Single-cell RNA sequencing of mid-to-late stage spider embryos: new insights into spider development
Abstract Background The common house spider Parasteatoda tepidariorum represents an emerging new model organism of arthropod evolutionary and developmental (EvoDevo) studies. Recent technical advances have resulted in the first single-cell sequencing (SCS) data on this species allowing deeper insigh...
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| Format: | Article |
| Language: | English |
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BMC
2024-02-01
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| Series: | BMC Genomics |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12864-023-09898-x |
| _version_ | 1797275738393542656 |
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| author | Brenda I. Medina-Jiménez Graham E. Budd Ralf Janssen |
| author_facet | Brenda I. Medina-Jiménez Graham E. Budd Ralf Janssen |
| author_sort | Brenda I. Medina-Jiménez |
| collection | DOAJ |
| description | Abstract Background The common house spider Parasteatoda tepidariorum represents an emerging new model organism of arthropod evolutionary and developmental (EvoDevo) studies. Recent technical advances have resulted in the first single-cell sequencing (SCS) data on this species allowing deeper insights to be gained into its early development, but mid-to-late stage embryos were not included in these pioneering studies. Results Therefore, we performed SCS on mid-to-late stage embryos of Parasteatoda and characterized resulting cell clusters by means of in-silico analysis (comparison of key markers of each cluster with previously published information on these genes). In-silico prediction of the nature of each cluster was then tested/verified by means of additional in-situ hybridization experiments with additional markers of each cluster. Conclusions Our data show that SCS data reliably group cells with similar genetic fingerprints into more or less distinct clusters, and thus allows identification of developing cell types on a broader level, such as the distinction of ectodermal, mesodermal and endodermal cell lineages, as well as the identification of distinct developing tissues such as subtypes of nervous tissue cells, the developing heart, or the ventral sulcus (VS). In comparison with recent other SCS studies on the same species, our data represent later developmental stages, and thus provide insights into different stages of developing cell types and tissues such as differentiating neurons and the VS that are only present at these later stages. |
| first_indexed | 2024-03-07T15:18:46Z |
| format | Article |
| id | doaj.art-30e7535724644c479cad749e7d2348d6 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-03-07T15:18:46Z |
| publishDate | 2024-02-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-30e7535724644c479cad749e7d2348d62024-03-05T17:47:10ZengBMCBMC Genomics1471-21642024-02-0125113010.1186/s12864-023-09898-xSingle-cell RNA sequencing of mid-to-late stage spider embryos: new insights into spider developmentBrenda I. Medina-Jiménez0Graham E. Budd1Ralf Janssen2Department of Earth Sciences, Palaeobiology, Uppsala UniversityDepartment of Earth Sciences, Palaeobiology, Uppsala UniversityDepartment of Earth Sciences, Palaeobiology, Uppsala UniversityAbstract Background The common house spider Parasteatoda tepidariorum represents an emerging new model organism of arthropod evolutionary and developmental (EvoDevo) studies. Recent technical advances have resulted in the first single-cell sequencing (SCS) data on this species allowing deeper insights to be gained into its early development, but mid-to-late stage embryos were not included in these pioneering studies. Results Therefore, we performed SCS on mid-to-late stage embryos of Parasteatoda and characterized resulting cell clusters by means of in-silico analysis (comparison of key markers of each cluster with previously published information on these genes). In-silico prediction of the nature of each cluster was then tested/verified by means of additional in-situ hybridization experiments with additional markers of each cluster. Conclusions Our data show that SCS data reliably group cells with similar genetic fingerprints into more or less distinct clusters, and thus allows identification of developing cell types on a broader level, such as the distinction of ectodermal, mesodermal and endodermal cell lineages, as well as the identification of distinct developing tissues such as subtypes of nervous tissue cells, the developing heart, or the ventral sulcus (VS). In comparison with recent other SCS studies on the same species, our data represent later developmental stages, and thus provide insights into different stages of developing cell types and tissues such as differentiating neurons and the VS that are only present at these later stages.https://doi.org/10.1186/s12864-023-09898-xSingle-cell sequencingSpider developmentNervous systemGenetic fingerprintParasteatoda tepidariorum |
| spellingShingle | Brenda I. Medina-Jiménez Graham E. Budd Ralf Janssen Single-cell RNA sequencing of mid-to-late stage spider embryos: new insights into spider development BMC Genomics Single-cell sequencing Spider development Nervous system Genetic fingerprint Parasteatoda tepidariorum |
| title | Single-cell RNA sequencing of mid-to-late stage spider embryos: new insights into spider development |
| title_full | Single-cell RNA sequencing of mid-to-late stage spider embryos: new insights into spider development |
| title_fullStr | Single-cell RNA sequencing of mid-to-late stage spider embryos: new insights into spider development |
| title_full_unstemmed | Single-cell RNA sequencing of mid-to-late stage spider embryos: new insights into spider development |
| title_short | Single-cell RNA sequencing of mid-to-late stage spider embryos: new insights into spider development |
| title_sort | single cell rna sequencing of mid to late stage spider embryos new insights into spider development |
| topic | Single-cell sequencing Spider development Nervous system Genetic fingerprint Parasteatoda tepidariorum |
| url | https://doi.org/10.1186/s12864-023-09898-x |
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