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Blue whales Balaenoptera musculus aggregate to feed in a regional upwelling system during November-May between the Great Australian Bight (GAB) and Bass Strait. We analysed sightings from aerial surveys over 6 upwelling seasons (2001-02 to 2006-07) to assess within-season patterns of blue whale habitat selection, distribution, and relative abundance. Habitat variables were modelled using a general linear model (GLM) that ranked sea surface temperature (SST) and sea surface chlorophyll (SSC) of equal importance, followed by depth, distance to shore, SSC gradient, distance to shelf break, and SST gradient. Further discrimination by hierarchical partitioning indicated that SST accounted for 84.4% of variation in blue whale presence explained by the model, and that probability of sightings increased with increasing SST. The large study area was resolved into 3 zones showing diversity of habitat from the shallow narrow shelf and associated surface upwelling of the central zone, to the relatively deep upper slope waters, broad shelf and variable upwelling of the western zone, and the intermediate features of the eastern zone. Density kernel estimation showed a trend in distribution from the west during November-December, spreading south-eastward along the shelf throughout the central and eastern zones during January-April, with the central zone most consistently utilised. Encounter rates in central and eastern zones peaked in February, coinciding with peak upwelling intensity and primary productivity. Blue whales avoided inshore upwelling centres, selecting SST ~1°C cooler than remotely sensed ambient SST. Whales selected significantly higher SSC in the central and eastern zones than the western zone, where relative abundance was extremely variable. Most animals departed from the feeding ground by late April.

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Understanding the degree of genetic exchange between subspecies and populations is vital for the appropriate management of endangered species. Blue whales (Balaenoptera musculus) have two recognized Southern Hemisphere subspecies that show differences in geographic distribution, morphology, vocalizations and genetics. During the austral summer feeding season, the Antarctic blue whale (B. m. intermedia) is found in polar waters and the pygmy blue whale (B. m. brevicauda) in temperate waters. Here, we genetically analyzed samples collected during the feeding season to report on several cases of hybridization between the two recognized blue whale Southern Hemisphere subspecies in a previously unconfirmed sympatric area off Antarctica. This means the pygmy blue whales using waters off Antarctica may migrate and then breed during the austral winter with the Antarctic subspecies. Alternatively, the subspecies may interbreed off Antarctica outside the expected austral winter breeding season. The genetically estimated recent migration rates from the pygmy to Antarctic subspecies were greater than estimates of evolutionary migration rates and previous estimates based on morphology of whaling catches. This discrepancy may be due to differences in the methods or an increase in the proportion of pygmy blue whales off Antarctica within the last four decades. Potential causes for the latter are whaling, anthropogenic climate change or a combination of these and may have led to hybridization between the subspecies. Our findings challenge the current knowledge about the breeding behaviour of the world's largest animal and provide key information that can be incorporated into management and conservation practices for this endangered species.

The worldwide distribution of blue whales (Balaenoptera musculus) has not prevented this species from becoming endangered due to twentieth century whaling. In Australia there are two known feeding aggregations of blue whales, which most likely are the pygmy subspecies (B. m. brevicauda). It is unknown whether individuals from these feeding aggregations belong to one breeding stock, or multiple breeding stocks that either share or occupy separate feeding grounds. This was investigated using ten microsatellite loci and mitochondrial DNA control region sequences (N = 110). Both sets of markers revealed no significant genetic structure, suggesting that these whales are likely to belong to the same breeding stock.