scholarly journals Transcriptomics analysis revealing candidate genes and networks for sex differentiation of Yesso scallop(Patinopecten yessoensis)

2019 ◽  
Author(s):  
Liqing Zhou ◽  
Zhihong Liu ◽  
Yinghui Dong ◽  
Xiujun Sun ◽  
Biao Wu ◽  
...  
Keyword(s):  
Sex Determination ◽  
Candidate Genes ◽  
Developmental Stages ◽  
Sex Differentiation ◽  
Northeast Asia ◽  
Gonadal Development ◽  
Patinopecten Yessoensis ◽  
Mizuhopecten Yessoensis ◽  
Kegg Pathways ◽  
Yesso Scallop

Abstract Background:The Yesso scallop, Patinopecten (Mizuhopecten) yessoensis, is a commercially important bivalve in the coastal countries of Northeast Asia. It has complex modes of sex differentiation, but knowledge of the mechanisms underlying this sex determination and differentiation is limited. Results:In this study, the gonad tissues from females and males at three developmental stages were used to investigate candidate genes and networks for sex differentiation via RNA-Req. A total of 901,980,606 high quality clean reads were obtained from 18 libraries, of which 417 expressed male-specific genes and 754 expressed female-specific genes. Totally, 10,074 genes differentially expressed in females and males were identified. Weighted gene co-expression network analysis (WGCNA) revealed that turquoise and green gene modules were significantly positively correlated with male gonads, while coral1 and black modules were significantly associated with female gonads. The most important gene for sex determination and differentiation was Pydmrt1, which was the only gene discovered that determined the male sex phenotype during early gonadal differentiation. Enrichment analyses of GO terms and KEGG pathways revealed that genes involved in metabolism, genetic and environmental information processes or pathways are sex-biased. Forty-nine genes in the five modules involved in sex differentiation or determination were identified and selected to construct a gene co-expression network and a hypothesized sex differentiation pathway. Conclusions: The current study focused on screening genes of sex differentiation in Yesso scallop, highlighting the potential regulatory mechanisms of gonadal development in P. yessoensis. Our data suggested that WCGNA can facilitate identification of key genes for sex differentiation and determination. Using this method, a hypothesized P. yessoensis sex determination and differentiation pathway was constructed. In this pathway, Pydmrt1 may have a leading function.

scholarly journals Transcriptomics analysis revealing candidate genes and networks for sex differentiation of Yesso scallop(Patinopecten yessoensis)

2019 ◽  
Author(s):  
Liqing Zhou ◽  
Zhihong Liu ◽  
Yinghui Dong ◽  
Xiujun Sun ◽  
Biao Wu ◽  
...  
Keyword(s):  
Sex Determination ◽  
Candidate Genes ◽  
Developmental Stages ◽  
Sex Differentiation ◽  
Northeast Asia ◽  
Gonadal Development ◽  
Patinopecten Yessoensis ◽  
Mizuhopecten Yessoensis ◽  
Kegg Pathways ◽  
Yesso Scallop

Abstract Background:The Yesso scallop, Patinopecten (Mizuhopecten) yessoensis, is a commercially important bivalve in the coastal countries of Northeast Asia. It has complex modes of sex differentiation, but knowledge of the mechanisms underlying this sex determination and differentiation is limited. Results:In this study, the gonad tissues from females and males at three developmental stages were used to investigate candidate genes and networks for sex differentiation via RNA-Req. A total of 901,980,606 high quality clean reads were obtained from 18 libraries, of which 417 expressed male-specific genes and 754 expressed female-specific genes. Totally, 10,074 genes differentially expressed in females and males were identified. Weighted gene co-expression network analysis (WGCNA) revealed that turquoise and green gene modules were significantly positively correlated with male gonads, while coral1 and black modules were significantly associated with female gonads. The most important gene for sex determination and differentiation was Pydmrt1, which was the only gene discovered that determined the male sex phenotype during early gonadal differentiation. Enrichment analyses of GO terms and KEGG pathways revealed that genes involved in metabolism, genetic and environmental information processes or pathways are sex-biased. Forty-nine genes in the five modules involved in sex differentiation or determination were identified and selected to construct a gene co-expression network and a hypothesized sex differentiation pathway. Conclusions: The current study focused on screening genes of sex differentiation in Yesso scallop, highlighting the potential regulatory mechanisms of gonadal development in P. yessoensis. Our data suggested that WCGNA can facilitate identification of key genes for sex differentiation and determination. Using this method, a hypothesized P. yessoensis sex determination and differentiation pathway was constructed. In this pathway, Pydmrt1 may have a leading function.

