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This study investigated the close kinship structure of southern right whales on feeding grounds during austral summer seasons. The study was based on biopsy samples of 171 individual whales, which were genotyped with 14 microsatellite DNA loci. Kinship was investigated by using the LOD (Log Odds) score, a relatedness index for a pair of genotypes. Based on a cut-off point of LODPO > 6, which was chosen to balance false positives and negatives, a total of 28 dyads were inferred. Among these, 25 were classified as parent-offspring pairs. Additional genetic (mitochondrial DNA haplotypes) and biological (estimated body length, sex) data were used to provide additional information on the inferred close kin pairs. The elapsed time between sampling varied from 0 (close kin detected in the same austral summer season) to 17 years. All the kin pairs occurred within the Antarctic Indo sector (85°-135°E) and no pair occurred between whales within and outside of this sector. Six pairs were between individuals in high (Antarctic) and lower latitudes. Results of the present analysis on kinship are consistent with the views that whales in the Indo sector of the Antarctic are related with the breeding ground in Southwest Australia, and that whales from this population can occupy different feeding grounds. The present study has the potential to contribute to the conservation of the southern right whales through the monitoring of important population parameters such as population sizes and growth rate, in addition to assist the interpretation of stock structure derived from standard population genetic analyses.

Antarctic fur seal (Arctocephalus gazella) colonies are found on sub-Antarctic islands around the continent. These islands experience a range of conditions in terms of physical and biological habitat, creating a natural laboratory to investigate local genetic adaptation. One striking habitat difference is in the availability of Euphausia superba krill as prey, which has led to A. gazella exhibiting a range of diets. A. gazella in some colonies consume exclusively krill, while their conspecifics in other colonies feed mainly on fish and consume few to no krill. To investigate potential adaptations to these different prey fields, reduced representation genome sequencing was conducted on A. gazella from the 8 major colonies. Twenty-seven genomic regions exhibiting signatures of natural selection were identified. Two of these genomic regions were clearly associated with seals living in krill-dominated areas or those in fish-dominated areas. Twenty-two additional genomic regions under selection showed a pattern consistent with prey differences as the driver of selection after historical migrations from krill-dominated habitats where lineages evolved to present krill-poor habitat areas were taken into account. Only 1 of the genomic regions identified appeared to be explained by any other environmental variable analysed (depth). Genomic regions under prey-driven selection included genes associated with regulation of gene expression, skeletal development, and lipid metabolism. Adaptation to local prey has implications for spatial management of this species and for the potential impacts of climate- or harvest-driven reductions in krill abundance on these seals. KEY WORDS: Arctocephalus gazella · Double digest restriction-site associated DNA sequencing · ddRAD · Diet · Euphausia superba · Natural selection

Identification of DNA sequence diversity is a powerful means for assessing the species present in environmental samples. The most common molecular strategies for estimating taxonomic composition depend upon PCR with universal primers that amplify an orthologous DNA region from a range of species. The diversity of sequences within a sample that can be detected by universal primers is often compromised by high concentrations of some DNA templates. If the DNA within the sample contains a small number of sequences in relatively high concentrations, then less concentrated sequences are often not amplified because the PCR favours the dominant DNA types. This is a particular problem in molecular diet studies, where predator DNA is often present in great excess of food-derived DNA.

Abstract Commercial sealing in the 18th and 19th centuries had a major impact on the Antarctic and subantarctic fur seal populations (Arctocephalus gazella and A. tropicalis) in the Southern Ocean. The intensive and unrestricted nature of the industry ensured substantial reductions in population sizes and resulted in both species becoming locally extinct at some sites. However, both species are continuing to recover, through the recolonization of islands across their former range and increasing population size. This study investigated the extent and pattern of genetic variation in each species to examine the hypothesis that higher levels of historic sealing in A. gazella have resulted in a greater loss of genetic variability and population structure compared with A. tropicalis. A 316-bp section of the mitochondrial control region was sequenced and revealed nucleotide diversities of 3.2% and 4.8% for A. gazella and A. tropicalis, respectively. There was no geographical distribution of lineages observed within either species, although the respective ΦST values of 0.074 and 0.19 were significantly greater than zero. These data indicate low levels of population structure in A. gazella and relatively high levels in A. tropicalis. Additional samples screened with restriction endonucleases were incorporated, and the distribution of restriction fragment length polymorphism (RFLP) and sequence haplotypes were examined to identify the main source populations of newly recolonized islands. For A. tropicalis, the data suggest that Macquarie Island and Iles Crozet were probably recolonized by females from Marion Island, and to a lesser extent Ile Amsterdam. Although there was less population structure within A. gazella, there were two geographical regions identified: a western region containing the populations of South Georgia and Bouvet?ya, which were the probable sources for populations at Marion, the South Shetland and Heard Islands; and an eastern region containing the panmictic populations of Iles Kerguelen and Macquarie Island. The latter region may be a result of a pronounced founder effect, or represent a remnant population that survived sealing at Iles Kerguelen.

