An integrated analysis of testis miRNA and mRNA transcriptome reveals important functional miRNA-targets in reproduction traits of roosters

Xing, Kai; Gao, Mengjin; Xue, Li; Feng, Yuhang; Ge, Yu; Qi, Xiaolong; Wang, Xiangguo; Ni, Hemin; Guo, Yong; Sheng, Xihui

doi:10.1016/j.repbio.2020.03.003

Cited by 8 publications

(3 citation statements)

References 64 publications

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“…This was similar to that of other studies on chicken transcriptome, such as 73.1% ( Liu et al, 2018 ) and 80.2% ( Xing et al, 2020 ) in testis, 82% in sperm storage tubules ( Yang et al, 2020 ), and 75.73% in intraepithelial lymphocyte natural killer cells ( Boo et al, 2020 ). In our previous studies, screening candidate genes associated with sperm motility in testis of chickens with divergent sperm motility by RNA-seq was performed ( Xing et al, 2020 ), and 3 DEGs ([matrix metalloproteinase-9] MMP9 , [AHNAK nucleoprotein 2] AHNAK2 , and [sarcolipin] SLN ) were identified. In the present study, the expression of these 3 genes differed more than 4-fold in the epididymis of chickens with different sperm motility .…”

Section: Disscussionsupporting

confidence: 91%

Epididymal mRNA and miRNA transcriptome analyses reveal important genes and miRNAs related to sperm motility in roosters

et al. 2022

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Sperm motility is a crucial trait in chicken production, and the epididymis is an essential organ in the reproductive system. Currently, the molecular mechanisms underlying sperm motility in the epididymis are unclear. In this study, 8 cDNA libraries and eight miRNA libraries were constructed from roosters (4 chickens per group) with diverse sperm motility. After a comparative analysis of epididymal transcriptomes, we detected 84 differentially expressed genes ( DEG s) using the edgeR package. Integrated interpretation of DEGs indicated that MMP9, SLN, WT1, PLIN1 , and LRRIQ1 are the most promising candidate genes affecting sperm motility in the epididymis of roosters. MiR-146a, mir-135b, and mir-205 could play important regulatory roles in sperm maturation, capacitation, and motility. Additionally, a comprehensive analysis of the mRNA and miRNAs transcriptomes in silico identified a promising gene-miRNA pair miR-135b-HPS5, which may be a vital regulator of sperm motility in the epididymis. Our findings provide novel integrated information of miRNAs and genes that shed light on the regulatory mechanisms of fertility in roosters.

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Section: Disscussionsupporting

confidence: 91%

Epididymal mRNA and miRNA transcriptome analyses reveal important genes and miRNAs related to sperm motility in roosters

et al. 2022

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“…In many tissues of different animals, miRNAs have an impact on the regulation of the reproductive process. In studies of donkeys, roosters, and Chinese concave-eared torrent frogs, miRNAs were found to regulate germ cells at the posttranscriptional level [26][27][28]. Mammal reproduction is regulated by complex hormonal and molecular networks, among which the HPA axis plays a critical role in regulating reproductive function [29].…”

Section: Discussionmentioning

confidence: 99%

miRNA-mRNA analysis of sheep adrenal glands reveals the network regulating reproduction

