MicroRNAome of Porcine Pre- and Postnatal Development

Li, Mingzhou; Xia, Youlin; Gu, Yiren; Zhang, Kai; Lang, Qiulei; Chen, Lei; Guan, Jiuqiang; Luo, Zonggang; Chen, Haosi; Li, Yang; Li, Qinghai; Li, Xiang; Jiang, An An; Shuai, Surong; Wang, Jinyong; Zhu, Qianqian; Zhou, Xiaochuan; Gao, Xiaolian; Li, Xuewei

doi:10.1371/journal.pone.0011541

Cited by 124 publications

(141 citation statements)

References 50 publications

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“…Using various experimental methods, certain miRNAs were continuously reported in recent studies in the field of animal embryogenesis [26,27,28,29,30]. During the implantation period, potential regulators of endometrial receptivity include miRNAs [31].…”

Section: Discussionmentioning

confidence: 99%

Expression and Potential Role of microRNA-29b in Mouse Early Embryo Development

Zhang

Wang²,

Liu³

et al. 2015

Cell Physiol Biochem

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Background/Aims: MicroRNA-29b (miR29b) has been previously identified in early mouse embryos through miRNA microarray analysis. Recent research has indicated that miR29b participates in DNA methylation by regulating DNA methyltransferase 3a/3b (Dnmt3a/3b) expression. However, the expression pattern and biological function of miR29b in mouse preimplantation embryonic development remain unknown. Methods: In this study, we examined the expression patterns of miR29b and Dnmt3a/3b in mouse early embryos at different developmental stages. Subsequently, expression and localization of DNMT3A/3B protein was analyzed in mouse early embryos by immunofluorescence staining. The biological function of miR29b in mouse early embryos was analyzed by microinjection of commercially available miRNA-specific inhibitors and mimics. Results: Our data showed that Dnmt3a/3b mRNA expression is negatively regulated by miR29b in mouse early embryos. Immunofluorescence analysis revealed that DNMT3A/3B protein expression is predominantly localized within the nucleoplasm of embryos. Alterations to the activity of miR29b could change the DNA methylation levels in mouse preimplantation embryos and lead to a developmental blockade, from the morula to the blastocyst stage. Conclusion: These results indicated a role for the miR29b-Dnmt3a/3b-DNA methylation axis in mouse early embryonic development, and we provide evidence that miR29b is indispensable for mouse early embryonic development. This study contributes to a preliminary understanding of the role of miR29b during mouse embryonic development.

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Section: Discussionmentioning

confidence: 99%

Expression and Potential Role of microRNA-29b in Mouse Early Embryo Development

Zhang

Wang²,

Liu³

et al. 2015

Cell Physiol Biochem

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“…However, such approaches were limited in their ability to detect rare miRNAs, or tissue-specific miRNAs from tissues that are difficult to obtain. In mammals, temporal and spatial changes in miRNA expression have been well characterized to delineate the miRNA transcription of different tissues at different developmental stages (Li et al 2010) or in different species (Li et al 2012). At the same time, one study clearly demonstrated that levels of miRNAs in serum are stable, reproducible, and consistent among individuals of the same animal species .…”

Section: Introductionmentioning

confidence: 99%

Identification and bioinformatics analysis of microRNAs associated with stress and immune response in serum of heat-stressed and normal Holstein cows

