Comparison of the β-lactamases ofBacteroides species

-Lactam antibiotic susceptibility and the presence of -lactamase were examined in clinical strains ofBacteroides species. All strains produced a noninducible, cell-associated cephalosporinase. Based on isoelectric focusing, molecular weight determinations, substrate profiles, and inhibition studies, it was concluded that allBacteroides strains examined produced a very similar, if not identical, -lactamase in terms of these enzymatic and physical characteristics.     

Is the originality of a species measurable?

In this paper, we introduce the concept of 'originality of a species within a set' in order to indicate the average rarity of all the features belonging to this species. Using a phylogenetic tree of 70 species of New World terrestrial Carnivora, we suggest measuring the originality by a probability distribution. This maximizes the expected number of features shared by two species randomly drawn from the set. By using this new index, we take account of branch lengths whereas current indices of originality focus on tree topology. As a supplement to Nee and May's optimizing algorithm, we find that originality must be one of the criteria used in conservation planning.     

Further studies of the β-lactamases ofBacteroides species

The -lactamases of individual strains ofBacteroides fragilis, B. thetaiotaomicron, andB. melaninogenicus were examined to characterize their enzymatic activity and the relation between the periplasmic and cytoplasmic forms of the enzymes. K_m and V_max values indicate that all strains examined were very similar in terms of enzymatic activity with the antibiotics tested. Electrophoretic analysis and treatment with phospholipase D suggest the presence of a cytoplasmic form of the enzyme that is modified upon entry into the periplasmic space.     

The shape of things to come in the study of the origin of species?

Perhaps Darwin would agree that speciation is no longer the mystery of mysteries that it used to be. It is now generally accepted that evolution by natural selection can contribute to ecological adaptation, resulting in the evolution of reproductive barriers and, hence, to the evolution of new species (Schluter & Conte 2009 ; Meyer 2011 ; Nosil 2012 ). From genes that encode silencing proteins that cause infertility in hybrid mice (Mihola et al. 2009 ), to segregation distorters linked to speciation in fruit flies (Phadnis & Orr 2009 ), or pollinator‐mediated selection on flower colour alleles driving reinforcement in Texan wildflowers (Hopkins & Rausher 2012 ), characterization of the genes that drive speciation is providing clues to the origin of species (Nosil & Schluter 2011 ). It is becoming apparent that, while recent work continues to overturn historical ideas about sympatric speciation (e.g. Barluenga et al. 2006 ), ecological circumstances strongly influence patterns of genomic divergence, and ultimately the establishment of reproductive isolation when gene flow is present (Elmer & Meyer 2011 ). Less clear, however, are the genetic mechanisms that cause speciation, particularly when ongoing gene flow is occurring. Now, in this issue, Franchini et al. ( 2014 ) employ a classic genetic mapping approach augmented with new genomic tools to elucidate the genomic architecture of ecologically divergent body shapes in a pair of sympatric crater lake cichlid fishes. From over 450 segregating SNPs in an F2 cross, 72 SNPs were linked to 11 QTL associated with external morphology measured by means of traditional and geometric morphometrics. Annotation of two highly supported QTL further pointed to genes that might contribute to ecological divergence in body shape in Midas cichlids, overall supporting the hypothesis that genomic regions of large phenotypic effect may be contributing to early‐stage divergence in Midas cichlids.     

On the function of the various quinone species in Escherichia coli

The respiratory chain of Escherichia?coli contains three quinones. Menaquinone and demethylmenaquinone have low midpoint potentials and are involved in anaerobic respiration, while ubiquinone, which has a high midpoint potential, is involved in aerobic and nitrate respiration. Here, we report that demethylmenaquinone plays a role not only in trimethylaminooxide-, dimethylsulfoxide- and fumarate-dependent respiration, but also in aerobic respiration. Furthermore, we demonstrate that demethylmenaquinone serves as an electron acceptor for oxidation of succinate to fumarate, and that all three quinol oxidases of E.?coli accept electrons from this naphtoquinone derivative.     

Are invasive species the drivers of ecological change?

