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| Main Authors: | , , , , , , , , |
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| Format: | Artículo científico |
| Language: | en |
| Published: |
Genome biology and evolution
2024
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| Subjects: | |
| Online Access: | https://pubmed.ncbi.nlm.nih.gov/39475447/ |
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| _version_ | 1868266287713484800 |
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| author | Warner, Jacob F Range, Ryan C Fenner, Jennifer Ka, Cheikouna Waits, Damien S Boddy, Kristen David, Kyle T Mahon, Andrew R Halanych, Kenneth M |
| author_facet | Warner, Jacob F Range, Ryan C Fenner, Jennifer Ka, Cheikouna Waits, Damien S Boddy, Kristen David, Kyle T Mahon, Andrew R Halanych, Kenneth M Warner, Jacob F Range, Ryan C Fenner, Jennifer Ka, Cheikouna Waits, Damien S Boddy, Kristen David, Kyle T Mahon, Andrew R Halanych, Kenneth M |
| collection | PubMed - marine biology |
| contents | Chromosomal-Level Genome Assembly of the Antarctic Sea Urchin Sterechinus neumayeri: A Model for Antarctic Invertebrate Biology. Warner, Jacob F Range, Ryan C Fenner, Jennifer Ka, Cheikouna Waits, Damien S Boddy, Kristen David, Kyle T Mahon, Andrew R Halanych, Kenneth M Animals Sea Urchins Genome Chromosomes Antarctic Regions Gene Regulatory Networks Synteny The Antarctic sea urchin Sterechinus neumayeri (Echinoida; Echinidae) is routinely used as a model organism for Antarctic biology. Here, we present a high-quality genome of S. neumayeri. This chromosomal-level assembly was generated using PacBio long-read sequencing and Hi-C chromatin conformation capture sequencing. This 885.3-Mb assembly exhibits high contiguity with a scaffold length N50 of 36.7 Mb assembled into 20 chromosomal length scaffolds. These putative chromosomes exhibit a high degree of synteny compared to other sea urchin models. We used transcript evidence gene modeling combined with sequence homology to identify 21,638 gene models that capture 97.4% of BUSCO orthologs. Among these, we were able to identify and annotate conserved developmental gene regulatory network orthologs, positioning S. neumayeri as a tractable model for comparative studies on evolution and development. |
| format | Artículo científico |
| id | pubmed_39475447 |
| institution | PubMed |
| language | en |
| publishDate | 2024 |
| publisher | Genome biology and evolution |
| record_format | pubmed |
| spellingShingle | Chromosomal-Level Genome Assembly of the Antarctic Sea Urchin Sterechinus neumayeri: A Model for Antarctic Invertebrate Biology. Warner, Jacob F Range, Ryan C Fenner, Jennifer Ka, Cheikouna Waits, Damien S Boddy, Kristen David, Kyle T Mahon, Andrew R Halanych, Kenneth M Animals Sea Urchins Genome Chromosomes Antarctic Regions Gene Regulatory Networks Synteny Chromosomal-Level Genome Assembly of the Antarctic Sea Urchin Sterechinus neumayeri: A Model for Antarctic Invertebrate Biology. Warner, Jacob F Range, Ryan C Fenner, Jennifer Ka, Cheikouna Waits, Damien S Boddy, Kristen David, Kyle T Mahon, Andrew R Halanych, Kenneth M Animals Sea Urchins Genome Chromosomes Antarctic Regions Gene Regulatory Networks Synteny The Antarctic sea urchin Sterechinus neumayeri (Echinoida; Echinidae) is routinely used as a model organism for Antarctic biology. Here, we present a high-quality genome of S. neumayeri. This chromosomal-level assembly was generated using PacBio long-read sequencing and Hi-C chromatin conformation capture sequencing. This 885.3-Mb assembly exhibits high contiguity with a scaffold length N50 of 36.7 Mb assembled into 20 chromosomal length scaffolds. These putative chromosomes exhibit a high degree of synteny compared to other sea urchin models. We used transcript evidence gene modeling combined with sequence homology to identify 21,638 gene models that capture 97.4% of BUSCO orthologs. Among these, we were able to identify and annotate conserved developmental gene regulatory network orthologs, positioning S. neumayeri as a tractable model for comparative studies on evolution and development. |
| title | Chromosomal-Level Genome Assembly of the Antarctic Sea Urchin Sterechinus neumayeri: A Model for Antarctic Invertebrate Biology. |
| topic | Animals Sea Urchins Genome Chromosomes Antarctic Regions Gene Regulatory Networks Synteny |
| url | https://pubmed.ncbi.nlm.nih.gov/39475447/ |