Characterization of eight microsatellite loci in Steller sea lions (Eumetopias jubatus)

Steller sea lions (Eumetopias jubatus) are listed as an endangered species in western Alaska and have exhibited a significant population decline throughout their range. Eight microsatellite loci were isolated from genomic DNA libraries. In addition, all these markers were found to be variable in nine individuals of the California sea lion (Zalophus californicus). This panel of markers was developed to analyse population structure in Steller sea lions throughout their range.     

Linking territory quality and reproductive success in the Red-billed Chough Pyrrhocorax pyrrochorax: implications for conservation management of an endangered population

As changes in land use have been identified as the main factor explaining the decline in Red-billed Chough Pyrrhocorax pyrrochorax populations across western Europe, a study was carried out in Ouessant (western France) in order to assess the relationship between territory quality and reproductive success. As such an approach could be hindered by the fact that the birds' reproductive performance could be influenced by their breeding experience, we analysed both inter- and intranest-site variation in fledging success. Territory quality was quantified, combining habitat selection, territory size, the amount of feeding area and distance between nest and feeding area. Feeding habitats selected positively by Red-billed Choughs were characterized by a mean sward height of less than 5 cm. Foraging area was on average 21 557 m². Feeding areas (i.e. feeding habitat within foraging area) close to the nest were used preferentially. Fledging success appeared to be influenced neither by the total area of feeding sites in a Chough territory, nor by the mean feeding flight distance. However, fledging success adjusted to nest-site and year appeared to be influenced by feeding area close to the nest: one additional fledgling was expected for each additional 10 000 m² of feeding habitat within 300 m of the nest. These first results allowed us to consider recommending landscape management measures to ensure a favourable conservation status of local Chough populations.     

Fog interception by Sequoia sempervirens (D. Don) crowns decouples physiology from soil water deficit

Although crown wetting events can increase plant water status, leaf wetting is thought to negatively affect plant carbon balance by depressing photosynthesis and growth. We investigated the influence of crown fog interception on the water and carbon relations of juvenile and mature Sequoia sempervirens trees. Field observations of mature trees indicated that fog interception increased leaf water potential above that of leaves sheltered from fog. Furthermore, observed increases in leaf water potential exceeded the maximum water potential predicted if soil water was the only available water source. Because field observations were limited to two mature trees, we conducted a greenhouse experiment to investigate how fog interception influences plant water status and photosynthesis. Pre-dawn and midday branchlet water potential, leaf gas exchange and chlorophyll fluorescence were measured on S. sempervirens saplings exposed to increasing soil water deficit, with and without overnight canopy fog interception. Sapling fog interception increased leaf water potential and photosynthesis above the control and soil water deficit treatments despite similar dark-acclimated leaf chlorophyll fluorescence. The field observations and greenhouse experiment show that fog interception represents an overlooked flux into the soil–plant–atmosphere continuum that temporarily, but significantly, decouples leaf-level water and carbon relations from soil water availability.     

Forest refugia revisited: nSSRs and cpDNA sequences support historical isolation in a wide‐spread African tree with high colonization capacity,Milicia excelsa (Moraceae)

The impact of the Pleistocene climate oscillations on the structure of biodiversity in tropical regions remains poorly understood. In this study, the forest refuge theory is examined at the molecular level in Milicia excelsa, a dioecious tree with a continuous range throughout tropical Africa. Eight nuclear microsatellites (nSSRs) and two sequences and one microsatellite from chloroplast DNA (cpDNA) showed a deep divide between samples from Benin and those from Lower Guinea. This suggests that these populations were isolated in separate geographical regions, probably for several glacial cycles of the Pleistocene, and that the nuclear gene pools were not homogenized despite M. excelsa’s wind‐pollination syndrome. The divide could also be related to seed dispersal patterns, which should be largely determined by the migration behaviour of M. excelsa’s main seed disperser, the frugivorous bat Eidolon helvum. Within Lower Guinea, a north–south divide, observed with both marker types despite weak genetic structure (nSSRs: F_ST = 0.035, cpDNA: G_ST = 0.506), suggested the existence of separate Pleistocene refugia in Cameroon and the Gabon/Congo region. We inferred a pollen‐to‐seed dispersal distance ratio of c. 1.8, consistent with wide‐ranging gene dispersal by both wind and bats. Simulations in an Approximate Bayesian Computation framework suggested low nSSR and cpDNA mutation rates, but imprecise estimates of other demographic parameters, probably due to a substantial gene flow between the Lower Guinean gene pools. The decline of genetic diversity detected in some Gabonese populations could be a consequence of the relatively recent establishment of a closed canopy forest, which could negatively affect M. excelsa’s reproductive system.     

Mating patterns and determinants of individual reproductive success in brown trout (Salmo trutta) revealed by parentage analysis of an entire stream living population

Reproductive success and its determinants are difficult to infer for wild populations of species with no parental care where behavioural observations are difficult or impossible. In this study, we characterized the breeding system and provide estimates of individual reproductive success under natural conditions for an exhaustively sampled stream‐resident brown trout (Salmo trutta) population. We inferred parentage using a full probability Bayesian model that combines genetic (microsatellite) with phenotypic data. By augmenting the potential parents file with inferred parental genotypes from sib‐ship analysis in cases where large families had unsampled parents, we could make more precise inference on variance of family size. We observed both polygamous and monogamous matings and large reproductive skew for both sexes, particularly in males. Correspondingly, we found evidence for sexual selection on body size for both sexes. We show that the mating system of brown trout has the potential to be very flexible and we conjecture that environmental uncertainty could be driving the evolution and perhaps select for the maintenance of plasticity of the mating system in this species.     

