Dynamic Alternative Splicing During Mouse Preimplantation Embryo Development
The mechanism of alternative pre-mRNA splicing (AS) during preimplantation development is largely unknown. In order to capture the dynamic changes of AS occurring during embryogenesis, we carried out bioinformatics analysis based on scRNA-seq data over the time-course preimplantation development in...
| Main Authors: | , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2020-02-01
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| Series: | Frontiers in Bioengineering and Biotechnology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fbioe.2020.00035/full |
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doaj-8be128c1b13945418c33a5d7351c1275 |
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Article |
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DOAJ |
| language |
English |
| format |
Article |
| sources |
DOAJ |
| author |
Yongqiang Xing Yongqiang Xing Wuritu Yang Guoqing Liu Guoqing Liu Xiangjun Cui Xiangjun Cui Hu Meng Hu Meng Hongyu Zhao Hongyu Zhao Xiujuan Zhao Xiujuan Zhao Jun Li Jun Li Zhe Liu Michael Q. Zhang Lu Cai Lu Cai |
| spellingShingle |
Yongqiang Xing Yongqiang Xing Wuritu Yang Guoqing Liu Guoqing Liu Xiangjun Cui Xiangjun Cui Hu Meng Hu Meng Hongyu Zhao Hongyu Zhao Xiujuan Zhao Xiujuan Zhao Jun Li Jun Li Zhe Liu Michael Q. Zhang Lu Cai Lu Cai Dynamic Alternative Splicing During Mouse Preimplantation Embryo Development Frontiers in Bioengineering and Biotechnology alternative splicing gene expression preimplantation development zygotic gene activation splicing factors |
| author_facet |
Yongqiang Xing Yongqiang Xing Wuritu Yang Guoqing Liu Guoqing Liu Xiangjun Cui Xiangjun Cui Hu Meng Hu Meng Hongyu Zhao Hongyu Zhao Xiujuan Zhao Xiujuan Zhao Jun Li Jun Li Zhe Liu Michael Q. Zhang Lu Cai Lu Cai |
| author_sort |
Yongqiang Xing |
| title |
Dynamic Alternative Splicing During Mouse Preimplantation Embryo Development |
| title_short |
Dynamic Alternative Splicing During Mouse Preimplantation Embryo Development |
| title_full |
Dynamic Alternative Splicing During Mouse Preimplantation Embryo Development |
| title_fullStr |
Dynamic Alternative Splicing During Mouse Preimplantation Embryo Development |
| title_full_unstemmed |
Dynamic Alternative Splicing During Mouse Preimplantation Embryo Development |
| title_sort |
dynamic alternative splicing during mouse preimplantation embryo development |
| publisher |
Frontiers Media S.A. |
| series |
Frontiers in Bioengineering and Biotechnology |
| issn |
2296-4185 |
| publishDate |
2020-02-01 |
| description |
The mechanism of alternative pre-mRNA splicing (AS) during preimplantation development is largely unknown. In order to capture the dynamic changes of AS occurring during embryogenesis, we carried out bioinformatics analysis based on scRNA-seq data over the time-course preimplantation development in mouse. We detected numerous previously-unreported differentially expressed genes at specific developmental stages and investigated the nature of AS at both minor and major zygotic genome activation (ZGA). The AS and differential AS atlas over preimplantation development were established. The differentially alternatively spliced genes (DASGs) are likely to be key splicing factors (SFs) during preimplantation development. We also demonstrated that there is a regulatory cascade of AS events in which some key SFs are regulated by differentially AS of their own gene transcripts. Moreover, 212 isoform switches (ISs) during preimplantation development were detected, which may be critical for decoding the mechanism of early embryogenesis. Importantly, we uncovered that zygotic AS activation (ZASA) is in conformity with ZGA and revealed that AS is coupled with transcription during preimplantation development. Our results may provide a deeper insight into the regulation of early embryogenesis. |
| topic |
alternative splicing gene expression preimplantation development zygotic gene activation splicing factors |
| url |
https://www.frontiersin.org/article/10.3389/fbioe.2020.00035/full |
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doaj-8be128c1b13945418c33a5d7351c12752020-11-25T02:39:27ZengFrontiers Media S.A.Frontiers in Bioengineering and Biotechnology2296-41852020-02-01810.3389/fbioe.2020.00035515146Dynamic Alternative Splicing During Mouse Preimplantation Embryo DevelopmentYongqiang Xing0Yongqiang Xing1Wuritu Yang2Guoqing Liu3Guoqing Liu4Xiangjun Cui5Xiangjun Cui6Hu Meng7Hu Meng8Hongyu Zhao9Hongyu Zhao10Xiujuan Zhao11Xiujuan Zhao12Jun Li13Jun Li14Zhe Liu15Michael Q. Zhang16Lu Cai17Lu Cai18School of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, ChinaThe Inner Mongolia Key Laboratory of Functional Genome Bioinformatics, Inner Mongolia University of Science and Technology, Baotou, ChinaThe Key Laboratory of Mammalian Reproductive Biology and Biotechnology of the Ministry of Education, Inner Mongolia University, Hohhot, ChinaSchool of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, ChinaThe Inner Mongolia Key Laboratory of Functional Genome Bioinformatics, Inner Mongolia University of Science and Technology, Baotou, ChinaSchool of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, ChinaThe Inner Mongolia Key Laboratory of Functional Genome Bioinformatics, Inner Mongolia University of Science and Technology, Baotou, ChinaSchool of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, ChinaThe Inner Mongolia Key Laboratory of Functional Genome Bioinformatics, Inner Mongolia University of Science and Technology, Baotou, ChinaSchool of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, ChinaThe Inner Mongolia Key Laboratory of Functional Genome Bioinformatics, Inner Mongolia University of Science and Technology, Baotou, ChinaSchool of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, ChinaThe Inner Mongolia Key Laboratory of Functional Genome Bioinformatics, Inner Mongolia University of Science and Technology, Baotou, ChinaSchool of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, ChinaThe Inner Mongolia Key Laboratory of Functional Genome Bioinformatics, Inner Mongolia University of Science and Technology, Baotou, ChinaSchool of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, ChinaDepartment of Biological Sciences, Center for Systems Biology, The University of Texas at Dallas, Richardson, TX, United StatesSchool of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, ChinaThe Inner Mongolia Key Laboratory of Functional Genome Bioinformatics, Inner Mongolia University of Science and Technology, Baotou, ChinaThe mechanism of alternative pre-mRNA splicing (AS) during preimplantation development is largely unknown. In order to capture the dynamic changes of AS occurring during embryogenesis, we carried out bioinformatics analysis based on scRNA-seq data over the time-course preimplantation development in mouse. We detected numerous previously-unreported differentially expressed genes at specific developmental stages and investigated the nature of AS at both minor and major zygotic genome activation (ZGA). The AS and differential AS atlas over preimplantation development were established. The differentially alternatively spliced genes (DASGs) are likely to be key splicing factors (SFs) during preimplantation development. We also demonstrated that there is a regulatory cascade of AS events in which some key SFs are regulated by differentially AS of their own gene transcripts. Moreover, 212 isoform switches (ISs) during preimplantation development were detected, which may be critical for decoding the mechanism of early embryogenesis. Importantly, we uncovered that zygotic AS activation (ZASA) is in conformity with ZGA and revealed that AS is coupled with transcription during preimplantation development. Our results may provide a deeper insight into the regulation of early embryogenesis.https://www.frontiersin.org/article/10.3389/fbioe.2020.00035/fullalternative splicinggene expressionpreimplantation developmentzygotic gene activationsplicing factors |