Plantation forests and biodiversity: oxymoron or opportunity?

Losses of natural and semi-natural forests, mostly to agriculture, are a significant concern for biodiversity. Against this trend, the area of intensively managed plantation forests increases, and there is much debate about the implications for biodiversity. We provide a comprehensive review of the function of plantation forests as habitat compared with other land cover, examine the effects on biodiversity at the landscape scale, and synthesise context-specific effects of plantation forestry on biodiversity. Natural forests are usually more suitable as habitat for a wider range of native forest species than plantation forests but there is abundant evidence that plantation forests can provide valuable habitat, even for some threatened and endangered species, and may contribute to the conservation of biodiversity by various mechanisms. In landscapes where forest is the natural land cover, plantation forests may represent a low-contrast matrix, and afforestation of agricultural land can assist conservation by providing complementary forest habitat, buffering edge effects, and increasing connectivity. In contrast, conversion of natural forests and afforestation of natural non-forest land is detrimental. However, regional deforestation pressure for agricultural development may render plantation forestry a ‘lesser evil’ if forest managers protect indigenous vegetation remnants. We provide numerous context-specific examples and case studies to assist impact assessments of plantation forestry, and we offer a range of management recommendations. This paper also serves as an introduction and background paper to this special issue on the effects of plantation forests on biodiversity.

The Iberomaurusian enigma: north African progenitor or dead end?

Data obtained during an ongoing dental investigation of African populations address two long-standing, hotly debated questions. First, was there genetic continuity between Late Pleistocene Iberomaurusians and later northwest Africans (e.g., Capsians, Berbers, Guanche)? Second, were skeletally-robust Iberomaurusians and northeast African Nubians variants of the same population? Iberomaurusians from Taforalt in Morocco and Afalou-Bou-Rhummel in Algeria, Nubians from Jebel Sahaba in Sudan, post-Pleistocene Capsians from Algeria and Tunisia, and a series of other samples were statistically compared using 29 discrete dental traits to help estimate diachronic local and regional affinities. Results revealed: (1) a relationship between the Iberomaurusians, particularly those from Taforalt, and later Maghreb and other North African samples, and (2) a divergence among contemporaneous Iberomaurusians and Nubian samples. Thus, some measure of long-term population continuity in the Maghreb and surrounding region is supported, whereas greater North African population heterogenity during the Late Pleistocene is implied.     

Rainforest and savanna landscape dynamics in New Caledonia: Towards a mosaic of stable rainforest and savanna states?

Stable forested environments can be converted to savanna in response to changes in environmental disturbances. New Caledonia is a biodiversity hotspot; significant ecological and economic resources would be lost if forests were turned into savanna by anthropogenic environmental changes. On the landscape scale, systems that have undergone shifts of this kind are characterized by sharp forest–savanna boundaries and mosaic‐like distributions of savanna and forest. Understanding the locations and the dynamics of such boundaries is a challenge for ecologists and is critical for landscape management and biodiversity conservation. Using a time series of aerial photographs (1955–2000) and a forest habitat suitability map, we tested the hypothesis that topography and spatial processes, especially those relating to fire spread and seed dispersal, are the main determinants of the spatial distribution of rainforest and savanna in a New Caledonian landscape covering 24 km². Within the studied landscape, the overall forest coverage decreased by 24% between 1976 and 2000. This was primarily due to the contraction of forests on west‐facing slopes, which accounted for about 90% of the total loss. Conversely, the east‐facing forests seemed to have contracted extensively prior to the studied period, and were confined to refuges. A habitat suitability index calculated from the landscape's topographical features using generalized additive models accurately predicted both the presence of forests and the probability of forest expansion/contraction. We also provide evidence that spatial processes such as fire spread and seed dispersal limit the expansion and contraction of forests. Our results suggest that rainforests on west‐facing slopes in New Caledonia will be progressively destroyed by fire until they are restricted to refuges along thalwegs and creeks, as appears to have already happened for their east‐facing counterparts.     

The anomalous Kentucky coffeetree: megafaunal fruit sinking to extinction?

The Kentucky coffeetree (Gymnocladus dioicus, Fabaceae) is an ecological paradox. A rare tree in nature in eastern and central North America, G. dioicus produces legumes that are only known to be dispersed by water, but appear similar to fruits consumed and dispersed by elephants and rhinoceros. One would expect the pods to be consumed by livestock, but the pulp and seeds are toxic to cattle and sheep. We examine the puzzle of G. dioicus dispersal in light of its other reproductive and life history characteristics and find that it probably is a botanical anachronism, in terms of both a set of dispersal agents long extinct and habitats, including what we term megafaunal disclimaxes, which have disappeared. Large seeds, the megafaunal gestault of the fruit, a dioecious mating system, and shade-intolerance combined with vigorous cloning suggest a widely dispersed pioneer of Miocene through Pleistocene habitats profoundly altered by large-mammal herbivory. As to what ate it, we can only say there were once many candidates. We hypothesize that the plant is an ecological anachronism, sinking to extinction in the wild.     

