Habitat use of urban Tree Sparrows in the process of urbanization: Beijing as a case study

The Tree Sparrow (Passer montanus) is a dominant species in urban bird communities. With the development of urbanization, the habitats and sources of food for Tree Sparrows are decreasing. Can the urban Tree Sparrow adapt to changes in the urban environment? To answer this question, we studied the habitat use of Tree Sparrows in eight types of urban areas in Beijing. The results show that the number of both breeding and wintering Tree Sparrows decreased with increasing urbanization. The habitat use of Tree Sparrows, analyzed using stepwise discriminant analysis, was positively correlated with the number of brick bungalows, coniferous and broad-leaved trees and air conditioners. It was negatively correlated with the area of high buildings and hardened roads, pedestrian and automobile flux. This indicates that the Tree Sparrow had not adapted to rapid urbanization even though it is a generally adaptable species. Urban planning should take birds such as the Tree Sparrow into consideration. __________ Translated from Biodiversity Science, 2006, 14(5): 372–381 [译自:生物多样性]     

Modelling the hydro-geochemistry of acid-sensitive catchments in Finland under atmospheric deposition and biomass harvesting scenarios

The dynamic hydro-geochemical Model of Acidification of Groundwater in Catchments (MAGIC) was used to predict the response of 163 Finnish lake catchments to historic and future atmospheric deposition (1880–2100) and future tree harvesting practices. Deposition was assumed to follow current legislated European emission reduction policies (CLe) and a scenario based on maximum (technically) feasible reductions (MFR). Future harvesting was assumed to shift from stem-only harvesting (SOH) to whole-tree harvesting (WTH) owing to the potential increased utilisation of biofuels. Despite the modest changes in atmospheric deposition under CLe (compared to current day), these reductions are predicted to halt the decline in soil base saturation; however, further reductions are required to improve soil and lake water chemistry. The MFR scenario predicted a significant long-term improvement in soil base saturation leading to continued long-term recovery in surface waters (all lakes with ANC > 0 by 2100). However under the WTH scenario, significant long-term impacts (re-acidification) were predicted for soil and surface water chemistry (14 lakes with ANC < 0 by 2100). To some extent the long-term negative impacts were reduced under MFR, indicating that increased utilisation of biofuels will necessitate ‘trading emissions for timber’, or soil amendment, to maintain ecosystem quality and sustainable forest growth. The current practice of SOH is close to the sustainable maximum harvesting under current (legislated) atmospheric deposition in Finland.     

Vegetation control effects on untreated wood,crude cellulose and holocellulose δ<Superscript>13</Superscript>C of early and latewood in 3- to 5-year-old rings of Douglas-fir

The stable carbon (C) composition of tree rings expressed as δ¹³C, is a measure of intrinsic water-use efficiency and can indicate the occurrence of past water shortages for tree growth. We examined δ¹³C in 3- to 5-year-old rings of Douglas-fir (Pseudotsuga menziesii (Mirb) Franco) trees to elucidate if decreased water supply or uptake was a critical factor in the observed growth reduction of trees competing with understory herb and shrub vegetation compared to those growing without competition. We hypothesized that there would be no differences in δ¹³C of earlywood in trees growing in plots with competing vegetation and those in plots receiving complete vegetation control during 5 years because earlywood formed early in the growing season when soil water was ample. We also hypothesized that δ¹³C in latewood which was formed during the later half of the growing season when precipitation was low, would be greater (less negative) in trees in plots without vegetation control. We then separated early and latewood from rings for three consecutive years and analyzed their δ¹³C composition. No significant differences in earlywood δ¹³C in years 3–5 were observed for trees in the two vegetation control treatments. δ¹³C of untreated latewood separated from wood cores was greater in 4- and 5-year-old rings of trees growing with competing vegetation compared to trees growing without vegetation competition (i.e., −25.5 vs. −26.3‰ for year 4, and −26.1 vs. −26.8‰ for year 5). Results suggest that water shortages occurred in Douglas-fir trees on this coastal Washington site in the latewood-forming portion of the growing season of years 4 and 5 in the no-vegetation control treatment. We also compared δ¹³C from untreated wood, crude cellulose extracted with the Diglyme–HCl method, and holocellulose extracted with toluene–ethanol to see if the extraction method would increase the sensitivity of the analysis. δ¹³C values from the two extraction methods were highly correlated with those from untreated samples (r ² = 0.97, 0.98, respectively). Therefore, using untreated wood would be as effective as using crude cellulose or holocellulose to investigate δ¹³C patterns in young Douglas-fir.     