scholarly journals Transcriptomics analysis revealing candidate genes and networks for sex differentiation of Yesso scallop(Patinopecten yessoensis)

2019 ◽  
Author(s):  
Liqing Zhou ◽  
Zhihong Liu ◽  
Yinghui Dong ◽  
Xiujun Sun ◽  
Biao Wu ◽  
...  
Keyword(s):  
Sex Determination ◽  
Candidate Genes ◽  
Developmental Stages ◽  
Sex Differentiation ◽  
Northeast Asia ◽  
Gonadal Development ◽  
Patinopecten Yessoensis ◽  
Mizuhopecten Yessoensis ◽  
Kegg Pathways ◽  
Yesso Scallop

Abstract Background:The Yesso scallop, Patinopecten (Mizuhopecten) yessoensis, is a commercially important bivalve in the coastal countries of Northeast Asia. It has complex modes of sex differentiation, but knowledge of the mechanisms underlying this sex determination and differentiation is limited. Results:In this study, the gonad tissues from females and males at three developmental stages were used to investigate candidate genes and networks for sex differentiation via RNA-Req. A total of 901,980,606 high quality clean reads were obtained from 18 libraries, of which 417 expressed male-specific genes and 754 expressed female-specific genes. Totally, 10,074 genes differentially expressed in females and males were identified. Weighted gene co-expression network analysis (WGCNA) revealed that turquoise and green gene modules were significantly positively correlated with male gonads, while coral1 and black modules were significantly associated with female gonads. The most important gene for sex determination and differentiation was Pydmrt1, which was the only gene discovered that determined the male sex phenotype during early gonadal differentiation. Enrichment analyses of GO terms and KEGG pathways revealed that genes involved in metabolism, genetic and environmental information processes or pathways are sex-biased. Forty-nine genes in the five modules involved in sex differentiation or determination were identified and selected to construct a gene co-expression network and a hypothesized sex differentiation pathway. Conclusions: The current study focused on screening genes of sex differentiation in Yesso scallop, highlighting the potential regulatory mechanisms of gonadal development in P. yessoensis. Our data suggested that WCGNA can facilitate identification of key genes for sex differentiation and determination. Using this method, a hypothesized P. yessoensis sex determination and differentiation pathway was constructed. In this pathway, Pydmrt1 may have a leading function.

scholarly journals Transcriptomics analysis revealing candidate genes and networks for sex differentiation of Yesso scallop(Patinopecten yessoensis)

2019 ◽  
Author(s):  
Liqing Zhou ◽  
Zhihong Liu ◽  
Yinghui Dong ◽  
Xiujun Sun ◽  
Biao Wu ◽  
...  
Keyword(s):  
Sex Determination ◽  
Candidate Genes ◽  
Developmental Stages ◽  
Sex Differentiation ◽  
Northeast Asia ◽  
Gonadal Development ◽  
Patinopecten Yessoensis ◽  
Mizuhopecten Yessoensis ◽  
Kegg Pathways ◽  
Yesso Scallop