The jigsaw puzzle of our African ancestry: unsolved,or unsolvable?

A revised root for the Y chromosome phylogeny further fragments the picture of modern human origins that can be reconstructed from genetic, linguistic and archaeological data.     

DNA construction: homemade or ordered out?

Automation and optimization of DNA construction results in the efficient production of large target sequences.     

When are buttresses and stilt roots necessary for a tree in terra-firme Amazonian forests?

Determinants of the occurrence of buttress and stilt roots are still poorly understood. These may be linked to individual's properties as a way to increase stability as trees get higher, to environmental factors that increase falling risks or interactions of both. We took advantage of a large dataset (presence of buttress, stilt roots, and tree diameter in 8415 trees from 35 1-ha plots in central Amazonia) to investigate how tree and environmental properties interact to determine the occurrence of support structures. We also made detailed measurements of allometry and canopy size in 67 trees of two dominant species. The probability of occurrence of support structures was modeled with multiple logistic regressions and boosted regression trees. We established a best-fitting subset model based on AIC ranking using unsupervised model selection. At the landscape scale, support structures were more common in large trees (b_std = 0.88, p < .001) and valleys (b_std = −0.09, p < .01), due to species turnover along topography and also due to intraspecific variation in the development of buttresses within species, linked to interactions of tree size and topography. The relationship between height and diameter (Height:Diameter) was the most important determinant of buttress occurrence (b_std = −1.57, p < .001). We conclude that less stable soils select a higher frequency of trees with support structures. However, coordinated allometric relationships among stem and crown sizes also influence the need of support structures. Thus, the presence of support structures depends on the interplay of individual plant's allometry and environmentally imposed conditions of instability. Abstract in Portuguese is available with online material.     

The rise and fall of the adaptive landscape?

The discussion of the adaptive landscape in the philosophical literature appears to be divided along the following lines. On the one hand, some claim that the adaptive landscape is either “uninterpretable” or incoherent. On the other hand, some argue that the adaptive landscape has been an important heuristic, or tool in the service of explaining, as well as proposing and testing hypotheses about evolutionary change. This paper attempts to reconcile these two views.

The alpha helix dipole: screened out?

Aligned alpha helix peptide dipoles sum to a "macroscopic" dipole parallel to the helix axis that has been implicated in protein folding and function. However, in aqueous solution the dipole is counteracted by an electrostatic reaction field generated by the solvent, and the strength of the helix dipole may reduce drastically from its value in vacuum. Here, using atomic-detail helix models and Poisson-Boltzmann continuum electrostatics calculations, the net effective dipole moment, mu(eff), is calculated. Some initially surprising results are found. Whereas in vacuum mu(eff) increases with helix length, the opposite is found to be the case for transmembrane helices. In soluble proteins, mu(eff) is found to vary strongly with the orientation and position of the helix relative to the aqueous medium. A set of rules is established to estimate of the strength of mu(eff) from graphical inspection of protein structures.     

Autophagy across the eukaryotes: Is S. cerevisiae the odd one out?

Autophagy is conserved throughout the eukaryotes and for many years, work in Saccharomyces cerevisiae has been at the forefront of autophagy research. However as our knowledge of the autophagic machinery has increased, differences between S. cerevisiae and mammalian cells have become apparent. Recent work in other organisms, such as the amoeba Dictyostelium discoideum, indicate an autophagic pathway much more similar to mammalian cells than S. cerevisiae, despite its earlier evolutionary divergence. S. cerevisiae therefore appear to have significantly specialized, and the autophagic pathway in mammals is much more ancient than previously appreciated, which has implications for how we interpret data from organisms throughout the eukaryotic tree.     

Sources or sinks? The responses of tropical forests to current and future climate and atmospheric composition.

How tropical rainforests are responding to the ongoing global changes in atmospheric composition and climate is little studied and poorly understood. Although rising atmospheric carbon dioxide (CO2) could enhance forest productivity, increased temperatures and drought are likely to diminish it. The limited field data have produced conflicting views of the net impacts of these changes so far. One set of studies has seemed to point to enhanced carbon uptake; however, questions have arisen about these findings, and recent experiments with tropical forest trees indicate carbon saturation of canopy leaves and no biomass increase under enhanced CO2. Other field observations indicate decreased forest productivity and increased tree mortality in recent years of peak temperatures and drought (strong El Niño episodes). To determine current climatic responses of forests around the world tropics will require careful annual monitoring of ecosystem performance in representative forests. To develop the necessary process-level understanding of these responses will require intensified experimentation at the whole-tree and stand levels. Finally, a more complete understanding of tropical rainforest carbon cycling is needed for determining whether these ecosystems are carbon sinks or sources now, and how this status might change during the next century.     