Long-term changes in tree-ring–climate relationships at Mt. Patscherkofel (Tyrol,Austria) since the mid-1980s

Although growth limitation of trees at Alpine and high-latitude timberlines by prevailing summer temperature is well established, the loss of thermal response of radial tree growth during last decades has repeatedly been addressed. We examined long-term variability of climate–growth relationships in ring width chronologies of Stone pine (Pinus cembra L.) by means of moving response functions (MRF). The study area is situated in the timberline ecotone (ca. 2,000–2,200 m a.s.l.) on Mt. Patscherkofel (Tyrol, Austria). Five site chronologies were developed within the ecotone with constant sample depth (≥19 trees) throughout most of the time period analysed. MRF calculated for the period 1866–1999 and 1901–1999 for ca. 200- and ca. 100-year-old stands, respectively, revealed that mean July temperature is the major and long-term stable driving force of Pinus cembra radial growth within the timberline ecotone. However, since the mid-1980s, radial growth in timberline and tree line chronologies strikingly diverges from the July temperature trend. This is probably a result of extreme climate events (e.g. low winter precipitation, late frost) and/or increasing drought stress on cambial activity. The latter assumption is supported by a <10% increase in annual increments of ca. 50-year-old trees at the timberline and at the tree line in 2003 compared with 2002, when extraordinary hot and dry conditions prevailed during summer. Furthermore, especially during the second half of the twentieth century, influence of climate variables on radial growth show abrupt fluctuations, which might also be a consequence of climate warming on tree physiology.     

Age-dependent tree-ring growth responses to climate in Qilian juniper (Sabina przewalskii Kom.)

Qilian juniper (Sabina przewalskii kom.) is one of the dominant tree species on Qinghai-Tibetan Plateau and has been used in dendroclimatological studies. Here we designed a test to examine whether or not the climate–growth responses in tree rings of Qilian Juniper vary with the change in tree's age. A total number of 135 increment cores were sampled from Qilian Juniper trees at five sites, in which 112 cores were selected and grouped into five 100-year age classes for analysis of age-dependent climate–growth relationships. Chronology statistics, response functions and ANOVA F-test were used to test the consistency of five age-class mean chronologies (AGCs). The results showed that mean sensitivity (MS) and standard deviation (SD) did not change significantly with age. Response function analysis indicated that (a) climate accounts for a high amount of variance in tree-ring widths; (b) tree-ring growth has significant positive correlation with mean monthly air temperature of previous October and November, and with total monthly precipitation of current January and June, while has significant negative correlation with mean monthly air temperature of current May; and (c) AGC-2, AGC-3 and AGC-4 have stronger response to climate change than AGC-1 and AGC-5. The ANOVA F-test showed that generally there are significant differences between the first age class and other four age classes, but among the four classes in which trees are older than 200 years, the differences are usually insignificant. Overall the long-lived Qilian Juniper is still an ideal tree species for dendroclimatic reconstruction.     

Pollen productivity estimates of key European plant taxa for quantitative reconstruction of past vegetation: a review

Information on the spatial distribution of past vegetation on local, regional and global scales is increasingly used within climate modelling, nature conservancy and archaeology. It is possible to obtain such information from fossil pollen records in lakes and bogs using the landscape reconstruction algorithm (LRA) and its two models, REVEALS and LOVE. These models assume that reliable pollen productivity estimates (PPEs) are available for the plant taxa involved in the quantitative reconstructions of past vegetation, and that PPEs are constant through time. This paper presents and discusses the PPEs for 15 tree and 18 herb taxa obtained in nine study areas of Europe. Observed differences in PPEs between regions may be explained by methodological issues and environmental variables, of which climate and related factors such as reproduction strategies and growth forms appear to be the most important. An evaluation of the PPEs at hand so far suggests that they can be used in modelling applications and quantitative reconstructions of past vegetation, provided that consideration of past environmental variability within the region is used to inform selection of PPEs, and bearing in mind that PPEs might have changed through time as a response to climate change. Application of a range of possible PPEs will allow a better evaluation of the results.     

