Karyological study of some cyprinid species from Ethiopia. The ploidy differences between large and small Barbus of Africa

Chromosome sets of nine species of Barbus and a species of Varicorhinus from Ethiopia were investigated. All large Barbus ( B. bynni, B. intermedius, B. ethiopicus ) and V. beso are shown to have 2N =150, whereas all small Barbus ( B. anema, B. kerstenii, B. paludinosus , and three unidentified (probably undescribed) species have 2N = 50. Based on the karyological data and on the published morphological data, an independent origin of small and large Barbus of Africa is suggested. The authors believe that large Barbus of Africa constitute a monophyletic group and that this group has no sister-group relationships with any of the small Barbus of Africa.     

Hexaploidy in yellowfish species (Barbus, Pisces, Cyprinidae) from southern Africa

Five small-scaled yellow fish (large Burbus spp.) from southern Africa are shown to have modal 148 or 150 chromosomes. Themajority ofcyprinid species have 2N = 50 chromosomes, indicating that the yellow fish karyotype is hexaploid in origin. However, as there is no indication that the species are unisexual or that normal reproduction occurs by any means other than bisexual fertilization, the yellowfish karyotype is considered to have reverted to a diploid condition.     

Trait sorting in Daphnia colonising man‐made lakes

1. We used a zooplankton metacommunity to ask how dispersal, genetic drift and selection act to determine the local and regional distributions of trait variation. Since the formation of the lakes 80 years ago, cladoceran species have sorted into local assemblages that cluster by lake depth. Given this species sorting, we ask whether intraspecific variation in an ecologically important phenotypic trait – body size – has sorted as well. 2. We quantified changes in body size through time by measuring ephippia from D. pulicaria, D. dentifera and D. ambigua recovered from sediment cores from two lakes. We then estimated mean body size of contemporary populations of two competing species, Daphnia pulicaria and D. dentifera, in a laboratory common garden experiment. Finally, we used microsatellite loci to characterise genetic diversity and gene flow among local sites in the metacommunity. 3. Body size was variable both within and among years for the three species of Daphnia examined using sediment cores. For two lakes where we examined body size distributions through time, we observed a significant shift in body size of the first species to arrive after colonisation by other Daphnia species, which suggests selection has occurred historically. 4. Despite heritable variation in body size in the laboratory, evidence for trait sorting was only found for D. pulicaria, which was larger in deeper lakes. Mean body size varied among lakes, but did not sort relative to depth for D. dentifera. 5. Microsatellite data indicated that neutral genetic diversity was low in the region; only 27% of the individuals assayed were unique multi‐locus genotypes. We also found significant patterns of isolation by distance for both species. However, population structure was stronger in D. dentifera than in D. pulicaria. Hence, we conclude that a limited number of colonists have successfully invaded this metacommunity, and those genotypes arriving in this new region have experienced significant dispersal limitation among local sites. 6. Overall, while dispersal and selection have clearly led to the development of predictable community assemblages related to depth in this metacommunity, the distribution of phenotypic traits within species can differ substantially even between two trophically similar species. Our results highlight the complex roles of colonisation history, dispersal, selection and stochasticity in determining inter‐ and intra‐specific patterns in metacommunities.     

Understanding bird collisions with man‐made objects: a sensory ecology approach

Sensory ecology investigates the information that underlies an animal’s interactions with its environment. A sensory ecology framework is used here to seek to assess why flying birds collide with prominent structures, such as power lines, fences, communication masts, wind turbines and buildings, which intrude into the open airspace. Such collisions occur under conditions of both high and low visibility. It is argued that a human perspective of the problems posed by these obstacles is unhelpful. Birds live in different visual worlds and key aspects of these differences are summarized. When in flight, birds may turn their heads in both pitch and yaw to look down, either with the binocular field or with the lateral part of an eye’s visual field. Such behaviour may be usual and results in certain species being at least temporarily blind in the direction of travel. Furthermore, even if birds are looking ahead, frontal vision may not be in high resolution. In general, high resolution occurs in the lateral fields of view and frontal vision in birds may be tuned for the detection of movement concerned with the extraction of information from the optical flow field, rather than the detection of high spatial detail. Birds probably employ lateral vision for the detection of conspecifics, foraging opportunities and predators. The detection of these may be more important than simply looking ahead during flight in the open airspace. Birds in flight may predict that the environment ahead is not cluttered. Even if they are facing forward, they may fail to see an obstacle as they may not predict obstructions; perceptually they have no ‘prior’ for human artefacts such as buildings, power wires or wind turbines. Birds have only a restricted range of flight speeds that can be used to adjust their rate of gain of visual information as the sensory challenges of the environment change. It is argued that to reduce collisions with known hazards, something placed upon the ground may be more important than something placed on the obstacle itself. Foraging patches, conspecific models or alerting sounds placed a suitable distance from the hazard may be an effective way of reducing collisions in certain locations. However, there is unlikely to be a single effective way to reduce collisions for multiple species at any one site. Warning or diversion and distraction solutions may need to be tailored for particular target species.     