Invasive species are widely accepted as one of the leading direct causes of biodiversity loss. However, much of the evidence for this contention is based on simple correlations between exotic dominance and native species decline in degraded systems. Although appealing, direct causality is not the only possible interpretation. A plausible alternative hypothesis is that exotic dominance could be the indirect consequence of habitat modification driving native species loss. In a new paper, MacDougall and Turkington now provide the first direct test of whether invasive species are the drivers of community change, or merely 'passengers' along for the environmental ride.     

Dominance of Δ5-sterols in eight species of the cactaceae

The sterols from eight species in seven genera of the Cactaceae are 24-alkyl-Δ⁵-sterols. In all eight species, Echinopsis tubiflora, Pereskia aculeata, Hylocereus undatus, Notocactus scopa, Epiphyllum sp., Schlumbergera bridgesii, Opuntia comonduensis and O. humifusa, the dominant sterol is sitosterol (24α-ethylcholest-5-en-3β-ol) at 66–87% of the total sterol composition with the 24ξ-methylcholest-5-en-3β-ol present at 8–33%. Stigmasterol (24α-ethylcholesta-5,22E-dien-3β-ol) is present at 2–8% of the total sterol in P. aculeata, H. undatus, N. scopa and Epiphyllum sp. whereas cholesterol (cholest-5-en-3β-ol) is present in six species at levels of <0.1–5.0%. Avenasterol (24-ethylcholesta-7,24(28)Z-dien-3/gb-ol) and sitostanol (24α-ethyl-5α-cholestan-3β-ol) are each present in two species.     

Two species of the Rhodiola yunnanensis species complex distributed around the Sichuan Basin of China: Speciation in a ring?

A ring species consists of two reproductively isolated forms connected by a chain of intergrading populations encircling a geographic barrier. The mountains encircling the Sichuan Basin in southwestern China harbor great species diversity and endemism, and they are candidate regions for ring species. Here, we examined a potential ring species complex with a ring distribution surrounding the Sichuan Basinand the reproductive barrier between sibling species Rhodiola yunnanensis and R. henryi of the R. yunnanensis complex. In this study, we test the hypothesis that R. yunnanensis and R. henryi diverged by the ring-species model using an amplicon sequencing strategy targeting the introns of 27 single-copy nuclear genes and 14 chloroplast DNA sequences. Our studies indicated that the R. yunnanensis complex is monophyletic, originates at the late Miocene, and forms its current ring distribution pattern after the LIG. In addition, clear genetic intergradation was not found among R. henryi populations within the distribution ring. All these findings suggest that the divergence of two sibling species was not driven by the geographic isolation, and they were not originated from the ring-species model; however, the basin-surrounding distribution pattern and reproductive barrier between them meet some criteria for being a ring species.     

Are invasive species drivers of native species decline or passengers of habitat modification? A case study of the impact of the common myna (Acridotheres tristis) on Australian bird species

Habitat modification and invasive species are significant drivers of biodiversity decline. However, distinguishing between the impacts of these two drivers on native species can be difficult. For example, habitat modification may reduce native species abundance, while an invasive species may take advantage of the new environment. This scenario has been described as the driver‐passenger model, with ‘passengers’ taking advantage of habitat modification and ‘drivers’ causing native species decline. Therefore, research must incorporate both habitat modification and invasive species impact to successfully investigate native species decline. In this paper, we used the common myna (Acridotheres tristis) as a case study to investigate the driver‐passenger model. We investigated changes in bird abundance, over 2 years, in relation to different habitat types and common myna abundance. We hypothesized that the common myna is both a passenger of habitat change and a driver of some bird species decline. Our results indicated that the abundance of many native species is greater in high tree density nature reserves, while the common myna was uncommon in these areas. Common myna abundance was almost three times higher in urban areas than nature reserves and declined rapidly as tree density in nature reserves increased. Our findings indicated that the common myna is primarily a passenger of habitat change. However, we also observed negative associations between common myna abundance and some bird species. We stress the importance of simultaneously investigating both invasive species impact and habitat modification. We suggest habitat restoration could be a useful tool for both native species recovery and invasive species control. Understanding the drivers of native species decline will help inform impact mitigation and direct further research.     