The minke whale (Balaenoptera acutorostrata) is subject to commercial whaling, but stock identification and assessment are still uncertain. Mitochondrial DNA (mtDNA) sequences were determined to examine the population structure of minke whales from the central and northeastern parts of the North Atlantic, as well as the Antarctic regions IV and V. The analyses include 345 nucleotide positions of the control region of 110 individuals, and 250 nucleotide positions of the NADH dehydrogenase subunit 2 gene for a representative selection of North Atlantic minke whales. Maximum parsimony analyses and sequence divergence calculations did not reveal any genetic differentiation between individuals from the central and northeastern parts of the North Atlantic. These results do not support the International Whaling Commission's separation of minke whales in this area into different management units, and they are in conflict with previously reported results from allozyme analyses. Comparison of minke whale control region sequences showed that the sequence diversity of North Atlantic minke whales is substantially lower (0.0065) than that of Antarctic minke whales (0.0166), and clearly demonstrated that individuals from these two areas represent genetically distinct populations.

Development of a comprehensive picture of the genetic population structure of the Antarctic krill (Euphausia superba) has been hampered by a lack of genetic data from two major areas of the species' distribution, the Bellingshausen Sea and the Ross Sea. Evidence from earlier studies of a discrete “Bellingshausen Sea” population was based on anomalous allele frequencies in two sample sets that were collected near the west coast of the Antarctic Peninsula rather than in the Bellingshausen Sea proper. In this paper we describe the first biochemical genetic data obtained on krill from the central Bellingshausen Sea and from the Ross Sea. Analyses of eight polymorphic loci in samples from these two areas have failed to provide any evidence of population structuring within the Pacific sector of the Southern Ocean, and have indicated that Pacific sector krill cannot be genetically discriminated from Atlantic sector krill or Indian Ocean sector krill. These findings further support the hypothesis of a single circumpolar breeding population of Antarctic krill.

Electrophoretic analyses of allele distributions at nine polymorphic gene loci were conducted in samples of Euphausia superba from the Bransfield Strait, off the South Orkney Islands, and from the south-eastern part of the Weddell Sea. The aim was to determine whether reported phenotypic differences between krill stocks from these areas could be linked to genotypic differences. Despite minor deviations of genotype distributions from Hardy-Weinberg expectations, the data gave no evidence of genetic heterogeneity over the sampled area, and the hypothesis of a single genetically homogeneous krill population could not be rejected. Genetic data for four selected loci were verified by using two different electrophoretic methods. Results from these two techniques yielded no discrepancies in interpretation of the data.

Nine samples of Antarctic krill collected at seven localities in the Palmer Archipelago and Bransfield Strait west of the Antarctic Peninsula were analysed for genetic variation at eight enzyme loci. Despite significant among sample heterogeneity in allele frequencies, no convincing evidence was found to support the hypothesis of distinct genetic stocks of Euphausia superba in the investigated area. Allele frequency distributions could not be correlated to regional differences in size patterns. Allelic proportions at the PGI locus did not indicate that the investigated krill was genetically different from E. superba from the Weddell Sea region (from earlier investigations). Deviations of genotypes, or allele frequencies from those expected under Hardy-Weinberg equilibrium, however, may indicate regional, or yearly variation due to occasional selection.

By means of enzyme electrophoretical assays three samples of Euphausia superba, all from the Atlantic sector of the Antarctic Ocean, were examined to see whether or not they represent genetically separated populations. The same samples were also compared with E. superba from off the Western coast of the Antarctic Peninsula, representing the Pacific sector. The latter animals have previously been studied by other authors. One sample of a second species of Antarctic krill, E. crystallorophias, was likewise examined. Thirty-five loci were studied in E. superba, and it is concluded that the three samples from the Atlantic sector most probably do not represent reproductively isolated populations. Their average heterozygosity, about 10%, is however greater than the value previously found for the ‘Pacific’ E. superba, 5.8 %. Calculations of the genetic identity and genetic distance between the Atlantic and ‘Pacific’ samples of E. superba suggest they represent separate populations. The average heterozygosity of E. crystallorophias was estimated to be between 9.1 and 9.4 %, from studies of 33 loci. The genetic distance between this species and E. superba was estimated at 0.989. The results are finally discussed in terms of postulated theories on genetic variability versus environmental heterogeneity.