Post‐zygotic hybrid viability in sympatric species pairs: a case study from European lampreys

Ecological speciation mechanisms are widely assumed to play an important role in the early stages of divergence between incipient species, and this especially true of fishes. In the present study, we tested explicitly for post‐zygotic barriers to gene flow between a sympatric, recently diverged lamprey species pair that likely arose through ecological divergence. Experimental in vitro hybridization between anadromous parasitic Lampetra fluviatilis and resident nonparasitic Lampetra planeri resulted in a high proportion of embryos capable of attaining the burrowing pro‐larval stage, strongly indicating no post‐zygotic barriers to gene flow between these species. A sympatric, locally‐adapted resident parasitic form of L. fluviatilis was also found to successfully hybridize with both members of this species pair. The consequences of these findings are discussed in the context of lamprey speciation. © 2012 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, 108 , 378–383.     

Tunisian man‐made wetlands as alternative habitats for waterbirds and their role for conservation

The distribution of wintering waterbirds within some Tunisian artificial wetlands (AW) was studied during the 2004–2007 stable wintering periods. The survey has regarded 88 wetlands including 27 large dams, 25 hill dams and 36 hill lakes. We identified 42,840 individuals representing seven orders, eleven families, 37 species and six functional groups: dabbling ducks, grazing waterfowl, fish‐eaters, deep‐water foragers, shoreline foragers and waders. The population structure analysis showed an absolute dominance of the deep‐water foragers with approximately 82% of observed waterbirds. The total abundance survey showed a fluctuation of population sizes and richness, from thousands to few individuals and from 1 to 25 species, respectively. Analysis results showed that the species distribution is governed by several ecological factors and there was a significant correlation between species abundance and richness and some habitat variables such as area, depth, age, plant cover and hunting disturbance. Investigated AW revealed a significant carrying capacity and refuge serving for the conservation of numerous wintering and endangered waterbird species of high nature conservation value, the White‐headed Duck Oxyura leucocephala that has been observed with relatively high numbers representing more than 40% of the assessed Tunisian–Algerian population.     

Vegetation change in a man‐made salt marsh affected by a reduction in both grazing and drainage

Abstract. In order to restore natural salt marsh in a 460‐ha nature reserve established in man‐made salt marsh in the Dollard estuary, The Netherlands, the artificial drainage system was neglected and cattle grazing reduced. Vegetation changes were traced through two vegetation surveys and monitoring of permanent plots over 15 yr after the management had been changed. Exclosure experiments were started to distinguish grazing effects from effects of increased soil waterlogging caused by the neglect of the drainage system. Both vegetation surveys and permanent plots demonstrated a dichotomy in vegetation succession. The incidence of secondary pioneer vegetation dominated by Salicornia spp. and Suaeda maritima increased from 0 to 20%, whereas the late‐successional (Phragmites australis) vegetation from 10 to 15%. Grazing intensity decreased towards the sea. The grazed area contracted landward, which allowed vegetation dominated by tall species to increase seaward. Grazing and increased waterlogging interacted in several ways. The impact of trampling increased, and in the intensively grazed parts soil salinity increased. This can probably be explained by low vegetation cover in spring. Framework Ordination, an indirect‐gradient‐analysis technique, was used to infer the importance of environmental factors in influencing changes in species composition. Many changes were positively or negatively correlated with soil aeration and soil salinity, whereas elevation was of minor importance. Grazing accounted for only a few changes in species frequency. Changes in permanent plots were greater during the first than during the second half of the study period. In exclosures that were installed halfway through the study period, there was a relatively rapid recovery of previously dominant species that had decreased during the first half of the study period. Species richness per unit area in the reserve increased. At the seaward side of the marsh, the altered management allowed succession to proceed leading to establishment of stands of Phragmites australis, whereas on the landward side, the combination of moderate grazing with neglect of the drainage system appeared an effective measure in maintaining habitats for a wider range of halophytic species.     

