Species richness estimation and determinants of species detectability in butterfly monitoring programmes

Abstract 1. Species richness is the most widely used biodiversity index, but can be hard to measure. Many species remain undetected, hence raw species counts will often underestimate true species richness. In contrast, capture–recapture methods estimate true species richness and correct for imperfect and varying detectability. 2. Detectability is a crucial quantity that provides the link between a species count and true species richness. For insects, it has hardly ever been estimated, although this is required for the interpretation of species counts. 3. In the Swiss butterfly monitoring programme about 100 transect routes are surveyed seven times a year using a highly standardised protocol. In July 2003, control observers made two additional surveys on 38 transects. Data from these 38 quadrats were analysed to see whether currently available capture–recapture models can provide quadrat‐specific estimates of species richness, and to estimate species detectability in relation to transect, observer, survey, region, and abundance. 4. Species richness over the entire season cannot be estimated using current capture–recapture methods. The species pool was open, preventing use of closed population models, and detectability varied by species, preventing use of current open population models. Assuming a closed species pool during two mid‐season (July) surveys, a Jackknife capture–recapture method was used that accounts for heterogeneity to estimate mean detectability and species richness. 5. In every case, more species were present than were counted. Mean species detectability was 0.61 (SE 0.01) with significant differences between observers (range 0.37–0.83). Species‐specific detection at time t+ 1 was then modelled for those species seen at t for three mid‐season surveys. Detectability averaged 0.50 (range 0.17–0.81) for individual species and 0.65, 0.44, and 0.42 for surveys. Abundant species were detected more easily, although this relationship explained only 5% of variation in species detectability. 6. These are important, although not entirely unexpected, results for species richness estimation of short‐lived animals. Raw counts of species may be misleading species richness indicators unless many surveys are conducted. Monitoring programmes should be calibrated, i.e. the assumption of constant detectability over dimensions of interest needs to be tested. The development of capture–recapture or similar models that can cope with both open populations and heterogeneous species detectability to estimate species richness should be a research priority.     

Old and stable soil organic matter is not necessarily chemically recalcitrant: implications for modeling concepts and temperature sensitivity

Soil carbon turnover models generally divide soil carbon into pools with varying intrinsic decomposition rates. Although these decomposition rates are modified by factors such as temperature, texture, and moisture, they are rationalized by assuming chemical structure is a primary controller of decomposition. In the current work, we use near edge X‐ray absorption fine structure (NEXAFS) spectroscopy in combination with differential scanning calorimetry (DSC) and alkaline cupric oxide (CuO) oxidation to explore this assumption. Specifically, we examined material from the 2.3–2.6 kg L^?1 density fraction of three soils of different type (Oxisol, Alfisol, Inceptisol). The density fraction with the youngest ¹⁴C age (Oxisol, 107 years) showed the highest relative abundance of aromatic groups and the lowest O‐alkyl C/aromatic C ratio as determined by NEXAFS. Conversely, the fraction with the oldest C (Inceptisol, 680 years) had the lowest relative abundance of aromatic groups and highest O‐alkyl C/aromatic C ratio. This sample also had the highest proportion of thermally labile materials as measured by DSC, and the highest ratio of substituted fatty acids to lignin phenols as indicated by CuO oxidation. Therefore, the organic matter of the Inceptisol sample, with a ¹⁴C age associated with ‘passive’ pools of carbon (680 years), had the largest proportion of easily metabolizable organic molecules with low thermodynamic stability, whereas the organic matter of the much younger Oxisol sample (107 years) had the highest proportion of supposedly stable organic structures considered more difficult to metabolize. Our results demonstrate that C age is not necessarily related to molecular structure or thermodynamic stability, and we suggest that soil carbon models would benefit from viewing turnover rate as codetermined by the interaction between substrates, microbial actors, and abiotic driving variables. Furthermore, assuming that old carbon is composed of complex or ‘recalcitrant’ compounds will erroneously attribute a greater temperature sensitivity to those materials than they may actually possess.     

Phenological responses to extreme droughts in a Mediterranean forest

Mediterranean regions are projected to experience more frequent, prolonged and severe drought as a consequence of climate change. We used a retractable rainfall shelter, to investigate the impact of extreme droughts on the development of Quercus ilex leaves, flowers and fruit. In 2008, 97% of rainfall was excluded from a forest plot during the autumn, representing 50% of the 1127 mm of rain that fell during the year. In 2009, 87% of rainfall was excluded during the spring, representing 58% of the 749 mm that fell during the year. The rainfall shelter did not impact neither incident radiation nor air temperature. Autumn rainfall exclusion did not significantly affect leaf, flowers or fruit development. Spring rainfall exclusion resulted in larger and more sustained depression of leaf water potential during the key phases of foliar and floral development. Consequently, only half of the sampled trees (6) reached the shoot lengthening stage which leads to functionally mature leaves (phenophase 4), with one abandoning leaf development at budburst (phenophase 3) and the other two at the bud swelling stage (phenophase 2). All trees of the control plot passed phenophase 4, with most reaching complete leaf development. The impact of extreme droughts on flower development differed between the sexes. The spring exclusion had no effect on male flower, but only one of six trees completed female fruit maturation, compared with four in the control plot. The difference between the male and female drought impacts is likely attributable to the occurrence of male floral development before the period of lowest leaf water potential, and to the lower resource allocation requirements of male flowers. The information provided by our experimental approach may constitute a crucial step to evaluate the impact of increasing drought due to climate change on the most dominant Mediterranean tree species and to help drawing a full picture of the ecological consequences of the decline in water resource on forest dynamics under changing conditions.     