Abstract Background:The Yesso scallop, Patinopecten (Mizuhopecten) yessoensis, is a commercially important bivalve in the coastal countries of Northeast Asia. It has complex modes of sex differentiation, but knowledge of the mechanisms underlying this sex determination and differentiation is limited. Results:In this study, the gonad tissues from females and males at three developmental stages were used to investigate candidate genes and networks for sex differentiation via RNA-Req. A total of 901,980,606 high quality clean reads were obtained from 18 libraries, of which 417 expressed male-specific genes and 754 expressed female-specific genes. Totally, 10,074 genes differentially expressed in females and males were identified. Weighted gene co-expression network analysis (WGCNA) revealed that turquoise and green gene modules were significantly positively correlated with male gonads, while coral1 and black modules were significantly associated with female gonads. The most important gene for sex determination and differentiation was Pydmrt1, which was the only gene discovered that determined the male sex phenotype during early gonadal differentiation. Enrichment analyses of GO terms and KEGG pathways revealed that genes involved in metabolism, genetic and environmental information processes or pathways are sex-biased. Forty-nine genes in the five modules involved in sex differentiation or determination were identified and selected to construct a gene co-expression network and a hypothesized sex differentiation pathway. Conclusions: The current study focused on screening genes of sex differentiation in Yesso scallop, highlighting the potential regulatory mechanisms of gonadal development in P. yessoensis. Our data suggested that WCGNA can facilitate identification of key genes for sex differentiation and determination. Using this method, a hypothesized P. yessoensis sex determination and differentiation pathway was constructed. In this pathway, Pydmrt1 may have a leading function.

scholarly journals Transcriptomics analysis revealing candidate genes and networks for sex differentiation of yesso scallop (Patinopecten yessoensis)

BMC Genomics ◽  
2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Liqing Zhou ◽  
Zhihong Liu ◽  
Yinghui Dong ◽  
Xiujun Sun ◽  
Biao Wu ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Sex Differentiation ◽  
Patinopecten Yessoensis ◽  
Yesso Scallop

scholarly journals A First Insight into the Gonad Transcriptome of Hong Kong Catfish (Clarias fuscus)

Animals ◽  
2021 ◽  
Vol 11 (4) ◽  
pp. 1131
Author(s):  
Xinghua Lin ◽  
Dayan Zhou ◽  
Xiaomin Zhang ◽  
Guangli Li ◽  
Yulei Zhang ◽  
...  
Keyword(s):  
Hong Kong ◽  
Sex Determination ◽  
Molecular Mechanisms ◽  
De Novo ◽  
Sex Differentiation ◽  
Gonadal Development ◽  
Sequencing Analysis ◽  
Kegg Pathways ◽  
Clarias Fuscus ◽  
Go Terms

Hong Kong catfish (Clarias fuscus) exhibit sexual dimorphism, particularly in body size. Due to the fast growth rate of males, the sexual size dimorphism of Hong Kong catfish has become an economically important trait. However, limited knowledge is known about the molecular mechanisms of sex determination and sex differentiation in this species. In this study, a first de novo transcriptome sequencing analysis of testes and ovaries was performed to identify sex-biased genes in Hong Kong catfish. The results showed that a total of 290,291 circular consensus sequences (CCSs) were obtained, from which 248,408 full-length non-chimeric (FLNC) reads were generated. After non-redundant analysis, a total of 37,305 unigenes were predicted, in which 34,342 unigenes were annotated with multiple public databases. Comparative transcriptomic analysis identified 5750 testis-biased differentially expressed genes (DEGs) and 6991 ovary-biased DEGs. The enrichment analysis showed that DEGs were classified into 783 Gene Ontology (GO) terms and 16 Kyoto Encyclopedia of Gene and Genome (KEGG) pathways. Many DEGs were involved with sex-related GO terms and KEGG pathways, such as oocyte maturation, androgen secretion, gonadal development and steroid biosynthesis pathways. In addition, the expression levels of 23 unigenes were confirmed to validate the transcriptomic data by quantitative real-time polymerase chain reaction (qRT-PCR). This is the first investigation into the transcriptome of Hong Kong catfish testes and ovaries. This study provides an important molecular basis for the sex determination and sex control breeding of Hong Kong catfish.

