Exploiting RNA-sequencing data from the porcine testes to identify the key genes involved in spermatogenesis in Large White pigs

Song, Huibin; Zhu, Lihua Julie; Li, Yan; Ma, Changping; Guan, Kaifeng; Xia, Xuanyan; Li, Fenge

doi:10.1016/j.gene.2015.07.057

Cited by 19 publications

(23 citation statements)

References 47 publications

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“…BCL6 may play roles in protecting spermatocytes from apoptosis and further influencing the spermatogenesis (Kojima et al, 2001). Similar with these two target genes, other target genes shown in Figure 4 also could play a vital role in spermatogenesis (Song et al, 2015;Tüttelmann, Rajpert-De Meyts, Nieschlag, & Simoni, 2007), and the prediction of interaction between miRNAs and their target genes could provide several choices to regulate the spermatogenesis by regulating these miRNAs' expression in breeder cocks.…”

Section: Discussionmentioning

confidence: 95%

miRNA and piRNA expression profiles of breeder cock testes detected by next‐generation sequencing

Guo

et al. 2016

Reprod Domestic Animals

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miRNAs are small non-coding regulatory RNAs that play key roles in diverse biological processes. In this study, we used the Solexa sequencing technique to profile miRNAs in breeder cock testes to illustrate their functions. A total of 663 co-expressed miRNAs and 3,180 co-expressed piRNAs were detected in three libraries. Based on Mir-X miRNA qRT-PCR, three miRNAs representing low, medium and high expression levels according to the sequencing results were selected randomly to validate the miRNAs' expression profiles. Results suggested that the miRNA expression profiles data could represent actual miRNA expression levels. Moreover, target genes prediction of the co-expressed miRNAs and further Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses were performed, which revealed that some candidate miRNAs were involved in the regulation of the spermatogenesis process, spermatozoa function and testicular metabolism. In conclusion, we provided a useful resource for further elucidation of the miRNAs' regulatory role in spermatogenesis, contributing to a preliminary database for functional and molecular mechanistic studies in testicular metabolism, spermatogenesis and other testes functions.

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Section: Discussionmentioning

confidence: 95%

miRNA and piRNA expression profiles of breeder cock testes detected by next‐generation sequencing

Guo

et al. 2016

Reprod Domestic Animals

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“…Sycp3 and Dmc1 are the markers of spermatocytes. The A3SS transcript and retained intron transcript of Sycp3 were identified in the testes from 60-d and 180-d Large White pigs [5]. The exon skipped Dmc1-d transcript was expressed in both male and female germ cells [31].…”

Section: Alternative Splicing Of Key Genes Involved In Spermatogenesismentioning

confidence: 98%

“…The complicated physiological process requires specific genes to perform certain regulatory functions. Recently, high-throughput sequencing has revealed the importance of alternative splicing in the testis proteome diversification and spermatogenesis [5,[12][13][14][15]. In this review, we will provide the functions of alternative splicing in spermatogenesis, clarify the mechanisms of alternative splicing in spermatogenesis, and explain the potential correlations between alternative splicing and male infertility.…”

Section: Ivyspring International Publishermentioning

confidence: 99%

“…GO analysis had identified 242 differently expressed genes enriched in spermatogenesis (GO: 0007283) in the testes from Large White pig at the age of 60 days (60-d) and 180 days (180-d) by RNA-seq [5]. Several genes was identified with alternative splicing to generate different transcripts encoding numerous protein isoforms, such as Spata3 [17], Spata19 [18], Crem [19,20], Dazl [21], Hsf1 [22], Acrbp [23], Ybx3 [24].…”