Rapid ab initio prediction of RNA pseudoknots via graph tree decomposition

The prediction of RNA secondary structure including pseudoknots remains a challenge due to the intractable computation of the sequence conformation from nucleotide interactions under free energy models. Optimal algorithms often assume a restricted class for the predicted RNA structures and yet still require a high-degree polynomial time complexity, which is too expensive to use. Heuristic methods may yield time-efficient algorithms but they do not guarantee optimality of the predicted structure. This paper introduces a new and efficient algorithm for the prediction of RNA structure with pseudoknots for which the structure is not restricted. Novel prediction techniques are developed based on graph tree decomposition. In particular, based on a simplified energy model, stem overlapping relationships are defined with a graph, in which a specialized maximum independent set corresponds to the desired optimal structure. Such a graph is tree decomposable; dynamic programming over a tree decomposition of the graph leads to an efficient optimal algorithm. The final structure predictions are then based on re-ranking a list of suboptimal structures under a more comprehensive free energy model. The new algorithm is evaluated on a large number of RNA sequence sets taken from diverse resources. It demonstrates overall sensitivity and specificity that outperforms or is comparable with those of previous optimal and heuristic algorithms yet it requires significantly less time than the compared optimal algorithms. The preliminary version of this paper appeared in the proceedings of the 6th Workshop on Algorithms for Bioinformatics (WABI 2006).     

Oak woodland restoration: testing the effects on biodiversity of mycetophilids in southern Sweden

The effect of harvesting biofuel and woodland restoration on biodiversity is debated. To evaluate the effects of partial cutting on more organism groups, we used pairwise experimental and undisturbed control stands in a large landscape. On average 26% of the basal area including 50–95% of the understorey was harvested at each of 15 oak-rich forest sites. Our earlier results of partial cutting suggested a positive short-term effect for vascular plants and beetles and no or minor negative effects for fungi. Here we analyse the response of mycetophilids (Diptera: Sciaroidea excl. Sciaridae), a neglected but species-rich insect group that was strongly disfavoured by clear-cutting in previous studies. Increased deadwood (slash) caused increase in the number of individuals of mycetophilids associated with wood or wood fungi. The rarefaction species numbers of mycetophilids declined after the treatment, but the absolute number of species was not affected. Our results indicate that a 25% harvest can be compatible with conservation of vascular plants, fungi, saproxylic and herbivorous beetles and mycetophilids in temperate hardwood stands of the type studied. However, more studies are needed to determine what level(s) of stand thinning can be tolerated by different taxa in landscapes with small fragmented conservation stands.     

How does forest landscape structure explain tree species richness in a Mediterranean context?

Although the strong relationship between vegetation and climatic factors is widely accepted, other landscape composition and configuration characteristics could be significantly related with vegetation diversity patterns at different scales. Variation partitioning was conducted in order to analyse to what degree forest landscape structure, compared to other spatial and environmental factors, explained forest tree species richness in 278 UTM 10 × 10 km cells in the Mediterranean region of Catalonia (NE Spain). Tree species richness variation was decomposed through linear regression into three groups of explanatory variables: forest landscape (composition and configuration), environmental (topography and climate) and spatial variables. Additionally, the forest landscape characteristics which significantly contributed to explain richness variation were identified through a multiple regression model. About 60% of tree species richness variation was explained by the whole set of variables, while their joint effects explained nearly 28%. Forest landscape variables were those with a greater pure explanatory power for tree species richness (about 15% of total variation), much larger than the pure effect of environmental or spatial variables (about 2% each). Forest canopy cover, forest area and land cover diversity were the most significant composition variables in the regression model. Landscape configuration metrics had a minor effect on forest tree species richness, with the exception of some shape complexity indices, as indicators of land use intensity and edge effects. Our results highlight the importance of considering the forest landscape structure in order to understand the distribution of vegetation diversity in strongly human-modified regions like the Mediterranean.     

Spatial and altitudinal bioclimatic zones of the Italian peninsula identified from a beech (Fagus sylvatica L.) tree-ring network

A network of 24 beech (Fagus sylvatica L.) tree-ring chronologies has been developed for the Italian peninsula. Principal component and cluster analyses were used to identify geographical and altitudinal patterns of tree growth. Correlations and response functions were then applied to the main modes of tree-ring variability to uncover climatic signals. In a landscape occupied by humans for millennia, this approach provided a detailed quantitative ecological characterization of forest types. Altitude was significantly correlated with dendrochronological parameters. The Alps and northern Apennines could be distinguished from the central-southern Apennines. In central Italy, we recognized three different vegetation belts occupied by beech forests, from low- to high-elevation sites. Summer drought impacted beech growth with different intensity at different elevations, depending on the onset and duration of the growing season. Moreover, low-elevation beech forests showed a distinct late spring climate signal, which was opposite to that of high-elevation sites. The coherent geographical and ecological patterns of tree-ring variability suggest that dendrochronological networks help define bioclimatic zones and forest types.