The influence of landscape on gene flow in the eastern massasauga rattlesnake (Sistrurus c. catenatus): insight from computer simulations

Understanding how gene flow shapes contemporary population structure requires the explicit consideration of landscape composition and configuration. New landscape genetic approaches allow us to link such heterogeneity to gene flow within and among populations. However, the attribution of cause is difficult when landscape features are spatially correlated, or when genetic patterns reflect past events. We use spatial Bayesian clustering and landscape resistance analysis to identify the landscape features that influence gene flow across two regional populations of the eastern massasauga rattlesnake, Sistrurus c. catenatus. Based on spatially explicit simulations, we inferred how habitat distribution modulates gene flow and attempted to disentangle the effects of spatially confounded landscape features. We found genetic clustering across one regional landscape but not the other, and also local differences in the effect of landscape on gene flow. Beyond the effects of isolation‐by‐distance, water bodies appear to underlie genetic differentiation among individuals in one regional population. Significant effects of roads were additionally detected locally, but these effects are possibly confounded with the signal of water bodies. In contrast, we found no signal of isolation‐by‐distance or landscape effects on genetic structure in the other regional population. Our simulations imply that these local differences have arisen as a result of differences in population density or tendencies for juvenile rather than adult dispersal. Importantly, our simulations also demonstrate that the ability to detect the consequences of contemporary anthropogenic landscape features (e.g. roads) on gene flow may be compromised when long‐standing natural features (e.g. water bodies) co‐exist on the landscape.     

Pasture intensification is insufficient to relieve pressure on conservation priority areas in open agricultural markets

Agricultural expansion is a leading driver of biodiversity loss across the world, but little is known on how future land‐use change may encroach on remaining natural vegetation. This uncertainty is, in part, due to unknown levels of future agricultural intensification and international trade. Using an economic land‐use model, we assessed potential future losses of natural vegetation with a focus on how these may threaten biodiversity hotspots and intact forest landscapes. We analysed agricultural expansion under proactive and reactive biodiversity protection scenarios, and for different rates of pasture intensification. We found growing food demand to lead to a significant expansion of cropland at the expense of pastures and natural vegetation. In our reference scenario, global cropland area increased by more than 400 Mha between 2015 and 2050, mostly in Africa and Latin America. Grazing intensification was a main determinant of future land‐use change. In Africa, higher rates of pasture intensification resulted in smaller losses of natural vegetation, and reduced pressure on biodiversity hotspots and intact forest landscapes. Investments into raising pasture productivity in conjunction with proactive land‐use planning appear essential in Africa to reduce further losses of areas with high conservation value. In Latin America, in contrast, higher pasture productivity resulted in increased livestock exports, highlighting that unchecked trade can reduce the land savings of pasture intensification. Reactive protection of sensitive areas significantly reduced the conversion of natural ecosystems in Latin America. We conclude that protection strategies need to adapt to region‐specific trade positions. In regions with a high involvement in international trade, area‐based conservation measures should be preferred over strategies aimed at increasing pasture productivity, which by themselves might not be sufficient to protect biodiversity effectively.     

Developmental Dynamics and G-Matrices: Can Morphometric Spaces be Used to Model Phenotypic Evolution?

Modern morphometrics, especially geometric morphometrics, is a powerful tool for modeling the evolution and development of the phenotype. Complicated morphological transformations can be simulated by using standard evolutionary genetic equations for processes such as selection and drift in the same morphospaces that are used for empirical morphometric studies. Such applications appear to be consistent with the theory of quantitative evolution of the phenotype. Nevertheless, concerns exist whether simulations of phenotypic changes directly in morphospaces is realistic because trajectories traced in such spaces describe continuous gradations in the phenotype and because the gain and loss of structures is often impossible because morphospaces are necessarily constructed from variables shared in common by all the phenotypes being considered. Competing models of phenotypic change emphasize morphological discontinuity and novelty. Recently developed models of phenotypic evolution that introduce a “phenotypic landscape” between evolutionary genetic constructs like the adaptive landscape and morphospace may correct this shortcoming.     

