TY - JOUR
T1 - A genome resource for the marine annelid Platynereis spp
AU - Mutemi, Kevin Nzumbi
AU - Simakov, Oleg
AU - Pan, Leslie
AU - Santangeli, Luca
AU - Null, Ryan Wesley
AU - Handberg-Thorsager, Mette
AU - Vellutini, Bruno Cossermelli
AU - Peterson, Kevin J.
AU - Fromm, Bastian
AU - Larsson, Tomas
AU - Savage, Emily
AU - Lopez, Mireia Osuna
AU - Hercog, Rajna
AU - Provaznik, Jan
AU - Ordoñez-Rueda, Diana
AU - Azevedo, Nayara
AU - Gazave, Eve
AU - Vervoort, Michel
AU - Tomancak, Pavel
AU - Tan, Wenhua
AU - Winkler, Sylke
AU - Benes, Vladimir
AU - Hui, Jerome
AU - Helm, Conrad
AU - Özpolat, B. Duygu
AU - Arendt, Detlev
N1 - Publisher Copyright:
© European Molecular Biology Laboratory and the Authors 2025.
PY - 2025/12
Y1 - 2025/12
N2 - 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.
AB - 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.
KW - Annelid
KW - Evo-devo
KW - Genome
KW - Model organism
KW - Platynereis
KW - Platynereis dumerilii
KW - Spiralia
UR - https://www.scopus.com/pages/publications/105010609001
U2 - 10.1186/s12864-025-11727-2
DO - 10.1186/s12864-025-11727-2
M3 - Article
C2 - 40660120
AN - SCOPUS:105010609001
SN - 1471-2164
VL - 26
JO - BMC genomics
JF - BMC genomics
IS - 1
M1 - 665
ER -