Bat activity before and after a severe wildfire in Pilliga forests: Resilience influenced by fire extent and landscape mobility?

Wildfires are becoming increasingly severe and common in many parts of the world, yet their effects on certain taxa remain poorly studied. In November 2006, a major wildfire occurred in the Pilliga forests of north‐west New South Wales, Australia. This fire was severe and extensive, burning more than 120 000 ha. Prior to the fire, we conducted a study in the affected area assessing bat activity in relation to flyway size and riparian zones, allowing us to opportunistically compare before – and – after effects of wildfire on bats in burnt and unburnt areas. We assessed how bat activity and bat composition changed from 1 year pre‐fire to 1 year post‐fire and 4 years post‐fire, accounting for the effects of flyway size. A BACI analysis showed that there was an effect of time (year) on bat activity, with activity markedly reduced in both burnt and unburnt sites in the year post‐ fire, before recovering 4‐years post‐fire to levels that approached pre‐burn activity. However, there was no treatment or interaction effect, indicating fire alone did not affect bat activity at our sites. Activity was 50% lower at supplementary sites more remote (~5 km) from the fire edge. Multi‐dimensional scaling and permanova described a strong effect of year but no evidence of fire or stream size‐mediated effects on species composition. The drop in activity post‐fire coincided with a period of drought that subsequently broke in the year prior to our survey 4 years post‐fire. Some species‐specific responses to the fire were evident and depended on the proximity to unburnt forest. We suggest the potential for landscape re‐assortment, whereby some species may move from the unburnt landscape into the burnt landscape, possibly in response to a resource pulse of insects. A landscape pattern of movement could obscure the detection of direct fire effects on mobile bats. We suggest fire extent, proximity to unburnt vegetation and severity are key considerations when interpreting the response of bats to wildfire.     

The Circadian System and Affective Disorders: Clocks or Rhythms?

There have been a number of proposals that a pathology of the circadian system involving clock functioning underlies the affective disorders. It is argued that neither current findings from research into the neurophysiological substrates of the affective disorders, recent clinical findings regarding these illnesses or their phenomenology support such a contention. This does not mean however that there is not a primary pathological disturbance of the circadian system at the heart of the affective disorders. The same neurophysiological, phenomenological and clinical evidence can be offered in favour of a disturbance of circadian rhythms in the presence of grossly normal clock functioning. The research and remedial implications of this alternative are outlined briefly.     

Dynamics and trophic interactions of small rodents: landscape or regional effects on spatial variation?

Geographically varying rodent dynamics may be due to specific landscape effects or to regional variation. Two common vole species (Clethrionomys glareolus and Microtus agrestis), their main predators and their impact on some important food items were monitored in Sweden on forest clearcuts in two different landscape types, situated in two different regions with different climatic conditions. Censuses, with 10-16 clearcuts in each landscape and both landscapes in the two regions, were designed to permit analyses of variance of the effects of landscape composition and region on dynamics and species interactions. Region had a far greater influence than landscape on vole numbers, on the proportions of generalist and specialist predators and on the winter browsing of bark of indigenous and experimental woody plants as well on seed consumption in experimental supplies. The findings indicated an influence of the depth and quality of the snow cover on the predation rates by generalist and specialist predators. However, there were also clear signs of food limitation in the snow-rich areas. Such areas had fewer generalist predators, which probably meant less directly density-dependent predation. Thus, lack of high-quality food may put a brake on population growth in climatically harsh regions, permitting increasing populations of specialist predators such as small mustelids to subsequently over-utilise their main prey and potentially cause prolonged low densities. Snow conditions may affect numbers and interactions both within habitats, landscapes and regions. Thus, to more fully understand rodent dynamics, small-scale movements and interactions of individuals in relation to the main large-scale factor(s) of various regions need to be examined.     

Schistosomiasis in African infants and preschool children: to treat or not to treat?

The occurrence of schistosomiasis in African infants and preschool children has been largely overlooked, with preventive chemotherapy usually focused on school-aged children instead. Two recent surveys by Bosompem et al. and Odogwu et al. have shown that schistosomiasis in younger children is much more common than previously thought. This article highlights the importance of the disease in this age group and discusses the future prospects for schistosomiasis control.     

The Ecosystem: Model or Metaphor?

Industrial ecology offers an original way of looking at economic activities. The approach is based on an analogy between certain objects studied by the science of ecology (ecosystems, metabolisms, symbiosis, biocenosis, etc.) and industrial systems. However, this analogical relationship raises difficulties due to the various interpretations to which it is open. Although there is agreement regarding its heuristic function, the analogy can nevertheless be understood either as a model or as a metaphor. The present article first attempts to show how models differ from metaphors. It then sets out to justify the epistemological relevance of this distinction for industrial ecology research. The reflection should thus contribute to clarifying the debate on the (supposed or desired) role of analogy in the field of industrial ecology and heighten the interest this field of investigation represents for implementing sustainable development.