Genetic divergence between two phenotypically distinct bottlenose dolphin ecotypes suggests separate evolutionary trajectories

Due to their worldwide distribution and occupancy of different types of environments, bottlenose dolphins display considerable morphological variation. Despite limited understanding about the taxonomic identity of such forms and connectivity among them at global scale, coastal (or inshore) and offshore (or oceanic) ecotypes have been widely recognized in several ocean regions. In the Southwest Atlantic Ocean (SWA), however, there are scarce records of bottlenose dolphins differing in external morphology according to habitat preferences that resemble the coastal‐offshore pattern observed elsewhere. The main aim of this study was to analyze the genetic variability, and test for population structure between coastal (n = 127) and offshore (n = 45) bottlenose dolphins sampled in the SWA to assess whether their external morphological distinction is consistent with genetic differentiation. We used a combination of mtDNA control region sequences and microsatellite genotypes to infer population structure and levels of genetic diversity. Our results from both molecular marker types were congruent and revealed strong levels of structuring (microsatellites F_ST = 0.385, p < .001; mtDNA F_ST =  0.183, p < .001; Φ_ST = 0.385, p < .001) and much lower genetic diversity in the coastal than the offshore ecotype, supporting patterns found in previous studies elsewhere. Despite the opportunity for gene flow in potential “contact zones”, we found minimal current and historical connectivity between ecotypes, suggesting they are following discrete evolutionary trajectories. Based on our molecular findings, which seem to be consistent with morphological differentiations recently described for bottlenose dolphins in our study area, we recommend recognizing the offshore bottlenose dolphin ecotype as an additional Evolutionarily Significant Unit (ESU) in the SWA. Implications of these results for the conservation of bottlenose dolphins in SWA are also discussed.     

Low genetic diversity in pygmy blue whales is due to climate-induced diversification rather than anthropogenic impacts

Unusually low genetic diversity can be a warning of an urgent need to mitigate causative anthropogenic activities. However, current low levels of genetic diversity in a population could also be due to natural historical events, including recent evolutionary divergence, or long-term persistence at a small population size. Here, we determine whether the relatively low genetic diversity of pygmy blue whales (Balaenoptera musculus brevicauda) in Australia is due to natural causes or overexploitation. We apply recently developed analytical approaches in the largest genetic dataset ever compiled to study blue whales (297 samples collected after whaling and representing lineages from Australia, Antarctica and Chile). We find that low levels of genetic diversity in Australia are due to a natural founder event from Antarctic blue whales (Balaenoptera musculus intermedia) that occurred around the Last Glacial Maximum, followed by evolutionary divergence. Historical climate change has therefore driven the evolution of blue whales into genetically, phenotypically and behaviourally distinct lineages that will likely be influenced by future climate change.     

西藏墨脱格当乡野生虎捕食家畜现状与保护建议

曾经在西藏东南的阔叶林中广泛分布的孟加拉虎,目前仅有一个小种群残留在墨脱县境内。2000年5－6月间,在大型家畜遭受野生虎捕食最严重的墨脱县格当乡展开调查,试图寻找减轻虎害的方法。结果表明：1994－1995年虎的捕食率达到最高,对牛和骡马的捕食率分别是17．9％和9．4％;但1996年后,捕食率分别降低到7．8％和1．8％,这可能与1996年当地曾捕杀过一头虎有关。1993－1999年间,全乡牛的数量下降了11％,但骡马数量上升了23％,这是因为当地为增加运输能力而从别处购得骡马。据反映,目前格当乡境内大约有4－5头虎。1997年和1999年,均见母虎和小虎同行,说明该种群尚有繁殖。在抽样的21户居民家中,1999年4月到2000年5月间,66．6％的人家有大型牲畜遭虎捕杀,共损失牛27头,马12匹,而自1993年以来,21户中共有18户（85．8％）,有牲畜被杀记录,共计损失117头。其中对牛的捕食率达19．7％,对马达11．9％,平均每户损失牛1．2头,骡马0．5匹。非法狩猎减少了虎的猎物如野猪、羚牛等的数量,是老虎转向家畜的主要原因之一。虎害已对格当乡群众的经济造成较大负面影响。但格当乡以及周边地区保护着中国最后的野生孟加拉虎种群,为确保虎的长期生存同时减少人－虎冲突,建议改变目前放牧方式,尽可能联合放牧、增加看护;改善放牧地条件,清除牧场周围蕨草丛;减少对羚牛等有蹄类的猎杀,以减少对老虎猎物种群的破坏;对部分家畜移入棚内试行圈养,既保护家畜,又提高乳制品产量和增加农家肥料;实行多种经营方法,建议养一些山羊和家禽;政府应该帮助安置好部分愿意外迁的居民,这样既满足这些居民的需要,同时也减轻对当地野生动物种群的压力。     

