Spatially-Explicit Estimation of Geographical Representation in Large-Scale Species Distribution Datasets

Much ecological research relies on existing multispecies distribution datasets. Such datasets, however, can vary considerably in quality, extent, resolution or taxonomic coverage. We provide a framework for a spatially-explicit evaluation of geographical representation within large-scale species distribution datasets, using the comparison of an occurrence atlas with a range atlas dataset as a working example. Specifically, we compared occurrence maps for 3773 taxa from the widely-used Atlas Florae Europaeae (AFE) with digitised range maps for 2049 taxa of the lesser-known Atlas of North European Vascular Plants. We calculated the level of agreement at a 50-km spatial resolution using average latitudinal and longitudinal species range, and area of occupancy. Agreement in species distribution was calculated and mapped using Jaccard similarity index and a reduced major axis (RMA) regression analysis of species richness between the entire atlases (5221 taxa in total) and between co-occurring species (601 taxa). We found no difference in distribution ranges or in the area of occupancy frequency distribution, indicating that atlases were sufficiently overlapping for a valid comparison. The similarity index map showed high levels of agreement for central, western, and northern Europe. The RMA regression confirmed that geographical representation of AFE was low in areas with a sparse data recording history (e.g., Russia, Belarus and the Ukraine). For co-occurring species in south-eastern Europe, however, the Atlas of North European Vascular Plants showed remarkably higher richness estimations. Geographical representation of atlas data can be much more heterogeneous than often assumed. Level of agreement between datasets can be used to evaluate geographical representation within datasets. Merging atlases into a single dataset is worthwhile in spite of methodological differences, and helps to fill gaps in our knowledge of species distribution ranges. Species distribution dataset mergers, such as the one exemplified here, can serve as a baseline towards comprehensive species distribution datasets.     

Distribution of phytoecdysteroids in the Caryophyllaceae

Certain genera within the Caryophyllaceae (especially Silene and Lychnis) have received a significant amount of attention with regard to the isolation and identification of ecdysteroids. However, the taxonomy of this family is difficult. Hence, the occurrence of phytoecdysteroids in members of the Caryophyllaceae is presented, and combined with new data on ecdysteroid agonist (phytoecdysteroid) and antagonist activities, in order to survey the distribution of phytoecdysteroid-containing species within this large family, and to assess the utility of phytoecdysteroids as chemotaxonomic markers. The new data presented (representing ca. 110 species) have been obtained by the application of sensitive biological/biochemical methods for the detection of ecdysteroid agonists and antagonists, using Drosophila melanogaster B(II) bioassay and ecdysteroid-specific immunoassays. In the antagonist version of the B(II) bioassay, only weak ecdysteroid antagonist activities were detected in a few of the extracts. From both new and previously available data, it was found that phytoecdysteroids were present predominantly in the Genera Lychnis, Petrocoptis, Sagina and Silene. Comparison of ecdysteroid occurrence with a molecular phylogeny for the tribe Sileneae [Taxon 44 (1995) 525] revealed close association of ecdysteroid occurrence with certain groups of this tribe. In 14 species of Silene examined, there is a reasonable, but not absolute, relationship between the presence of ecdysteroids in the seeds and in other plant parts. Where ecdysteroids are present in the plant, highest concentrations are generally present in the roots.     

Vertical Distribution of Three Namatode Species in Relation to Certain Soil Properties

Population densities of Belonolaimus longicaudatus, Pratylenchus brachyurus, and Trichodorus christiei were determined from soil samples taken weekly in Tifton, Georgia during a 14-month period (except for April and May) at 15-cm increments to a depth of 105 cm. Belonolaimus longicaudatus predominately inhabited the top 30 cm of soil that was 87-88% sand, 6-7% silt, and 5-7% clay. No specimens were found below 60 cm where the soil was 76-79% sand, 5-6% silt, and 15-19% clay. Highest population densities occurred during June through September when temperature in the top 30 cm of soil was 22-25 C and soil moisture was from 9 to 20% by volume. Pratylenchus brachyurus was found at all depths, but population densities were greatest 45-75 cm deep where the soil was 78-79% sand, 6% silt, and 15-16% clay. In the months monitored, highest population densities occurred during March, June, and December when the soil temperature 45-75 cm deep was 14-17 C and soil moisture was 22-42%. Trichodorus christiei was found at all depths, but population densities were highest 30 cm deep where the soil was 83% sand, 5% silt, and 12% clay. Highest population densities occurred during December through March when the soil temperature 30 cm deep was 11-17 C and soil moisture was 18-23%.     

