Long noncoding RNAs exchange during zygotic genome activation in goat†

Deng, Mingtian; Liu, Zifei; Ren, Caifang; Zhang, Guomin; Pang, Jing; Wan, Yongjie

doi:10.1093/biolre/ioy118

Cited by 33 publications

(19 citation statements)

References 38 publications

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“…Then, we focused on the expression profile of ERV during the EGA of goat. Previous studies showed that major EGA occurs at the eight-cell stage of goat embryos, and the main feature of EGA genes is that their expression levels are significantly higher than those at other stages (Ferrer et al 1995, Pivko et al 1995, Deng et al 2018. Therefore we performed high-throughput sequencing to establish a goat embryonic transcript library (IVF-2c and IVF-8c) and found numerous transcripts activated in IVF_8c embryos, and this observation was consistent with mammalian EGA (Fig.…”

Section: Discussionsupporting

confidence: 75%

Identification and characterization of ERV transcripts in goat embryos

Deng¹,

Han²,

Zhao³

et al. 2019

Reproduction

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Endogenous retroviruses (ERVs), which are abundant in mammalian genomes, can modulate the expression of nearby genes, and their expression is dynamic and stage-specific during early embryonic development in mice and humans. However, the functions and mechanisms of ERV elements in regulating embryonic development remain unclear. Here, we utilized several methods to determine the contribution of ERVs to the makeup and regulation of transcripts during embryonic genome activation (EGA). We constructed an ERV library and embryo RNA-seq library (IVF_2c and IVF_8c) of goat to serve as our research basis. The GO and KEGG analysis of nearby ERV genes revealed that some ERV elements may be associated with embryonic development. RNA-seq results were consistent with the features of EGA. To obtain the transcripts derived from the ERV sequences, we blasted the ERV sequences with embryonic transcripts and identified three lncRNAs and one mRNA that were highly expressed in IVF-8c rather than in IVF-2c (q-value <0.05). Then, we validated the expression patterns of nine ERV-related transcripts during early developmental stages and knocked down three high-expression transcripts in EGA. The knockdown of lncRNA TCONS_00460156 or mRNA HSD17B11 significantly decreased the developmental rate of IVF embryos. Our findings suggested that some transcripts from ERVs are essential for the early embryonic development of goat, and analyzing the ERV expression profile during goat EGA may help elucidate the molecular mechanisms of ERV in regulating embryonic development.Reproduction (2019) 157 111-122

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Section: Discussionsupporting

confidence: 75%

Identification and characterization of ERV transcripts in goat embryos

Deng¹,

Han²,

Zhao³

et al. 2019

Reproduction

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“…Quantitative PCR (qPCR) was performed on an ABI 7300 Real-Time PCR System. All qPCR reactions were performed in triplicate, as described previously ( Deng et al, 2018 ). Relative mRNA expression was normalized to Gapdh and calculated using the 2 –Δ Δ Ct method.…”

Section: Methodsmentioning

confidence: 99%

“…RNA-seq data of MII oocytes and 4-and 8-cell staged goat embryos were downloaded from our previous studies (Deng et al, 2018;Liu et al, 2020). The generated reads were aligned to goat genome ARS1 using HISAT2 (version 2.1.0) with default parameters.…”

Section: Read Alignment and Differential Expression Analysismentioning

confidence: 99%

“…One of the other processes of MZT is ZGA. It has been well documented that ZGA mainly begins at the 2-cell stage in mice, and at the 4-to 8-cell stage in human, pig, bovine, and goat (Tadros and Lipshitz, 2009;Palfy et al, 2017;Deng et al, 2018). Developmental arrest was often observed during ZGA in embryos cultured in vitro, and increasing studies revealed that block of ZGA causes improper gene expression and embryonic lethality (Lee et al, 2014;Abe et al, 2018), suggesting that the onset of ZGA is pivotal for the early embryo development.…”

Section: Introductionmentioning

confidence: 99%

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YTHDF2 Regulates Maternal Transcriptome Degradation and Embryo Development in Goat

Deng

Chen

Liu

et al. 2020

Front. Cell Dev. Biol.