Riverscape genomics of a threatened fish across a hydroclimatically heterogeneous river basin

Understanding how natural selection generates and maintains adaptive genetic diversity in heterogeneous environments is key to predicting the evolutionary response of populations to rapid environmental change. Detecting selection in complex spatial environments remains challenging, especially for threatened species where the effects of strong genetic drift may overwhelm signatures of selection. We carried out a basinwide riverscape genomic analysis in the threatened southern pygmy perch (Nannoperca australis), an ecological specialist with low dispersal potential. High‐resolution environmental data and 5162 high‐quality filtered SNPs were used to clarify spatial population structure and to assess footprints of selection associated with a steep hydroclimatic gradient and with human disturbance across the naturally and anthropogenically fragmented Murray–Darling Basin (Australia). Our approach included F_ST outlier tests to define neutral loci, and a combination of spatially explicit genotype–environment association analyses to identify candidate adaptive loci while controlling for the effects of landscape structure and shared population history. We found low levels of genetic diversity and strong neutral population structure consistent with expectations based on spatial stream hierarchy and life history. In contrast, variables related to precipitation and temperature appeared as the most important environmental surrogates for putatively adaptive genetic variation at both regional and local scales. Human disturbance also influenced the variation in candidate loci for adaptation, but only at a local scale. Our study contributes to understanding of adaptive evolution along naturally and anthropogenically fragmented ecosystems. It also offers a tangible example of the potential contributions of landscape genomics for informing in situ and ex situ conservation management of biodiversity.     

Using genotype simulations and Bayesian analyses to identify individuals of hybrid origin in Australian bass: lessons for fisheries management

Simulated genotypes, Bayesian analyses and molecular genetic data were used to detect individuals of hybrid origin and hybrid introgression between the Australian bass ( Macquaria novemaculeata ), a species extensively stocked in Australia, and estuary perch ( Macquaria colonorum ). Based on this analytical framework, 93% of the hybrids up to three generations later could be distinguished from the Australian bass. Individuals of hybrid origin were identified in all three rivers sampled. In addition, this study verified the fertility of hybrids between Australian bass and estuary perch as determined through genomic introgression. This study exemplifies an analytical procedure that has implications for identifying suitable individuals for use in breeding and restocking programmes for other species.     

Influences of past climatic changes on historical population structure and demography of a cosmopolitan marine predator,the common dolphin (genus Delphinus)

Climatic oscillations during the Pleistocene have greatly influenced the distribution and connectivity of many organisms, leading to extinctions but also generating biodiversity. While the effects of such changes have been extensively studied in the terrestrial environment, studies focusing on the marine realm are still scarce. Here we used sequence data from one mitochondrial and five nuclear loci to assess the potential influence of Pleistocene climatic changes on the phylogeography and demographic history of a cosmopolitan marine predator, the common dolphin (genus Delphinus). Population samples representing the three major morphotypes of Delphinus were obtained from 10 oceanic regions. Our results suggest that short‐beaked common dolphins are likely to have originated in the eastern Indo‐Pacific Ocean during the Pleistocene and expanded into the Atlantic Ocean through the Indian Ocean. On the other hand, long‐beaked common dolphins appear to have evolved more recently and independently in several oceans. Our results also suggest that short‐beaked common dolphins had recurrent demographic expansions concomitant with changes in sea surface temperature during the Pleistocene and its associated increases in resource availability, which differed between the North Atlantic and Pacific Ocean basins. By proposing how past environmental changes had an effect on the demography and speciation of a widely distributed marine mammal, we highlight the impacts that climate change may have on the distribution and abundance of marine predators and its ecological consequences for marine ecosystems.     

Seascape genetics of a globally distributed, highly mobile marine mammal: the short-beaked common dolphin (genus Delphinus)

Identifying which factors shape the distribution of intraspecific genetic diversity is central in evolutionary and conservation biology. In the marine realm, the absence of obvious barriers to dispersal can make this task more difficult. Nevertheless, recent studies have provided valuable insights into which factors may be shaping genetic structure in the world's oceans. These studies were, however, generally conducted on marine organisms with larval dispersal. Here, using a seascape genetics approach, we show that marine productivity and sea surface temperature are correlated with genetic structure in a highly mobile, widely distributed marine mammal species, the short-beaked common dolphin. Isolation by distance also appears to influence population divergence over larger geographical scales (i.e. across different ocean basins). We suggest that the relationship between environmental variables and population structure may be caused by prey behaviour, which is believed to determine common dolphins' movement patterns and preferred associations with certain oceanographic conditions. Our study highlights the role of oceanography in shaping genetic structure of a highly mobile and widely distributed top marine predator. Thus, seascape genetic studies can potentially track the biological effects of ongoing climate-change at oceanographic interfaces and also inform marine reserve design in relation to the distribution and genetic connectivity of charismatic and ecologically important megafauna.