三种北极石竹科植物中的环肽及石竹科环肽的化学分类和分布意义

用HPLC等现代分离技术,从各样少于100g的北极3种石竹科(Caryophyllaceae)植物StellariacrassipesHult.、CerastiumarcticumLange和C.regeliiOstenf.中分得5个新环肽,分别命名为arcticuminA(1)、arcticuminB(2)、arcticuminC(3)、regelinA(4)和crassipinB(5),并通过FAB -MS和氨基酸组成分析初步鉴定了它们的结构;通过对北极石竹科环肽与青藏高原石竹科环肽的比较,证明了环肽是石竹科的特征成分以及北极地区是石竹科植物分布中心的一个区域。     

Germination of Species of Labiatae in Response to Gibberellins

Gibberellic acid at between 1 and 1000 mg/1 was used to treat fruits of different Labiatae species kept at an unfavourable temperature for normal germination (25°C). Germination requirements were diverse, but all germinated in response to gibberellic acid. Minimum effective concentrations varied widely from 1 mg/1 with Salvia glutinosa up to 1000 mg/1 with Lycopus europaeus and Scutetlaria galericulata.
When species were tested under conditions in which a proportion of the fruits germinated naturally the results suggested that, even under marginal conditions, relatively high concentrations of gibberellic acid were required to promote germination, although hypocotyl extension in each of the species responded to much lower levels (0.1 mg/1).
Treatments applied to fruits of Lycopus europaeus and two Galeopsis species showed that modifications to the physical conditions of the test, such as light and temperature, produced only small changes in response to gibberellic acid. This effect was found even when situations in which a proportion of seeds germinated without gibberellin treatment were compared with conditions extremely unfavourable for germination.
Comparisons of the effects of gibberellic acid (A3) and gibberellin A4 suggested that the latter promoted germination at approximately one hundred times the dilution of the former when tested on Lycopus europaeus and Galeopsis pyrenaica.     

Ecophysiology of Wetland Plant Roots: A Modelling Comparison of Aeration in Relation to Species Distribution

This study examined the potential for inter-specific differencesin root aeration to determine wetland plant distribution innature. We compared aeration in species that differ in the typeof sediment and depth of water they colonize. Differences inroot anatomy, structure and physiology were applied to aerationmodels that predicted the maximum possible aerobic lengths anddevelopment of anoxic zones in primary adventitious roots. Differencesin anatomy and metabolism that provided higher axial fluxesof oxygen allowed deeper root growth in species that favourmore reducing sediments and deeper water. Modelling identifiedfactors that affected growth in anoxic soils through their effectson aeration. These included lateral root formation, which occurredat the expense of extension of the primary root because of theadditional respiratory demand they imposed, reducing oxygenfluxes to the tip and stele, and the development of stelar anoxia.However, changes in sediment oxygen demand had little detectableeffect on aeration in the primary roots due to their low wallpermeability and high surface impedance, but appeared to reduceinternal oxygen availability by accelerating loss from laterals.The development of pressurized convective gas flow in shootsand rhizomes was also found to be important in assisting rootaeration, as it maintained higher basal oxygen concentrationsat the rhizome–root junctions in species growing intodeep water. Copyright 2000 Annals of Botany Company Aeration, diffusion, ecophysiology, flooding, model, oxygen, respiration, root, wetland     

Relation between Water Balance and Climatic Variables Associated with the Geographical Distribution of Anurans

