A genome resource for the marine annelid Platynereis spp.
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| Natura: | Artículo científico |
| Lingua: | en |
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BMC genomics
2025
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| author | Mutemi, Kevin Nzumbi Simakov, Oleg Pan, Leslie Santangeli, Luca Null, Ryan Wesley Handberg-Thorsager, Mette Vellutini, Bruno Cossermelli Peterson, Kevin J Fromm, Bastian Larsson, Tomas Savage, Emily Lopez, Mireia Osuna Hercog, Rajna Provaznik, Jan Ordoñez-Rueda, Diana Azevedo, Nayara Gazave, Eve Vervoort, Michel Tomancak, Pavel Tan, Wenhua Winkler, Sylke Benes, Vladimir Hui, Jerome Helm, Conrad Özpolat, B Duygu Arendt, Detlev |
| author_facet | Mutemi, Kevin Nzumbi Simakov, Oleg Pan, Leslie Santangeli, Luca Null, Ryan Wesley Handberg-Thorsager, Mette Vellutini, Bruno Cossermelli Peterson, Kevin J Fromm, Bastian Larsson, Tomas Savage, Emily Lopez, Mireia Osuna Hercog, Rajna Provaznik, Jan Ordoñez-Rueda, Diana Azevedo, Nayara Gazave, Eve Vervoort, Michel Tomancak, Pavel Tan, Wenhua Winkler, Sylke Benes, Vladimir Hui, Jerome Helm, Conrad Özpolat, B Duygu Arendt, Detlev Mutemi, Kevin Nzumbi Simakov, Oleg Pan, Leslie Santangeli, Luca Null, Ryan Wesley Handberg-Thorsager, Mette Vellutini, Bruno Cossermelli Peterson, Kevin J Fromm, Bastian Larsson, Tomas Savage, Emily Lopez, Mireia Osuna Hercog, Rajna Provaznik, Jan Ordoñez-Rueda, Diana Azevedo, Nayara Gazave, Eve Vervoort, Michel Tomancak, Pavel Tan, Wenhua Winkler, Sylke Benes, Vladimir Hui, Jerome Helm, Conrad Özpolat, B Duygu Arendt, Detlev |
| collection | PubMed - marine biology |
| contents | A genome resource for the marine annelid Platynereis spp. Mutemi, Kevin Nzumbi Simakov, Oleg Pan, Leslie Santangeli, Luca Null, Ryan Wesley Handberg-Thorsager, Mette Vellutini, Bruno Cossermelli Peterson, Kevin J Fromm, Bastian Larsson, Tomas Savage, Emily Lopez, Mireia Osuna Hercog, Rajna Provaznik, Jan Ordoñez-Rueda, Diana Azevedo, Nayara Gazave, Eve Vervoort, Michel Tomancak, Pavel Tan, Wenhua Winkler, Sylke Benes, Vladimir Hui, Jerome Helm, Conrad Özpolat, B Duygu Arendt, Detlev Polychaeta Animals Genome Chromosomes Phylogeny Comparative Genomic Hybridization Evolution, Molecular RNA, Transfer RNA, Messenger RNA, Long Noncoding The marine annelid Platynereis dumerilii is a model organism used in many research areas including evolution and development, neurobiology, ecology and regeneration. Here we present the genomes of P. dumerilii (laboratory culture reference and a single individual assembly) and of the closely related P. massiliensis and P. megalops (single individual assembly) to facilitate comparative genomic approaches and help explore Platynereis biology. We used long-read sequencing technology and chromosomal-conformation capture along with extensive transcriptomic resources to obtain and annotate a draft genome assembly of ~ 1.47 Gbp for P. dumerilii, of which more than half represent repeat elements. We predict around 29,000 protein-coding genes, with relatively large intron sizes, over 38,000 non-coding genes, and 105 miRNA loci. We further explore the high genetic variation (~ 3% heterozygosity) within the Platynereis species complex. Gene ontology reveals the most variable loci to be associated with pigmentation, development and immunity. The current work sets the stage for further development of Platynereis genomic resources. |
| format | Artículo científico |
| id | pubmed_40660120 |
| institution | PubMed |
| language | en |
| publishDate | 2025 |
| publisher | BMC genomics |
| record_format | pubmed |
| spellingShingle | A genome resource for the marine annelid Platynereis spp. Mutemi, Kevin Nzumbi Simakov, Oleg Pan, Leslie Santangeli, Luca Null, Ryan Wesley Handberg-Thorsager, Mette Vellutini, Bruno Cossermelli Peterson, Kevin J Fromm, Bastian Larsson, Tomas Savage, Emily Lopez, Mireia Osuna Hercog, Rajna Provaznik, Jan Ordoñez-Rueda, Diana Azevedo, Nayara Gazave, Eve Vervoort, Michel Tomancak, Pavel Tan, Wenhua Winkler, Sylke Benes, Vladimir Hui, Jerome Helm, Conrad Özpolat, B Duygu Arendt, Detlev Polychaeta Animals Genome Chromosomes Phylogeny Comparative Genomic Hybridization Evolution, Molecular RNA, Transfer RNA, Messenger RNA, Long Noncoding A genome resource for the marine annelid Platynereis spp. Mutemi, Kevin Nzumbi Simakov, Oleg Pan, Leslie Santangeli, Luca Null, Ryan Wesley Handberg-Thorsager, Mette Vellutini, Bruno Cossermelli Peterson, Kevin J Fromm, Bastian Larsson, Tomas Savage, Emily Lopez, Mireia Osuna Hercog, Rajna Provaznik, Jan Ordoñez-Rueda, Diana Azevedo, Nayara Gazave, Eve Vervoort, Michel Tomancak, Pavel Tan, Wenhua Winkler, Sylke Benes, Vladimir Hui, Jerome Helm, Conrad Özpolat, B Duygu Arendt, Detlev Polychaeta Animals Genome Chromosomes Phylogeny Comparative Genomic Hybridization Evolution, Molecular RNA, Transfer RNA, Messenger RNA, Long Noncoding The marine annelid Platynereis dumerilii is a model organism used in many research areas including evolution and development, neurobiology, ecology and regeneration. Here we present the genomes of P. dumerilii (laboratory culture reference and a single individual assembly) and of the closely related P. massiliensis and P. megalops (single individual assembly) to facilitate comparative genomic approaches and help explore Platynereis biology. We used long-read sequencing technology and chromosomal-conformation capture along with extensive transcriptomic resources to obtain and annotate a draft genome assembly of ~ 1.47 Gbp for P. dumerilii, of which more than half represent repeat elements. We predict around 29,000 protein-coding genes, with relatively large intron sizes, over 38,000 non-coding genes, and 105 miRNA loci. We further explore the high genetic variation (~ 3% heterozygosity) within the Platynereis species complex. Gene ontology reveals the most variable loci to be associated with pigmentation, development and immunity. The current work sets the stage for further development of Platynereis genomic resources. |
| title | A genome resource for the marine annelid Platynereis spp. |
| topic | Polychaeta Animals Genome Chromosomes Phylogeny Comparative Genomic Hybridization Evolution, Molecular RNA, Transfer RNA, Messenger RNA, Long Noncoding |
| url | https://pubmed.ncbi.nlm.nih.gov/40660120/ |