Does the interpolation accuracy of species distribution models come at the expense of transferability?

Model transferability (extrapolative accuracy) is one important feature in species distribution models, required in several ecological and conservation biological applications. This study uses 10 modelling techniques and nationwide data on both (1) species distribution of birds, butterflies, and plants and (2) climate and land cover in Finland to investigate whether good interpolative prediction accuracy for models comes at the expense of transferability – i.e. markedly worse performance in new areas. Models’ interpolation and extrapolation performance was primarily assessed using AUC (the area under the curve of a receiver characteristic plot) and Kappa statistics, with supplementary comparisons examining model sensitivity and specificity values. Our AUC and Kappa results show that extrapolation to new areas is a greater challenge for all included modelling techniques than simple filling of gaps in a well‐sampled area, but there are also differences among the techniques in the degree of transferability. Among the machine‐learning modelling techniques, MAXENT, generalized boosting methods (GBM), and artificial neural networks (ANN) showed good transferability while the performance of GARP and random forest (RF) decreased notably in extrapolation. Among the regression‐based methods, generalized additive models (GAM) and generalized linear models (GLM) showed good transferability. A desirable combination of good prediction accuracy and good transferability was evident for three modelling techniques: MAXENT, GBM, and GAM. However, examination of model sensitivity and specificity revealed that model types may differ in their tendencies to either increased over‐prediction of presences or absences in extrapolation, and some of the methods show contrasting changes in sensitivity vs specificity (e.g. ANN and GARP). Among the three species groups, the best transferability was seen with birds, followed closely by butterflies, whereas reliable extrapolation for plant species distribution models appears to be a major challenge at least at this scale. Overall, detailed knowledge of the behaviour of different techniques in various study settings and with different species groups is of utmost importance in predictive modelling.     

Threatened species, a re-evaluation of the status of eight endemic plants of the Gala´pagos

Although still in relatively good condition, the Gala´pagos Archipelago suffers from increasing human pressures. Apart from direct actions like hunting and logging, endemic plants and animals are threatened by introduced species, and in many cases the present status of the populations is not known. The conservation status of eight plant species considered endangered was studied from literature and field surveys and the main threats were determined. Each of the eight species is endemic to only one island but in some cases is also present on nearby islets. Of these eight species, one is considered extinct, one critically endangered, and the others suffer various levels of threat. As in all island systems of the world, the main threats are introduced organisms, both plants and animals. The extinct species probably disappeared owing to invasion by Lantana camara, one of the most aggressively invasive plants of the islands, and the most endangered species is threatened by goats. The remaining species seem to be regenerating well and we can expect positive results from protection efforts. Today, only one of the eight species benefits from a direct protection action.     

Alien plant species distribution in the European Alps: influence of species’ climatic requirements

The paper provides the first estimate of the role of abiotic and anthropogenic variables driving both alien plant species richness and composition covering the whole region of the European Alps. To establish and spread in a new area, alien plants must be able to tolerate the prevailing climatic conditions. We therefore tested the hypothesis that climatic requirements modified by bioclimatic origin and elevational distribution influence the distribution of alien plants in the Alps. Despite most alien plant species showing a relatively restricted distribution in the Alps, some regions, however, were already more strongly invaded. Most of these species were adapted to warmer conditions, probably constrained by climatic factors. Environmental heterogeneity was the most important predictor of alien plant species richness, followed by anthropogenic disturbance. Due to the political/artificial delineation of the administrative districts in the Alps (i.e., ignoring ecological conditions) we did not find a direct influence of climatic constraints on alien distribution. Anyway, northern Holarctic alien species showed a broader climatic tolerance and the capability to grow across a wide environmental range. Our results also reveal a strong influence of human pressure on warmer tropical species, despite their low adaptability to anthropogenic habitats. To this aim, managers would profit from early warnings to prevent future invasions. Considering bioclimatic origin, our study can aid in identifying potentially invasive species in a more regional setting.     