Amphibian species richness increases toward the equator, particularly in humid tropical forests. This relation between amphibian species richness and environmental water availability has been proposed to be a consequence of their high rates of evaporative water loss. In this way, traits that estimate water balance are expected to covary with climate and constrain a species’ geographic distribution. Furthermore, we predicted that coexisting species of anurans would have traits that are adapted to local hydric conditions. We compared the traits that describe water balance in 17 species of anurans that occur in the mesic Atlantic Forest and xeric Cerrado (savannah) habitats of Brazil. We predicted that species found in the warmer and dryer areas would show a lower sensitivity of locomotor performance to dehydration (SLPD), increased resistance to evaporative water loss (REWL) and higher rates of water uptake (RWU) than species restricted to the more mesic areas. We estimated the allometric relations between the hydric traits and body mass using phylogenetic generalized least squares. These regressions showed that REWL scaled negatively with body mass, whereas RWU scaled positively with body mass. Additionally, species inhabiting areas characterized by higher and more seasonally uniform temperatures, and lower and more seasonally concentrated precipitation, such as the Cerrado, had higher RWU and SLPD than species with geographical distributions more restricted to mesic environments, such as the Atlantic Forest. These results support the hypothesis that the interspecific variation of physiological traits shows an adaptation pattern to abiotic environmental traits.     

The Relation of Germination of Wheat to Water Potential

The relation of moisture potential to the germination of wheatwas studied by supplying water to the seeds in the vapour phase,at controlled relative humidities. An apparatus for this purposeand a method of attaining the necessary precise control of temperatureare described. The critical level of moisture potential at which germinationis completely inhibited was not reached. Even when, as a resultof infection, the duration of the experiments was limited to20 days, up to 20 per cent, of the seeds germinated at a potentialof –320 metres of water or a pF of 4.5. This is considerablydrier than Permanent Wilting Point, which is represented bya potential of –160 metres of water, or pF 4.2. Thereis a marked effect of moisture potential on the time taken togerminate, as times of emergence varied from 2 to over 20 daysover a range of potentials of from zero to –320 metresof water, but it is probable that very little further germinationwould have occurred after 15 days had not fungal infection enabledthe seeds to obtain liquid water by bridging the air-gap betweenseed and water source. This infection is probably responsiblefor the reduction in viability of the seeds at the lower potentials,as there is an indication that under conditions where germinationis postponed considerably, seeds exhibit a reduced germinatingcapacity probably due to an increased susceptibility to infection. The failure of some individual seeds to germinate at potentialswhich allow other seeds to germinate is not due to failure toattain a critical moisture content. In soil, the percentage germination at low potentials is similarto that observed without soil, but the reduction in the totalgerminating capacity, or viability, after 20 days is not asgreat, and this is probably due to the reduced incidence ofvisible infection observed under these conditions.     

Species diversity,endemism and conservation of the family Caryophyllaceae in Greece

The family Caryophyllaceae includes world-wide 86 genera and approximately 2100 species. Greece is one of its most important centres of diversity and endemism. A total of 428 Caryophyllaceae taxa are distributed in Greece, 161 of them being endemic to the Greek political territory. The endemic element represents approximately 5% of the global diversity of the family at the species level. The aim of this paper is to discuss the distribution patterns of the Greek endemic Caryophyllaceae, as well as those with a limited distribution range to the neighbouring areas of the Balkans and Anatolia, on the basis of the phytogeographical regions of Greece in order to identify the important regions for their conservation. The majority of the Greek endemic Caryophyllaceae (64.6%) are distributed in only one single phytogeographical region, or even a smaller area indicating the extremely restricted distribution ranges of the endemic plants in Greece. Actually 83 Greek endemic Caryophyllaceae can be grouped on cytotaxonomic criteria. Most of them belong to the category of schizoendemics (91.6%), indicating that the endemism of Caryophyllaceae in Greece has mainly originated in an active way. Cluster analysis has been used to classify the phytogeographical regions according to their floristic similarities. Two iterative complementarity methods were used to evaluate the importance of each phytogeographical region in the conservation of the endemic Caryophyllaceae in Greece. Peloponnisos, Kriti-Karpathos and Sterea Ellas are the most important phytogeographical regions in this respect, followed by North Central and North East. When adding the Balkan-Aegean-Anatolian endemics to the analysis, Peloponnisos, North Central, Kriti-Karpathos, North East and Eastern Aegean result as the most important areas. In every case, an elevated number of sites are required for the conservation of Caryophyllaceae in Greece, reflecting the great dissimilarities in the floristic composition of the various phytogeographical regions. The results provided by the different methods are compared. A catalogue of the Greek endemic Caryophyllaceae is appended.     

