Low mtDNA diversity in a highly differentiated population of spinner dolphins (Stenella longirostris) from the Fernando de Noronha Archipelago, Brazil

Mitochondrial diversity and inter-specific phylogeny among dolphins of the genus Stenella in the Southwest Atlantic Ocean

The genus Stenella is comprised of five species occurring in all oceans. Despite its wide distribution, genetic diversity information on these species is still scarce especially in the Southwest Atlantic Ocean. Some features of this genus can enhance opportunities for potential introgressive hybridization, e.g. sympatric distibution along the Brazilian coast, mixed known associations among species, karyotype uniformity and genome permeability. In this study we analyzed three genes of the mitochondrial genome to investigate the genetic diversity and occurrence of genetic mixture among eighty specimens of Stenella. All species exhibited moderate to high levels of genetic diversity (h = 0.833 to h = 1.000 and π = 0.006 to π = 0.015). Specimens of S. longirostris, S. attenuata and S. frontalis were clustered into differentiated haplogroups, in contrast, haplotypes of S. coeruleoalba and S. clymene were clustered together. We detected phylogenetic structure of mixed clades for S. clymene and S. coeruleoalba specimens, in the Southwest Atlantic Ocean, and also between S. frontalis and S. attenuata in the Northeast Atlantic Ocean, and between S. frontalis and S. longirostris in the Northwest Atlantic Ocean. These specimes were morphologically identified as one species but exhibited the maternal lineage of another species, by mitochondrial DNA. Our results demonstrate that ongoing gene flow is occurring among species of the genus Stenella reinforcing that this process could be one of the reasons for the confusing taxonomy and difficulties in elucidating phylogenetic relationships within this group.

Low mitochondrial genetic diversity in the Indian Ocean humpback dolphin Sousa plumbea in South African waters

The Indian Ocean humpback dolphin Sousa plumbea has been described as South Africa’s most endangered marine mammal due to its low abundance, reliance on coastal habitats with increasing anthropogenic threats and high rates of mortality from bycatch in bather protection nets (BPNs). Although the species has been well studied in South Africa, only a single study has examined its molecular ecology to date, and its population structure remains poorly understood. However, understanding population structure is vital for the conservation and management of a species. To address these research gaps for S. plumbea in South African waters, we analysed the mitochondrial D-loop of 157 museum skin and tooth samples collected between 1963 and 2017 from across the species’ geographic range in South Africa. Our data show that the humpback dolphin has extremely low mitochondrial diversity (haplotype diversity, HD = 0.47; nucleotide diversity, π = 0.2%) with only 3 haplotypes identified, which is comparable to the Critically Endangered Māui dolphin Cephalorhynchus hectori maui and the Critically Endangered Mekong population of Irrawaddy dolphin Orcaella brevirostris. Mitochondrial genetic diversity has not changed significantly in the last 50 yr, despite the high levels of bycatch in BPNs over this time period. Furthermore, we found no evidence of differentiation between dolphins from the KwaZulu-Natal Coast and the Cape South Coast (Western Cape and Eastern Cape). The extremely low mitochondrial diversity we found adds to the growing body of evidence that the humpback dolphin is becoming increasingly vulnerable and that urgent conservation efforts are required for the survival of the species.