Polyoma Virus Mutants as Probes of Variety Among Mouse Embryonal Carcinoma Cell Lines

The tumor promoter 12–0-tetradecanoylphorbol-13-acetate (TPA) dramatically modifies the differentiative program of myotubes, developed in culture from chick embryo skeletal myogenic cells. In fact TPA selectively decreases the expression of differentiative parameters with a lag of 8–10 h from its administration to the cultures. We have tested whether the reported effect of TPA depends on the synthesis of specific products during the lag phase of TPA action. The data presented indicate that inhibition of protein synthesis by the use of cycloheximide prevents the appearance of TPA induced inhibition of the expression of differentiative products, such as creatine phosphokinase (CPK) activity and acetylcholine receptors (AChR). Following removal of cycloheximide and reinitiation of normal protein synthesis, the TPA induced inhibitory effect on CPK and AChR appears after a delay of about the same length as the time lag of TPA action. Our results indicate that inhibition of protein synthesis during the lag phase of TPA action prevents the effect of this tumor promoter on myotube differentiative parameters, and suggest that the expression of differentiative traits in cultured myotubes is affected by TPA via a regulatory step implying protein synthesis.     

A Rapid Quantitative Bioassay for Evaluating the Effects of Ligands Upon Receptors That Modulate cAMP Levels in a Melanophore Cell Line

A new method for rapidly evaluating the effects of drugs on receptors that regulate intracellular cAMP in a cell line derived from Xenopus laevis melanophores has been developed. Melanophores were plated into sterile 96 well microtiter plates, and 3 days later the cells were treated with melatonin for 30 min to induce melanosome aggregation. Subsequent exposure to MSH or adrenergic agonists caused dose dependent pigment dispersion that peaked within 30 min. The cumulative pigment displacement from cells could be quantitated by using a microplate reader to measure changes in transmittance of light through the wells. The acquired data enabled detailed and reproducible dose response curves and time course analyses to be generated. In addition, the assay followed for the rapid characterization of the effects of antagonists upon the (β adrenergic receptor (β AR). The assay has the potential to test the effects of ligands upon any receptor capable of mediating pigment translocation in the melanophore cell line.     

Precision and accuracy in quantifying herbivory

1. Tissue removal by herbivores (i.e. herbivory) is a dominant interaction in most communities which has important impacts on natural and managed ecosystems. Despite the importance of herbivory, we lack a quantitative comparison of the efficacy of the most commonly used methods used to quantify herbivore damage. 2. We examined the factors that affect the precision and accuracy of visual and digital methods commonly used to quantify damage to leaves. 3. We created 224 digital leaves from four plant species. In a fully factorial design we manipulated leaf morphology and species, the location of damage (marginal or internal), estimation method (exact percentage or 25% bins), observer experience and expectancy bias (i.e., bias due to an expected result). Using 583 adult observers, we estimated the precision and accuracy of individuals' ability to visually estimate known levels of damage. In a third smaller experiment, we performed similar analyses using a digital scanner. 4. Across the first two experiments, individuals estimated damage with high precision (R² = 0.75 and 0.80) and accuracy (slope_{actual vs estimated} = 0.88 and 0.86). However, the precision and accuracy of estimates were influenced by plant species, the location of damage, and estimation method. Inexperienced individuals also overestimated low levels of damage, and this bias decreased with experience. Digital methods were precise (R² = 0.98) whereas accuracy was statistically indistinguishable from visual methods (slope = 0.91). 5. Visual estimates of damage provide the fastest and most cost‐effective method for quantifying herbivory, and our results show they can be precise and accurate. We use our results to provide specific recommendations for future research.     

Development and mapping of a public reference set of SSR markers in Lolium perenne L.

We report on the characterization and mapping of 76 simple sequence repeat (SSR) markers for Lolium perenne. These markers are publicly available or obtained either from genomic libraries enriched for SSR motifs or L. perenne expressed sequence tag (EST) clones. Four L. perenne mapping populations were used to map the SSR markers. A consensus linkage map of the four mapping populations containing 65 of the SSR markers is presented, together with primer information and a quality score indicating the usefulness of the SSR marker in different populations. The SSR markers identified all seven L. perenne linkage groups.     

Reappraisal of the ill-defined Liassic pteridosperm Dichopteris using an ultrastructural approach

This review of the genus Dichopteris De Zigno is based on the original fossil specimens collected from the Lower Jurassic of the Grey Limestones of Veneto (Northern Italy). The cuticular diagnosis of the genus is emended and only Dichopteris visianica De Zigno is retained within the genus. In addition, transverse and longitudinal sections of cuticles examined using a transmission electron microscope (TEM) indicate close similarities between D. visianica and other pteridosperm cuticles, especially the occurrence of granules arranged in areas of different densities in the epidermal cells and stomatal apparatus. Moreover, the dichotomy and the impressive size of the frond of D. visianica imply a specific architecture with a typical arrangement of the pinnae and pinnules. They preclude an herbaceous habit for the plant. Finally, architectural, microstructural and ultrastructural observations are consistent with palaeoclimatic and palaeoenvironmental data, and most probably support an understorey habit for D. visianica .  © 2005 The Linnean Society of London, Botanical Journal of the Linnean Society , 2005, 149 , 313–332.