Spatio-Temporal Distribution of Freshwater Snail Species in Relation to Migration and Environmental Factors in an Irrigated Area from Morocco

Nine sites were sampled 19 times over 2 years in an irrigation system in Morocco in order to study species abundance in a snail community in relation to environmental parameters (including human activities) and migration (geographic distance) among sites. Each site was made of a sink and the first meters of the downstream canal. The snail community included four species (Bulinus truncatus, Lymnaea truncatula, Mercuria similis and Physa acuta). Strong spatial variation in species occurrence and abundance was detected which might be partly due to variation in water availability. However abundance in sinks and canals in which water availability differs were correlated. There was, as predicted, limited evidence in favor of isolation by distance which might be due to fast water current. Dispersal might therefore be an important factor structuring this community. On the other hand, the temporal variation was much more limited. This is consistent with the analysis of individual size distributions in B. truncatus, since no clear-cut cohorts were detected. The environmental parameters recorded (e.g. temperature, occurrence of macrophytes or cleaning of sinks) were extremely variable in time and space, except temperature. Analyzing their association with species through multidimensional methods indicated that P. acuta is ubiquitous and B. truncatus positively associated with macrophytes. These two species were associated in sinks. Less clear trends were detected for the two other species. Annual cleaning of sinks affected all species, but population recovery was fast in B. truncatus and P. acuta.     

Geographical Distribution of Testate Amoebae in Tibet and Northwestern Yunnan and their Relationships with Climate

In Asia, especially in China, our knowledge of the distribution of testate amoebae is still limited. In this paper, the geographical distribution of testate amoebae in Tibetan Plateau and northwestern Yunnan Plateau, southwest China and their relationships with the climatic factors have been studied. We found testate amoebae shifted in the most dominant species and increased in species (or genus) richness from northwest to southeast. Further, the linear regression analyses revealed that both species richness and genus richness have higher positive correlations with the mean temperature of the warmest month and annual mean precipitation as contrasted with the mean altitude, which showed weak negative correlation. This indicates that the temperature and precipitation are more significant influences on the richness than the altitude. The cluster analysis based on the community structure, defined by Sørenson’s coefficient matrix, suggested four groups from the 10 physiographical regions. This geographical distribution pattern was also closely related with the climatic regionalization. The present climatic regionalization pattern of the study area originated from the uplift of Tibetan Plateau and mainly occurred in or after the late Pleistocene. Therefore, the geographical distribution of testate amoebae in our study area may have experienced complicated and drastic changes corresponding to the variation of the climate caused by the geological events.     

Marginal Likelihood Estimate Comparisons to Obtain Optimal Species Delimitations in Silene sect. Cryptoneurae (Caryophyllaceae)

Coalescent-based inference of phylogenetic relationships among species takes into account gene tree incongruence due to incomplete lineage sorting, but for such methods to make sense species have to be correctly delimited. Because alternative assignments of individuals to species result in different parametric models, model selection methods can be applied to optimise model of species classification. In a Bayesian framework, Bayes factors (BF), based on marginal likelihood estimates, can be used to test a range of possible classifications for the group under study. Here, we explore BF and the Akaike Information Criterion (AIC) to discriminate between different species classifications in the flowering plant lineage Silene sect. Cryptoneurae (Caryophyllaceae). We estimated marginal likelihoods for different species classification models via the Path Sampling (PS), Stepping Stone sampling (SS), and Harmonic Mean Estimator (HME) methods implemented in BEAST. To select among alternative species classification models a posterior simulation-based analog of the AIC through Markov chain Monte Carlo analysis (AICM) was also performed. The results are compared to outcomes from the software BP&P. Our results agree with another recent study that marginal likelihood estimates from PS and SS methods are useful for comparing different species classifications, and strongly support the recognition of the newly described species S. ertekinii.