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Maternal mRNA clearance is critical for the early embryo development, which is under the tight control of RNA N6-methyladenosine (m 6 A). However, little information is known regarding the maternal mRNA clearance and mechanisms behind it in farm animals. In the present study, 3362 differentially expressed genes (DEGs) were found during the maternal-to-zygotic transition (MZT) and determined as maternal mRNAs in goat. Of which, 1961 was decreased at the 4-cell stage embryos, while 1401 was trigged down-regulation at the 8-cell stage embryos, which were termed as maternally encoded mRNA decay genes and zygotic genome activation (ZGA)-dependent maternal mRNAs, respectively. The expression of m 6 A reader YTHDF2 was increased during goat ZGA, and knockdown of YTHDF2 resulted in decreased blastocyst rate. In the 8-cell stage YTHDF2 knockdown embryos, the M-decay and Z-decay maternal mRNA clearance were impaired. Specifically, the expression of deadenylase (CNOT1 and CNOT11) and decapping enzymes (DCP1A and DCP2) was decreased. In conclusion, we ascertained maternal mRNAs and inferred that maternal mRNA clearance is also ZGA-dependent in goat. We reported that YTHDF2 is vital for goat early embryogenesis as it advances maternal mRNA clearance, which might through the recruitment of deadenylases and mRNA decapping enzymes. This work will be of great value for understanding the stochastic reprogramming events during MZT and achieving better development of goat embryos in vitro.

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“…The numbers of blastocysts in each group are 8-10. The sample size selection was based on the previous publications of others (15,30,35) and also the availability of the embryos in our study. These sample sizes are sufficient to obtain the statistical significance by FPKM method we used in the study that is sensitive to measure gene expression.…”

Section: Single-cell Rna-seq and Data Analysismentioning

confidence: 99%

Aanat Knockdown and Melatonin Supplementation in Embryo Development: Involvement of Mitochondrial Function and DNA Methylation

Yang

Tao

et al. 2019

Antioxidants & Redox Signaling

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Aims: In addition to pineal gland, many cells, tissues, and organs also synthesize melatonin (N-acetyl-5methoxytryptamine). Embryos are a group of special cells and whether they can synthesize melatonin is still an open question. However, melatonin application promoted embryo development in many species in in vitro condition. The purpose of this study was to investigate whether embryos can synthesize melatonin; if it is so, what are the impacts of the endogenously produced melatonin on embryo development and the associated molecular mechanisms. These have never been reported previously. Results: Melatonin synthesis was observed at different stages of embryonic development. Aanat (aralkylamine N-acetyltransferase), a rate-limiting enzyme for melatonin production, was found to mostly localize in the mitochondria. Aanat knockdown significantly impeded embryonic development, and melatonin supplementation rescued it. The potential mechanisms might be that melatonin preserved mitochondrial intact and its function, thus providing sufficient adenosine 5¢-triphosphate for the embryo development. In addition, melatonin scavenged intracellular reactive oxygen species (ROS) and reduced the DNA mutation induced by oxidative stress. In the molecular level, Aanat knockdown reduced tet methylcytosine dioxygenase 2 (Tet2) expression and DNA demethylation in blastocyst and melatonin supplementation rescued these processes. Innovation: This is the first report to show that embryos synthesize melatonin, and its synthetic enzyme Aanat was located in the mitochondria of embryos. An effect of melatonin is to maintain Tet2 expression and normal methylation status, and thereby promote embryonic development. Conclusion: Embryos can produce melatonin that reduces ROS production, preserves mitochondrial function, and maintains Tet2 expression and the normal DNA methylation.

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Long noncoding RNAs exchange during zygotic genome activation in goat†

Cited by 33 publications

References 38 publications

Identification and characterization of ERV transcripts in goat embryos

Identification and characterization of ERV transcripts in goat embryos

YTHDF2 Regulates Maternal Transcriptome Degradation and Embryo Development in Goat

Aanat Knockdown and Melatonin Supplementation in Embryo Development: Involvement of Mitochondrial Function and DNA Methylation

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