Molecular identification (RAPD) of the eight species of the genus Barbus (Cyprinidae) in the Iberian Peninsula

Random amplified polymorphic DNA (RAPD) analysis has been used to identify the eight Barbus species of the Iberian Peninsula, whose morphological differentiation is difficult. Ten random primers were employed to generate RAPD markers. Different RAPD profiles were observed for the different species. Four species-specific markers were found in B. bocagei , seven in B. comizo , five in B. graellsii , three in B. guiraonis , eight in B. haasi , 13 in B. meridionalis , four in B. microcephalus and four in B. sclateri. Evidence is presented that RAPD markers constitute useful tools for accurate taxonomic identification of Spanish barbels which is one of the first prerequisites in effective conservation programmes.     

Distribution patterns of fish biomass by acoustic survey in three Tunisian man‐made lakes

In order to test the hypothesis that fish distribution is related to water depth, three exploited reservoirs were sampled at day and at night using a Simrad EK60 echosounder. Acoustic surveys were carried out between February and June 2008, which focused on the fish size, species density (fish per ha) and biomass (kg ha^?1) along vertical and longitudinal gradients. It was evident in the surface layer (0–3 m) during daytime that the larger fish sizes occupy waters near the dam or the middle of Lakhmess and Sejnane reservoirs. In the upper layer at nighttime, a gradient of fish size is shown proportional to the depth at Lakhmess Reservoir and inversely proportional at the man‐made Sejnane Lake. At Lakhmess and Laabid reservoirs, fish density was significantly higher in deep water (3926 ± 1409 and 624 ± 258 fish per ha) rather than in the upper layer (988 ± 2 and 8 ± 2 fish per ha in daytime, respectively), while at Sejnane Reservoir the number of fish per area was similar along the vertical gradient. The biomass was significantly higher in waters deeper than 3 m at Sejnane Reservoir whereas at Lakhmess it was higher in the surface layer. Fish biomass increased from upstream (0.16 ± 0.05 kg ha^?1) to middle (3.07 ± 2.96 kg ha^?1) and downstream (3.82 ± 2.30 kg ha^?1 at night) areas in the man‐made Laabid Lake while a similar longitudinal gradient occurred in the deepest Sejnane Reservoir. The vertical gradient in fish distribution is discussed. From the dam to the tributary of the entire water column, it was concluded that fish biomass distribution was governed by depth and was most abundant in areas with deep waters.     

Climate and pH as determinants of vegetation succession in Central European man‐made habitats

Questions: (1) What are the most important abiotic environmental variables influencing succession in central European man‐made habitats? (2) How do these variables interact with one another and with variation in community properties? Location: Central, western and southern parts of the Czech Republic. Habitats included old fields, urban sites, spoil heaps after coal mining, sites at water reservoirs, extracted sand pit and peatland and reclaimed sites in areas deforested by air pollution. Methods: We investigated vegetation patterns on 15 succes‐sional seres, sampled by the same methods. Time of succession over which the data were available ranged from 12 to 76 years. The cover of vascular plant species (in %) was estimated in 5 m × 5 m plots. The relationships between vegetation characteristics (species composition, total cover, cover of woody species, species number and rate of dominant species turnover) and 13 abiotic site factors, including climatic and soil variables, were tested using CCA ordination and regression models. Results: Substratum pH, the only substratum characteristic, and climate were the environmental variables significantly affecting the vegetation patterns in the course of succession. The rate of succession, measured as the turnover of dominant species, was significantly more rapid in lowland than in mountain climates. On alkaline soils, species numbers in succession increased towards warmer climates. However, acid soils prevented any increase in species numbers, regardless of the climate. Surprisingly, forms of nitrogen and contents of C, P and cations did not exhibit any significant effect on the vegetation characteristics studied. Conclusions: Our approach, to compare a number of seres, can contribute not only to our understanding of succession, but also to help restoration projects to predict vegetation change because the crucial environmental variables, as identified by this study, are easy to measure.     

Feeding ecology of the Iberian cyprinid Barbus bocagei Steindachner, 1865 in a lowland river

Patterns of food resource utilization by Barbus bocagei in a lowland river in the central part of the Iberian Peninsula are presented and discussed. Focal points include feeding activity, diet composition and seasonal and ontogenetic diet shifts. Striking features of overall feeding pattern of barbel are its continuous feeding activity, bottom habits, high consumption of detritus and dipteran larvae and narrow diet breadth. Seasonal changes in food resource availability elicited changes in food utilization patterns, revealing a trend to more generalist feeding during spring. Barbel increase consumption of plant material and large prey during ontogeny, but overlap in prey resource utilization between size classes is high. The versatility of barbel foraging behaviour may be an important feature in its exploitation of Iberian lotic systems.     