天然片断生境中山姜(Alpinia japonica)种群遗传结构

理论和实验研究表明片断化是导致生物多样性丧失的主要因素之一,但有关研究基本上集中在人类活动引发的片断化生境体系中.由于长期气候变化以及地形等因素的影响,一些物种的种群之间天然情况下就存在隔离,对这些种群进行研究可以弥补人类活动引起的片断化体系经历时间较短的不足.山姜是一个喜湿耐荫的多年生植物,分布在热带亚热带地区,由于气候和地形原因,该物种在浙江东部呈现天然片断化状态,如在浙江天童森林公园及其周边地区,仅分布在少数几个沟谷中.以这些种群为对象,采用RAPD标记分析经历长期天然片断化山姜种群遗传多样性程度和遗传分化格局.7条RAPD引物获得了69个位点,其中多态位点68个.种群水平遗传多样性较高,多态位点百分比、期望杂合度和Shannon多样性指数分别为78.81%～85.51%、0.3170～0.3430、0.4560～0.4914,这与其异交的繁殖方式有关,同时与山姜克隆生长,每个世代维持的时间长,种群更新降低也有关系.遗传变异大多分配在种群内,但种群间遗传分化达到显著程度,ΦST为0.297,计算的基因流中等,为0.592,不足以克服长期遗传漂变导致的种群分化,Mantel检验表明遗传距离与空间距离不存在相关关系,显示了长期片断化状态下遗传漂变的作用.     

Modelling riparian forest distribution and composition to entire river networks

Aim: Developing a methodology to map the distribution of riparian forests to entire river networks and determining the main environmental factors controlling their spatial patterns. Location: Cantabrian region, northern Spain. Methods: We mapped the riparian forests at a physiognomic and phytosociological level by delimiting riparian zones and generating vegetation distribution models based on remote sensing data (Landsat 8 OLI and LiDAR PNOA). We built virtual watersheds to define a spatial framework where the catchment environmental information can be specified for each river reach, in combination with the vegetation map. In order to determine the drivers that play a significant role in the observed spatial patterns in riparian forests, based on our data sets we modelled interactions between environmental information and riparian vegetation by using the Random Forest algorithm. Results: The modelling results obtained reliably reproduced the variation of riparian forest structure and composition across Cantabrian watersheds. The produced maps were highly accurate, with a more than 70% overall accuracy for forest occurrence. A clear differentiation between Eurosiberian (habitats 91E0 and 9160) and Mediterranean (92E0) riparian forests was shown on both sides of the mountain range. Topography and land use were the main drivers defining the distribution of riparian forest as a physiognomic unit. In turn, altitude, climate and percentage of pasture were the most relevant factors determining their composition (phytosociological approach). Conclusions: Our study confirms that anthropic control ultimately defines the distribution of vegetation in the riparian area at a regional to local scale. Human disturbances constrain the extension of forest patches across their potential distribution defined by topoclimatic boundaries, which establish a clear limit between Mediterranean and Eurosiberian biogeographical regions.     

Comparisons of P-Yield,Riparian Buffer Strips,and Land Cover inSix Agricultural Watersheds

Riparian buffer strips may protect streams from phosphorus (P) pollution. We compared 2 years of daily P-yield (μg m⁻² day⁻¹) from six southeast Wisconsin watersheds with contrasting riparian buffer attributes. Of the variables measured, mean daily P-yield was most closely correlated with the variability in riparian patch size. Variability in P-yield was most closely correlated with characteristics of the riparian buffer, such as percent wetland land cover, riparian continuity, and stream sinuosity. During the most extreme events, mean P-yield was negatively correlated with the percentage of wetland land cover in the upland watershed. Correlations suggest that riparian continuity may influence P-loading in these watersheds. Our results corroborate the importance of continuity and uniformity of riparian buffers as moderators of P flow from upland agricultural lands into streams. Received 1 June 2001; accepted 5 February 2002.     