Determinants of the steep species–area relationship of coral reef fishes

The increase in species richness with area is known as the species–area relationship (SPAR). Although several mutually non-exclusive processes may produce the SPAR, the null, often ignored, hypothesis states that a SPAR can be generated by random placement alone. The log–log-transformed SPAR of coral reef fishes on small patch-reefs revealed a steep slope of 0.55. However, this slope was dependent on the cumulative area of the reef examined and was therefore affected by random placement. After statistically removing the contribution of random placement from the SPAR, the slope was estimated to be 0.21. This is consistent with estimates from other, mostly terrestrial, systems. Furthermore, a randomization procedure, where the probability of fishes to reach a patch was proportional to reef area, showed that the field measured SPAR did not differ from random placement. In addition, fish assemblages on species poor reefs did not form subsets of species rich reefs (i.e., no nestedness) beyond that expected from random placement. Steep log–log-transformed SPARs can be formed by random placement alone, indicating that caution should be used when assigning an ecological meaning to SPARs generated from small spatial scales.     

Campanula xylocarpa — A new species of the seriesSaxicolae Witasek

In this paper, a newCampanula species is described from Eastern Slovakia. Its morphological, distributional and cytological relationships and ecological preferences are briefly discussed and affinity to the otherSaxicolae examined. The taxon is characterized by the following features: specific combination of constant morphological characters; diploid chromosome number (2n = 34); ecological specialization to the fissures of limestone and dolomitic rocks; relict occurrence in a small, sharply limited area; very late flowering. Geographically, it appears to be the northernmost representative of theSaxicolae.     

Could bacterial associations determine the success of weevil species?

The weevil superfamily Curculionoidea is the largest insect group and so the largest animal group on earth. This taxon includes species which represent an important threat to many economically important crops and, therefore, pose a risk to agriculture and food security. Insect–bacteria associations have been recognised to provide the insect host with many benefits, such as ensuring the acquisition of essential nutrients or protecting the host from natural enemies. The role of bacteria associations within the weevil superfamily remains nonetheless understudied in comparison with other insect taxa. This review draws together existing knowledge on the influence of bacteria associated with weevils known to be agricultural pest species. The implications of these weevil–bacterial associations in determining pest status and their relevance to targeted pest management interventions are discussed. Specific consideration is given to the role of bacteria in cuticle formation, flight activity, reproduction manipulation and adaptation to different environments and food sources.     

Peptidomics of neurohemal organs from species of the cockroach family Blattidae: how do neuropeptides of closely related species differ?

The primary structures and molecular mass data of neuropeptides that are released from major neuroendocrine sites of the American cockroach, Periplaneta americana, are well known. In the current study we extensively surveyed neuropeptides of the corpora cardiaca, the corpora allata and the abdominal perisympathetic organs, from 14 related cockroach species belonging to the family Blattidae. Mainly, this survey was executed by using mass spectrometric methods (MALDI-TOF MS). Peptides which appeared to be modified, as judged from their mass data and comparison with known data from P. americana, were fragmented by means of the post-source decay technique to determine their amino acid sequence. Single organ preparations sufficed to reveal the peptide pattern in neurohemal organs and to identify species-specific modifications, making it possible to glean information also from tissues of less abundant species that were caught during field trips. The peptide inventory described in this study is very typical of cockroaches of the family Blattidae and clearly separates this taxon from other taxa of cockroaches. The majority of neuropeptides was identical in all investigated species. Some peptides, however, displayed remarkable variations in their sequence which hint to a differential rate of modification among peptides of the same neuropeptide family. These modifications serve to distinguish further relatedness of taxa within the Blattidae.     

Campanula xylocarpa— a new species of the seriesSaxicolae Witasek

In this paper, a newCampanula species is described from Eastern Slovakia. Its morphological, distributional and cytological relationships and ecological preferences are briefly discussed and affinity to the otherSaxicolae examined. The taxon is characterized by the following features: specific combination of constant morphological characters; diploid chromosome number (2n=34); ecological specialization to the fissures of limestone and dolomitic rocks; relict occurrence in a small, sharply limited area; very late flowering. Geographically, it appears to be the northernmost representative of theSaxicolae.