scholarly journals Sex Determination and Sex Differentiation

2021 ◽  
pp. 72-78
Author(s):  
G. B. Protyusha ◽  
Sivapathasundharam B.
Keyword(s):  
Sex Determination ◽  
Molecular Mechanisms ◽  
Morphological Changes ◽  
Human Life ◽  
Sex Differentiation ◽  
Genetic Regulation ◽  
Gonadal Development ◽  
Gonadal Hormones ◽  
Defining Moment ◽  
Sexual Determination

Sex determination is arguably the most defining moment of our lives, the point where we inherit X or Y chromosome from our father. This initiates a cascade of events that sets in a train of morphological changes, genetic regulations and molecular mechanisms. Following this, our fate is further sealed during sex differentiation and gonadal development owing to the action of sex-specific gonadal hormones. Therefore, the profoundly divergent journeys of male and female lives are decided just by the toss of a genetic coin. The existence of a third gender is also an undeniable aspect of our society. The understanding of the functioning and genetic regulation of the complex process of sexual determination and differentiation is pivotal in comprehension of the basis of human life. Any deviation from the usual mechanisms in the critical stages of development leads to disorders of sexual differentiation leading to sexual ambiguity among individuals. This review discusses the mechanisms that contribute to female and male sex determination and gonadal development, in an attempt to understand the basics of human sex.

Dimorphic Expression of Selected Genes in Lepidocephalus thermalis using Cross-Specific Primers

2020 ◽  
Author(s):  
M. Balaganesan ◽  
K. Karalmarx ◽  
R. Jeya Shakila
Keyword(s):  
Gene Expression ◽  
Transcription Factors ◽  
Developmental Stages ◽  
Sex Differentiation ◽  
Expression Patterns ◽  
Gonadal Development ◽  
Expression Study ◽  
Specific Primers ◽  
Qrt Pcr ◽  
Dimorphic Expression

Background: The existence of two distinct forms within a species that differ in one or more characteristics is known as dimorphism. The gonads are the primary organs in teleost to show sexual dimorphism. Lepidocephalus thermalis belongs to the Cobitidae family. No expression study on the developmental stages was done on this species. Since there is no specific primers reported for L. thermalis, the study has been carried out with the help of the specific primers of catfish. Methods: qRT- PCR is an acknowledged method for gene expression analysis due to its precision and reproducibility. In the current study, the expression of 14 different transcription factors involved in sex differentiation of Indian spiny loach during different developmental stages was analyzed using qRT- PCR and has been compared among the different stages of gonadal development for that transcription factor. Results: Gene expression patterns have been obtained from the total RNA isolated from MSG (Meso nephric gonadal complex), medium stage ovary, medium stage testis, large stage ovary and large stage testis. From the study, it has been analyzed that only sf1 has higher expression in testis and all the other transcription factors has shown higher expression in ovary.

scholarly journals Phenotypic Stability of Sex and Expression of Sex Identification Markers in the Adult Yesso Scallop Mizuhopecten yessoensis throughout the Reproductive Cycle

Animals ◽  
2019 ◽  
Vol 9 (5) ◽  
pp. 277 ◽  
Author(s):  
Kazue Nagasawa ◽  
Tongchai Thitiphuree ◽  
Makoto Osada
Keyword(s):  
Molecular Markers ◽  
Sex Differentiation ◽  
Gonad Development ◽  
Reproductive Period ◽  
Sex Identification ◽  
Bivalve Species ◽  
Phenotypic Stability ◽  
Mizuhopecten Yessoensis ◽  
Molecular Analyses ◽  
Yesso Scallop

The objective of the present study was to analyze the phenotypic stability of sex after sex differentiation in the Yesso scallop, which is a gonochoristic species that has been described as protandrous. So far, no study has investigated in detail the sexual fate of the scallop after completion of sex differentiation, although bivalve species often show annual sex change. In the present study, we performed a tracking experiment to analyze the phenotypic stability of sex in scallops between one and two years of age. We also conducted molecular marker analyses to describe sex differentiation and gonad development. The results of the tracking experiment revealed that all scallops maintained their initial sex phenotype, as identified in the last reproductive period. Using molecular analyses, we characterized my-dmrt2 and my-foxl2 as sex identification markers for the testis and ovary, respectively. We conclude by proposing that the Yesso scallop is a sex-stable bivalve after its initial sex differentiation and that it maintains a sex-stable maturation system throughout its life. The sex-specific molecular markers identified in this study are useful tools to assess the reproductive status of the Yesso scallop.

