

confidence: 99%

Whole-Genome Identification and Characterization of the DKK Gene Family and Its Transcription Profiles: An Analysis of the Chinese Soft-Shell Turtle (Pelodiscus sinensis)

Wang,

Zhu,

Chen

et al. 2024

Animals

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The DKK family is a canonical small family of WNT antagonists. Though recent studies have suggested that the DKK gene family may be involved in sex differentiation in Pelodiscus sinensis, there are still a lot of things about the DKK gene family that we do not know. In this study, we used bioinformatics methods to identify members of the DKK gene family in P. sinensis and analyzed their phylogeny, covariance, gene structure, structural domains, promoter conserved sites, signal peptides, gonadal transcription factors, transcriptional profiles, and tissue expression profiles. Additionally, qRT-PCR results were utilized for the validation and preliminary investigation of the function of the DKK gene family in P. sinensis. The results showed that the DKK gene family is divided into six subfamilies, distributed on six different chromosomal scaffolds containing different gene structures and conserved motifs with the same structural domains, and all of the members were secreted proteins. Our transcriptional profiling and embryonic expression analysis showed that DKKL1 and DKK4 were significantly expressed in the testes, whereas DKK1 and DKK3 were significantly upregulated in the ovaries. This suggests a potential function in sex differentiation in P. sinensis. Our results may provide a basic theoretical basis for the sex differentiation process in P. sinensis.

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Transcriptome analysis reveals key genes and pathways related to sex differentiation in the Chinese soft-shelled turtle (Pelodiscus sinensis)

Cited by 7 publications

References 65 publications

Human Oral Mucosa as a Potentially Effective Source of Neural Crest Stem Cells for Clinical Practice

Human Oral Mucosa as a Potentially Effective Source of Neural Crest Stem Cells for Clinical Practice

Genome-wide identification, evolution and expression analysis of bone morphogenetic protein (BMP) gene family in chinese soft-shell turtle (Pelodiscus sinensis)

Whole-Genome Identification and Characterization of the DKK Gene Family and Its Transcription Profiles: An Analysis of the Chinese Soft-Shell Turtle (Pelodiscus sinensis)

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