Section: Alternative Splicing Of Key Genes Involved In Spermatogenesismentioning

confidence: 99%

“…Alternative splicing is one of the most popular co-transcriptional and post-transcriptional regulatory mechanisms that result in a large number of mRNA and protein isoforms from a single gene, and the protein isoforms always show different or mutually antagonistic functional and structural characteristics [1,2]. Recent high-throughput analyses have shown the abundance of alternative splicing events reaching > 95-100% in human genes and 63% in mouse genes [3,4], and identified several modes of alternative transcript events, including exon-skipping (ES), intron-retention (IR), alternative 5' splice site (A5SS), alternative 3' splice site (A3SS), alternative first exon (AFE), alternative last exon (ALE) and mutually exclusive exon (MXE) [5]. The exon skipping events are accumulated in the brain and testis, suggesting a tissue-specific nature of alternative splicing [6,7].…”

Section: Introductionmentioning

confidence: 99%

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The Function of Pre-mRNA Alternative Splicing in Mammal Spermatogenesis

Song¹,

Wang²,

Chen³

et al. 2020

Int. J. Biol. Sci.

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Alternative pre-mRNA splicing plays important roles in co-transcriptional and post-transcriptional regulation of gene expression functioned during many developmental processes, such as spermatogenesis. The studies focusing on alternative splicing on spermatogenesis supported the notion that the development of testis is regulated by a higher level of alternative splicing than other tissues. Here, we aim to review the mechanisms underlying alternative splicing, particularly the splicing variants functioned in the process of spermatogenesis and the male infertility. There are five points regarding the alternative splicing including ⅰ) a brief introduction of alternative pre-mRNA splicing; ⅱ) the alternative splicing events in spermatogenesis-associated genes enriched in different stages of spermatogenesis; ⅲ) the mechanisms of alternative splicing regulation, such as splicing factors and m 6 A demethylation; ⅳ) the splice site recognition and alternative splicing, including the production and degradation of abnormal transcripts caused by gene variations and nonsense-mediated mRNA decay, respectively; ⅴ) abnormal alternative splicing correlated with male infertility. Taking together, this review highlights the impacts of alternative splicing and splicing variants in mammal spermatogenesis and provides new insights of the potential application of the alternative splicing into the therapy of male infertility.

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Importance and variability of the paternal component in sow reproductive traits

Cieleń,

Sell-Kubiak

2024

J Appl Genetics

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Reproductive traits are an integral part of the goals of the breeding programs that contribute to the economic success of production. Reproductive phenotypes such as litter size, number of piglets born alive, or litter weight at birth are mainly attributed to females. Thus, the maternal components can be found by default in quantitative genetics’ animal models. Still, paternal contribution to variance components should not be discarded. In this review, we indicate the importance of paternal effects in pig breeding by describing both the biology and genetics of boars’ traits, the use of (non-)genetic service sire effects in quantitative genetic models for traits measured on females, and genes involved in male reproduction. We start by describing the important biological traits of boars that have the most important effect on their reproductive abilities, i.e., sexual maturity, sperm quality, and testes parameters. Then we move to the possible environmental effects that could affect those traits of boars (e.g., feed, temperature). The main part of the review in detail describes the genetics of boars’ reproductive traits (i.e., heritability) and their direct effect on reproductive traits of females (i.e., genetic correlations). We then move to the use of both genetic and non-genetic service sire effects in quantitative models estimated as their percentage in the total variance of traits, which vary depending on the breed from 1 to 4.5% or from 1 to 2%, respectively. Finally, we focus on the description of candidate genes and confirmed mutations affecting male reproduction success: IGF2, Tgm8, ESR1, ZSWIM7, and ELMO1. In conclusion, the observed variance of paternal effects in female reproduction traits might come from various attributes of boars including biological and genetic aspects. Those attributes of boars should not be neglected as they contribute to the success of female reproductive traits.

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Exploiting RNA-sequencing data from the porcine testes to identify the key genes involved in spermatogenesis in Large White pigs

Cited by 19 publications

References 47 publications

miRNA and piRNA expression profiles of breeder cock testes detected by next‐generation sequencing

miRNA and piRNA expression profiles of breeder cock testes detected by next‐generation sequencing

The Function of Pre-mRNA Alternative Splicing in Mammal Spermatogenesis

Importance and variability of the paternal component in sow reproductive traits

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