Zheng

Chen

Zheng

et al. 2014

Cell Stress and Chaperones

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MicroRNAs (miRNAs) are small single-stranded non-coding RNAs that have an important regulatory function in animal growth and developmental processes. However, the differential expression of miRNA and the role of these miRNAs in heat-stressed Holstein cows are still unknown. In this study, the profile of differentially expressed miRNAs and the target genes analysis in the serum of heat-stressed and normal Holstein cows were investigated by a Solexa deepsequencing approach and bioinformatics. The data identified 52 differentially expressed miRNAs in 486 known miRNAs which were changed significantly between heat-stressed and normal Holstein cows (fold change >2, P<0.001). Target genes analysis showed that at least 7 miRNAs (miR-19a, miR-19b, miR-146a, miR-30a-5p, miR-345-3p, miR-199a-3p, and miR-1246) were involved in the response to stress, oxidative stress, development of the immune system, and immune response among the identified 52 differentially expressed miRNAs. Five miRNAs (miR-27b, miR-181a, miR-181b, miR-26a, and miR-146b) were involved in stress and immune responses and the expression of five miRNAs was striking (P<0.001). In addition, RT-qPCR and deepsequencing methods showed that 8 miRNAs among the 12 selected miRNAs (miR-19a, miR-19b, miR-27b, miR-30a-5p, miR-181a, miR-181b, miR-345-3p, and miR-1246) were highly expressed in the serum of heat-stressed Holstein cows. GO and KEGG pathway analysis showed that these differentially expressed miRNAs were involved in a pathway that may differentially regulate the expression of stress response and immune response genes. Our study provides an overview of miRNAs expression profile and the interaction between miRNAs and their target genes, which will lead to further understanding of the important roles of miRNAs in heat-stressed Holstein cows.

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“…After filtering out low quality data which did not meet the criteria previously developed [25,26], we obtained 5.03, 9.83, 7.26 M clean data from each library, which are refered to as "mappable reads". As in other tissues, various kinds of small non-coding RNAs as well as miRNAs may also contribute to the gene regulation during the spermatogenesis process.…”

Section: Summary Of the Sequencing Results In Three Librariesmentioning

confidence: 99%

“…As described in Liu's previous study of miRNA profiling using deep sequencing [25,26], the bioinformatics pipeline was carried out with the newest version with certain improvements. All the raw reads were modified by the combination of Illumina's Genome Analyzer Pipeline software along with self-developed ACGT-102 miR program (LC Sciences).…”

Section: Sample Collectionmentioning

confidence: 99%

microRNA profiling in three main stages during porcine spermatogenesis

Luo

Liu

Chen

et al. 2015

J Assist Reprod Genet

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Background Spermatogenesis is an intricate biological event wherein an undifferentiated spermatogonium develops into mature sperms. MicroRNAs are a type of single strand small non-coding RNA molecule and are implicated in the regulation of many crucial pathways during cell proliferation, apoptosis, and differentiation.Method Here, we present a comprehensive comparison of miRNA expression profiling in three main stages during porcine spermatogenesis using high-throughput sequencing. Results We built three small RNA libraries for the testis, the epididymis and the ejaculated sperm from a Landrace boar, and in total obtained 3821 precursor hairpins encoding for 4761 mature miRNAs, of which 23 are miRNA*. Notably, Zonggang Luo and Yingkai Liu contributed equally to this work.Capsule ZGL carried out the molecular genetic studies, participated in the sequence alignment, and revised themanuscript. YKL participated in the study design and drafted the manuscript. LC carried out the RT-PCR and data analysis. ME participated in the experiment. Assist Reprod Genet (2015) 32:451-460 DOI 10.1007 940 precursor miRNAs produced both the 5'-and 3'-strands as sister pairs, indicating the distinctive expression patterns of germ cell miRNAs. Additionally, 418 out of 710 co-expressed miRNAs were identified as being differentially expressed between libraries (P<0.001). Apart from the sexual specific X chromosome, many miRNAs were found to be located on chromosome 12, which may play potential roles in spermatogenesis according to the result of synteny analysis with human and mouse. The Gene Ontology and KEGG pathway analysis revealed that the target genes of co-expressed miRNAs were highly involved in the cell cycle process, metal ion binding, modification of plasma membrane, and the p53 signal pathway.

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MicroRNAome of Porcine Pre- and Postnatal Development

Cited by 124 publications

References 50 publications

Expression and Potential Role of microRNA-29b in Mouse Early Embryo Development

Expression and Potential Role of microRNA-29b in Mouse Early Embryo Development

Identification and bioinformatics analysis of microRNAs associated with stress and immune response in serum of heat-stressed and normal Holstein cows

microRNA profiling in three main stages during porcine spermatogenesis

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