Riverine landscape dynamics and ecological risk assessment

1. The aim of ecological risk assessments is to evaluate the likelihood that ecosystems are adversely affected by human‐induced disturbance that brings the ecosystem into a new dynamic equilibrium with a simpler structure and lower potential energy. The risk probability depends on the threshold capacity of the system (resistance) and on the capacity of the system to return to a state of equilibrium (resilience). 2. There are two complementary approaches to assessing ecological risks of riverine landscape dynamics. The reductionist approach aims at identifying risk to the ecosystem on the basis of accumulated data on simple stressor–effect relationships. The holistic approach aims at taking the whole ecosystem performance into account, which implies meso‐scale analysis. 3. Landscape patterns and their dynamics represent the physical framework of processes determining the ecosystem's equilibrium. Assessing risks of landscape dynamics to riverine ecosystems implies addressing complex interactions of system components (e.g. population dynamics and biogeochemical cycles) occurring at multiple scales of space and time. 4. One of the most important steps in ecological risk assessment is to establish clear assessment endpoints (e.g. vital ecosystem and landscape attributes). Their formulation must recognise that riverine ecosystems are dynamic, structurally complex and composed of both deterministic and stochastic components. 5. Remote sensing (geo)statistics and geographical information systems are primary tools for quantifying spatial and temporal components of riverine ecosystem and landscape attributes. 6. The difficulty to experiment at the riverine landscape level means that ecological risk management is heavily dependent on models. Current models are targeted towards simulating ecological risk at levels ranging from single species to habitats, food webs and meta‐populations to ecosystems and entire riverine landscapes, with some including socio‐economic considerations.     

Comparative phylogeography of Nearctic and Palearctic fishes

Combining phylogeographic data from mitochondrial DNA (mtDNA) of Nearctic and Palearctic freshwater and anadromous fishes, we used a comparative approach to assess the influence of historical events on evolutionary patterns and processes in regional fish faunas. Specifically, we (i) determined whether regional faunas differentially affected by Pleistocene glaciations show predictable differences in phylogeographic patterns; (ii) evaluated how processes of divergence and speciation have been influenced by such differential responses; and (iii) assessed the general contribution of phylogeographic studies to conservation issues. Comparisons among case studies revealed fundamental differences in phylogeographic patterns among regional faunas. Tree topologies were typically deeper for species from nonglaciated regions compared to northern species, whereas species with partially glaciated ranges were intermediate in their characteristics. Phylogeographic patterns were strikingly similar among southern species, whereas species in glaciated areas showed reduced concordance. The extent and locations of secondary contact among mtDNA lineages varied greatly among northern species, resulting in reduced intraspecific concordance of genetic markers for some northern species. Regression analysis of phylogeographic data for 42 species revealed significant latitudinal shifts in intraspecific genetic diversity. Both relative nucleotide diversity and estimates of evolutionary effective population size showed significant breakpoints matching the median latitude for the southern limit of the Pleistocene glaciations. Similarly, analysis of clade depth of phylogenetically distinct lineages vs. area occupied showed that evolutionary dispersal rates of species from glaciated and nonglaciated regions differed by two orders of magnitude. A negative relationship was also found between sequence divergence among sister species as a function of their median distributional latitude, indicating that recent bursts of speciation events have occurred in deglaciated habitats. Phylogeographic evidence for parallel evolution of sympatric northern species pairs in postglacial times suggested that differentiation of cospecific morphotypes may be driven by ecological release. Altogether, these results demonstrate that comparative phylogeography can be used to evaluate not only phylogeographic patterns but also evolutionary processes. As well as having significant implications for conservation programs, this approach enables new avenues of research for examining the regional, historical, and ecological factors involved in shaping intraspecific genetic diversity.     

Phylogenetic position of Apostasia and Neuwiedia (Orchidaceae)

JUDD, W. S., STERN, W. L. & CHEADLE, V. I. 1993. Phylogenetic position of Apostasia and Neuwiedia (Orchidaceae). Cladistic analyses of the phylogenetic relationships of selected orchid taxa were conducted in order to assess the phylogenetic position of Apostasia and Neuwiedia (Orchidaceae: Apostasioideae). These analyses employed newly available anatomical characters, along with several morphological features that had been used in recent phylogenetic analyses of Orchidaceae. Our analyses indicate that Apostasia is more closely related to Neuwiedia than it is to Cypripedioideae. The two genera comprise an apostasiad clade; this clade is the sister-group to a clade including Cypripedioideae and monandrous orchids. The apostasiad clade is diagnosed by the derived features of operculate pollen colpi, Apostasia-type seeds, and vessel members with simple perforation plates. Of these, the presence of simple perforation plates is considered to be the most significant phylogenetically. Therefore, the apostasiads should not be considered ancestral to the remaining orchid groups. Vessel members of the monandrous orchids, as well as the cypripediads, are multiperforate–the hypothesized ancestral state based on the condition in Hypoxidaceae.