Picking up the pieces: a biosphere reserve framework for a fragmented landscape – The Coastal Lowlands of the Western Cape, South Africa

The coastal lowlands of the Western Cape (CLWC) form part of the fynbos biome, an area renowned for its high levels of plant diversity and endemism. The vegetation of the CLWC has been severely reduced and fragmented, and is currently impacted on by agricultural, pastoral, coastal resort and urban development, as well as alien plant spread. Furthermore, most of the vegetation communities are under-represented within existing protected areas. In response to this urgent need for increased conservation efforts, an initiative to establish a UNESCO-MAB biosphere reserve in the area has been launched. The aim of this project was to use biological criteria to identify areas that could potentially contain the core areas and buffer zones of a biosphere reserve. A reserve selection algorithm was chosen which provides a flexible tool for selecting representative areas for protection. The algorithm is a step-wise heuristic, which has rules for including mandatory polygons, forcing adjacency, including desirable (e.g. Red Data Book plant species) and excluding undesirable features (e.g. bisection by major roads). Farm boundaries (cadastral units) were used as selection units, resulting in a total of 1717 parcels. The selection process was conducted three times with target areas set at 10%, 25% and 50% of the original extent of each vegetation type within the study area. Areas of 62834 ha, 121199 ha and 242397 ha, respectively, or 36% 49% and 76% of the available land in the study area being selected. It is recommended that the area identified as the 50% target area be considered the future site of core areas and buffer zones for the proposed biosphere reserve. The algorithm successfully maintained a high degree of connectivity between selected areas. This is important considering the high levels of plant beta diversity associated with edaphic gradients. Rather than presenting a definitive reserve system, this study provides a tool allowing biological criteria to be included explicitly within the negotiation process. As the biosphere reserve is assembled, priorities can be re-assessed.     

Computational proteomics of biomolecular interactions in the sequence and structure space of the tyrosine kinome: deciphering the molecular basis of the kinase inhibitors selectivity

Understanding and predicting the molecular basis of protein kinases specificity against existing therapeutic agents remains highly challenging and deciphering this complexity presents an important problem in discovery and development of effective cancer drugs. We explore a recently introduced computational approach for in silico profiling of the tyrosine kinases binding specificity with a class of the pyrido-[2,3-d]pyrimidine kinase inhibitors. Computational proteomics analysis of the ligand-protein interactions using parallel simulated tempering with an ensemble of the tyrosine kinases crystal structures reveals an important molecular determinant of the kinase specificity. The pyrido-[2,3-d]pyrimidine inhibitors are capable of dynamically interacting with both active and inactive forms of the tyrosine kinases, accommodating structurally different kinase conformations with a similar binding affinity. Conformational tolerance of the protein tyrosine kinases binding with the pyrido[2,3-d]pyrimidine inhibitors provides the molecular basis for the broad spectrum of potent activities and agrees with the experimental inhibition profiles. The analysis of the pyrido[2,3-d]pyrimidine sensitivities against a number of clinically relevant ABL kinase mutants suggests an important role of conformational adaptability of multitargeted kinase inhibitors in developing drug resistance mechanisms. The presented computational approach may be useful in complementing proteomics technologies to characterize activity signatures of small molecules against a large number of potential kinase targets.     

Multi-scale habitat selection and foraging ecology of the eurasian hoopoe (<Emphasis Type="Italic">Upupa epops</Emphasis>) in pine plantations

Bird conservation can be challenging in landscapes with high habitat turnover such as planted forests, especially for species that require large home ranges and juxtaposition of different habitats to complete their life cycle. The eurasian hoopoe (Upupa epops) has declined severely in western Europe but is still abundant in south-western France. We studied habitat selection of hoopoes in pine plantation forests using a multi-scale survey, including point-counts at the landscape level and radio-tracking at the home-range scale. We quantified habitat use by systematically observing bird behaviour and characterized foraging sites according to micro-habitat variables and abundance of the main prey in the study area, the pine processionary moth (Thaumetopoea pityocampa). At the landscape scale, hoopoes selected habitat mosaics of high diversity, including deciduous woods and hedgerows as main nesting sites. At the home-range scale, hoopoes showed strong selection for short grassland vegetation along sand tracks as main foraging habitats. Vegetation was significantly shorter and sparser at foraging sites than random, and foraging intensity appeared to be significantly correlated with moth winter nest abundance. Hoopoe nesting success decreased during the three study years in line with processionary moth abundance. Thus, we suggest that hoopoes need complementation between foraging and breeding habitats to establish successfully in pine plantations. Hoopoe conservation requires the maintenance of adjacent breeding (deciduous woods) and foraging habitats (short swards adjacent to plantation edges), and consequently depends on the maintenance of habitat diversity at the landscape scale.