Chromosomes and sex differentiation in eutherians

Development ◽  
1984 ◽  
Vol 83 (Supplement) ◽  
pp. 41-49
Author(s):  
Ulrich Müller
Keyword(s):  
Developmental Stages ◽  
Sex Chromosome ◽  
Sex Differentiation ◽  
Gonadal Development ◽  
Relative Molecular Mass ◽  
Two Dimensional ◽  
Protein Patterns ◽  
Two Dimensional Gel Electrophoresis ◽  
Cell Clones ◽  
Specific Proteins

In order to learn more about the role of sex chromosome-dependent gene products in gonadogenesis, changes in protein patterns were studied during gonadal development. Two-dimensional gel electrophoresis analysis revealed specific proteins in both sexes at all developmental stages. Evidently the gonads are not indifferent by biochemical criteria at any developmental stage and express several specific genes from the onset of differentiation. To correlate these polypeptides with the sex chromosomes, proteins were investigated in human–rodent somatic cell hybrids and in genetically identical cell clones differing in one sex chromosome only. On two-dimensional gels one Y-dependent polypeptide was found with similar characteristics (relative molecular mass and isoelectric point) as an early testicular polypeptide. Its identity, however, remains to be proven.

scholarly journals Regulation of the gonadal transcriptome during sex determination and testis morphogenesis: comparative candidate genes

Reproduction ◽  
2007 ◽  
Vol 134 (3) ◽  
pp. 455-472 ◽  
Author(s):  
Tracy M Clement ◽  
Matthew D Anway ◽  
Mehmet Uzumcu ◽  
Michael K Skinner
Keyword(s):  
Gene Expression ◽  
Sex Determination ◽  
Candidate Genes ◽  
Expression Profiles ◽  
Gonadal Development ◽  
Developmental Period ◽  
Fold Change ◽  
Ovary Development ◽  
Testis Development

Gene expression profiles during sex determination and gonadal differentiation were investigated to identify new potential regulatory factors. Embryonic day 13 (E13), E14, and E16 rat testes and ovaries were used for microarray analysis, as well as E13 testis organ cultures that undergo testis morphogenesis and develop seminiferous cordsin vitro. A list of 109 genes resulted from a selective analysis for genes present in male gonadal development and with a 1.5-fold change in expression between E13 and E16. Characterization of these 109 genes potentially important for testis development revealed that cytoskeletal-associated proteins, extracellular matrix factors, and signaling factors were highly represented. Throughout the developmental period (E13–E16), sex-enriched transcripts were more prevalent in the male with 34 of the 109 genes having testis-enriched expression during sex determination. In ovaries, the total number of transcripts with a 1.5-fold change in expression between E13 and E16 was similar to the testis, but none of those genes were both ovary enriched and regulated during the developmental period. Genes conserved in sex determination were identified by comparing changing transcripts in the rat analysis herein, to transcripts altered in previously published mouse studies of gonadal sex determination. A comparison of changing mouse and rat transcripts identified 43 genes with species conservation in sex determination and testis development. Profiles of gene expression during E13–E16 rat testis and ovary development are presented and candidate genes for involvement in sex determination and testis differentiation are identified. Analysis of cellular pathways did not reveal any specific pathways involving multiple candidate genes. However, the genes and gene network identified influence numerous cellular processes with cellular differentiation, proliferation, focal contact, RNA localization, and development being predominant.

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