2022

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Background The adrenal gland participates in the process of sheep reproduction. MicroRNAs (miRNAs), endogenous small noncoding RNAs, regulate gene expression at the posttranscriptional level. However, the miRNA-mRNA network profile of adrenal glands relating to reproduction in sheep is still not well-studied. As sheep with FecBBB genotype show higher lambing number compare with the sheep with FecB++ genotype. This research aims to compare gene expression by small RNA-seq in adrenal tissues at follicular (F) and luteal (L) phases in FecBBB (MM) and FecB++ (ww) sheep. After analysis of gene expression, significant differentially expressed microRNAs (DEMs) and corresponding target genes were identified. Results A total of 180 miRNAs were found in this study, of which 19 DEMs were expressed in the four comparison groups (MM_F_A vs. MM_L_A, MM_F_A vs. ww_F_A, MM_L_A vs. ww_L_A, ww_F_A vs. ww_L_A). Subsequently, 354 target genes of 19 DEMs were predicted by integrated analysis. Cluster analysis was performed by K_means_cluster, and the expression patterns of these DEMs were separated into four subclusters. Functional analysis of target genes was performed by Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG). The results indicated that the target genes were involved mainly in the Notch signaling pathway, signal transduction, cell communication, innate immune response and amino acid metabolism. Specifically, the Notch signaling pathway, biosynthetic process and metabolic process of pyrimidine nucleotide and amino acid metabolism appear to play key regulatory roles in the sheep fertility trait. Furthermore, miRNA-mRNA interaction networks were constructed by differentially expressed genes combined with our previous study of transcriptome data. The results showed that several key genes, including TDRD3, ANAPC7, CCNL2, BRD2 and MUT, were related to the transformation from the follicular phase to the luteal phase. PLAC8L1, NFAT5, DDX24 and MBD1 were related to the high fecundity of small tail Han sheep. Conclusions In this study, the miRNA transcriptome profile was identified, and miRNA-mRNA interaction networks were constructed in adrenal gland tissue of small tail Han sheep, the interaction between miR-370-3p and its targets were considered to play a major role in the reproduction regulation process. The results enriched the number of known miRNAs in adrenal glands and provided novel ideas and further information to demonstrate posttranscriptional regulation mechanisms at follicular and luteal phases in different genotypes of small tail Han sheep.

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“…With the development and application of whole transcriptomics sequencing technology, many miRNAs have been identified in various tissues and organs of sheep. In recent years, a large number of miRNAs are involved in reproduction in both sheep [ 22 , 23 ] and other species [ 24 , 25 , 26 ]. The lncRNA of different light-induced reproduction in sheep have been mined in our laboratory in the previous stage using the classical model of the OVX + E 2 model [ 27 , 28 ].…”

Section: Introductionmentioning

confidence: 99%

Screening of Differentially Expressed Genes and miRNAs in Hypothalamus and Pituitary Gland of Sheep under Different Photoperiods

Liu

Ren

et al. 2022

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The reproduction of sheep is affected by many factors such as light, nutrition and genetics. The Hypothalamic-pituitary-gonadal (HPG) axis is an important pathway for sheep reproduction, and changes in HPG axis-related gene expression can affect sheep reproduction. In this study, a model of bilateral ovarian removal and estrogen supplementation (OVX + E2) was applied to screen differentially expressed genes and miRNAs under different photoperiods using whole transcriptome sequencing and reveal the regulatory effects of the photoperiod on the upstream tissues of the HPG axis in sheep. Whole transcriptome sequencing was performed in ewe hypothalamus (HYP) and distal pituitary (PD) tissues under short photoperiod 21st day (SP21) and long photoperiod 21st day (LP21). Compared to the short photoperiod, a total of 1813 differential genes (up-regulation 966 and down-regulation 847) and 145 differential miRNAs (up-regulation 73 and down-regulation 72) were identified in the hypothalamus of long photoperiod group. Similarly, 2492 differential genes (up-regulation 1829 and down-regulation 663) and 59 differential miRNAs (up-regulation 49 and down-regulation 10) were identified in the pituitary of long photoperiod group. Subsequently, GO and KEGG enrichment analysis revealed that the differential genes and target genes of differential miRNA were enriched in GnRH, Wnt, ErbB and circadian rhythm pathways associated with reproduction. Combined with sequence complementation and gene expression correlation analysis, several miRNA-mRNA target combinations (e.g., LHB regulated by novel-414) were obtained. Taken together, these results will help to understand the regulatory effect of the photoperiod on the upstream tissues of HPG in sheep.

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An integrated analysis of testis miRNA and mRNA transcriptome reveals important functional miRNA-targets in reproduction traits of roosters

Cited by 8 publications

References 64 publications

Epididymal mRNA and miRNA transcriptome analyses reveal important genes and miRNAs related to sperm motility in roosters

Epididymal mRNA and miRNA transcriptome analyses reveal important genes and miRNAs related to sperm motility in roosters

miRNA-mRNA analysis of sheep adrenal glands reveals the network regulating reproduction

Screening of Differentially Expressed Genes and miRNAs in Hypothalamus and Pituitary Gland of Sheep under Different Photoperiods

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