RNA localization during early development of the axolotl
The asymmetric localization of biomolecules is critical for body plan development. One of the most popular model organisms for early embryogenesis studies is Xenopus laevis but there is a lack of information in other animal species. Here, we compared the early development of two amphibian species—th...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-10-01
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| Series: | Frontiers in Cell and Developmental Biology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fcell.2023.1260795/full |
| _version_ | 1797656071950565376 |
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| author | Kateřina Šimková Ravindra Naraine Jan Vintr Vladimír Soukup Radek Šindelka |
| author_facet | Kateřina Šimková Ravindra Naraine Jan Vintr Vladimír Soukup Radek Šindelka |
| author_sort | Kateřina Šimková |
| collection | DOAJ |
| description | The asymmetric localization of biomolecules is critical for body plan development. One of the most popular model organisms for early embryogenesis studies is Xenopus laevis but there is a lack of information in other animal species. Here, we compared the early development of two amphibian species—the frog X. laevis and the axolotl Ambystoma mexicanum. This study aimed to identify asymmetrically localized RNAs along the animal-vegetal axis during the early development of A. mexicanum. For that purpose, we performed spatial transcriptome-wide analysis at low resolution, which revealed dynamic changes along the animal-vegetal axis classified into the following categories: profile alteration, de novo synthesis and degradation. Surprisingly, our results showed that many of the vegetally localized genes, which are important for germ cell development, are degraded during early development. Furthermore, we assessed the motif presence in UTRs of degraded mRNAs and revealed the enrichment of several motifs in RNAs of germ cell markers. Our results suggest novel reorganization of the transcriptome during embryogenesis of A. mexicanum to converge to the similar developmental pattern as the X. laevis. |
| first_indexed | 2024-03-11T17:23:59Z |
| format | Article |
| id | doaj.art-aa3ae17aeec74c6f87f0d9498521baa2 |
| institution | Directory Open Access Journal |
| issn | 2296-634X |
| language | English |
| last_indexed | 2024-03-11T17:23:59Z |
| publishDate | 2023-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Cell and Developmental Biology |
| spelling | doaj.art-aa3ae17aeec74c6f87f0d9498521baa22023-10-19T07:54:38ZengFrontiers Media S.A.Frontiers in Cell and Developmental Biology2296-634X2023-10-011110.3389/fcell.2023.12607951260795RNA localization during early development of the axolotlKateřina Šimková0Ravindra Naraine1Jan Vintr2Vladimír Soukup3Radek Šindelka4Laboratory of Gene Expression, Institute of Biotechnology of the Czech Academy of Sciences, Vestec, CzechiaLaboratory of Gene Expression, Institute of Biotechnology of the Czech Academy of Sciences, Vestec, CzechiaDepartment of Zoology, Faculty of Science, Charles University, Prague, CzechiaDepartment of Zoology, Faculty of Science, Charles University, Prague, CzechiaLaboratory of Gene Expression, Institute of Biotechnology of the Czech Academy of Sciences, Vestec, CzechiaThe asymmetric localization of biomolecules is critical for body plan development. One of the most popular model organisms for early embryogenesis studies is Xenopus laevis but there is a lack of information in other animal species. Here, we compared the early development of two amphibian species—the frog X. laevis and the axolotl Ambystoma mexicanum. This study aimed to identify asymmetrically localized RNAs along the animal-vegetal axis during the early development of A. mexicanum. For that purpose, we performed spatial transcriptome-wide analysis at low resolution, which revealed dynamic changes along the animal-vegetal axis classified into the following categories: profile alteration, de novo synthesis and degradation. Surprisingly, our results showed that many of the vegetally localized genes, which are important for germ cell development, are degraded during early development. Furthermore, we assessed the motif presence in UTRs of degraded mRNAs and revealed the enrichment of several motifs in RNAs of germ cell markers. Our results suggest novel reorganization of the transcriptome during embryogenesis of A. mexicanum to converge to the similar developmental pattern as the X. laevis.https://www.frontiersin.org/articles/10.3389/fcell.2023.1260795/fullRNA localizationearly developmentAmbystoma mexicanumanimal-vegetal axisTOMO-seq |
| spellingShingle | Kateřina Šimková Ravindra Naraine Jan Vintr Vladimír Soukup Radek Šindelka RNA localization during early development of the axolotl Frontiers in Cell and Developmental Biology RNA localization early development Ambystoma mexicanum animal-vegetal axis TOMO-seq |
| title | RNA localization during early development of the axolotl |
| title_full | RNA localization during early development of the axolotl |
| title_fullStr | RNA localization during early development of the axolotl |
| title_full_unstemmed | RNA localization during early development of the axolotl |
| title_short | RNA localization during early development of the axolotl |
| title_sort | rna localization during early development of the axolotl |
| topic | RNA localization early development Ambystoma mexicanum animal-vegetal axis TOMO-seq |
| url | https://www.frontiersin.org/articles/10.3389/fcell.2023.1260795/full |
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