ERGA-BGE reference genome of the Mediterranean monk seal ( Monachus monachus), an IUCN Vulnerable species.

The Mediterranean monk seal, Monachus monachus, is the only pinniped that lives in the Mediterranean Sea and one of the rarest marine mammals in the world. The species was recently classified as "vulnerable" by the IUCN, considering an improvement in its overall status. However, the species' populations have undergone severe bottlenecks due to systematic persecution by humans over the past centuries. Today, the global population of M. monachus is estimated to be no more than 1,000 individuals. The Mediterranean monk seal is mainly using marine caves as resting and pupping sites. It is an opportunistic apex predator and as a result its role is considered important for maintaining the structure and function of marine ecosystems. Nowadays, the species is threatened mainly by the destruction of its habitat (due to coastal development, mass tourism, and pollution) and by the depletion of its prey due to overfishing. The Mediterranean monk seal is an emblematic species; its ecological importance and its vulnerable status render its protection and effective management necessary. The entirety of the genome sequence of a female specimen was assembled into 16 contiguous chromosomal pseudomolecules, one sex chromosome (X), and one mitochondrial genome. This chromosome-level assembly encompasses 2.4 Gb, composed of 316 contigs and 275 scaffolds, with contig and scaffold N50 values of 90.9 Mb and 157 Mb, respectively.