Event detection and sub‐state discovery from biomolecular simulations using higher‐order statistics: Application to enzyme adenylate kinase

Biomolecular simulations at millisecond and longer time‐scales can provide vital insights into functional mechanisms. Because post‐simulation analyses of such large trajectory datasets can be a limiting factor in obtaining biological insights, there is an emerging need to identify key dynamical events and relating these events to the biological function online, that is, as simulations are progressing. Recently, we have introduced a novel computational technique, quasi‐anharmonic analysis (QAA) (Ramanathan et al., PLoS One 2011;6:e15827), for partitioning the conformational landscape into a hierarchy of functionally relevant sub‐states. The unique capabilities of QAA are enabled by exploiting anharmonicity in the form of fourth‐order statistics for characterizing atomic fluctuations. In this article, we extend QAA for analyzing long time‐scale simulations online. In particular, we present HOST4MD—a higher‐order statistical toolbox for molecular dynamics simulations, which (1) identifies key dynamical events as simulations are in progress, (2) explores potential sub‐states, and (3) identifies conformational transitions that enable the protein to access those sub‐states. We demonstrate HOST4MD on microsecond timescale simulations of the enzyme adenylate kinase in its apo state. HOST4MD identifies several conformational events in these simulations, revealing how the intrinsic coupling between the three subdomains (LID, CORE, and NMP) changes during the simulations. Further, it also identifies an inherent asymmetry in the opening/closing of the two binding sites. We anticipate that HOST4MD will provide a powerful and extensible framework for detecting biophysically relevant conformational coordinates from long time‐scale simulations. Proteins 2012. © 2012 Wiley Periodicals, Inc.     

Common functionally important motions of the nucleotide‐binding domain of Hsp70

The 70 kDa heat shock proteins (Hsp70) are a family of molecular chaperones involved in protein folding, aggregate prevention, and protein disaggregation. They consist of the substrate‐binding domain (SBD) that binds client substrates, and the nucleotide‐binding domain (NBD), whose cycles of nucleotide hydrolysis and exchange underpin the activity of the chaperone. To characterize the structure–function relationships that link the binding state of the NBD to its conformational behavior, we analyzed the dynamics of the NBD of the Hsp70 chaperone from Bos taurus (PDB 3C7N:B) by all‐atom canonical molecular dynamics simulations. It was found that essential motions within the NBD fall into three major classes: the mutual class, reflecting tendencies common to all binding states, and the ADP‐ and ATP‐unique classes, which reflect conformational trends that are unique to either the ADP‐ or ATP‐bound states, respectively. “Mutual” class motions generally describe “in‐plane” and/or “out‐of‐plane” (scissor‐like) rotation of the subdomains within the NBD. This result is consistent with experimental nuclear magnetic resonance data on the NBD. The “unique” class motions target specific regions on the NBD, usually surface loops or sites involved in nucleotide binding and are, therefore, expected to be involved in allostery and signal transmission. For all classes, and especially for those of the “unique” type, regions of enhanced mobility can be identified; these are termed “hot spots,” and their locations generally parallel those found by NMR spectroscopy. The presence of magnesium and potassium cations in the nucleotide‐binding pocket was also found to influence the dynamics of the NBD significantly. Proteins 2015; 83:282–299. © 2014 Wiley Periodicals, Inc.     

Anthropogenic changes in the freshwater fish fauna of Italy, with reference to the central region and Barbus graellsii, a newly established alien species of Iberian origin

In a survey of the west-central Italian rivers Ombrone, Fiora, Albegna and Bruna, among established exotic species, the Iberian barbel Barbus graellsti was recorded in Italian fresh waters for the first time. Morphological identification was supported by comparison of cytochrome b sequences with those from related barbel species. Other exotics of particular note were Barbus barbus, Pseudorasbora parva and Leuciscus cephalus , together with the Padano-Venetian Chondrostoma genei and Padogobius bonelli. Native species still present included Leuciscus lucumonis, Telestes muticellus, Rutilus rubilio and Padogobius nigricans , but were now more restricted to upper reaches and smaller watercourses. The deleterious effect of alien species on native forms is discussed with particular reference to probable competition between C. genei and L. lucumonis , and between the two gobies. The checklist of species introduced to the fresh waters of Italy is now updated to 34. For the Italian freshwater fish fauna in general, the conservation status of three native species ( Acipenser naccari, Salmo marmoratus and Knipowitschia punctatissima ) has been improved but five species are believed to be at risk ( Salmo carpio, L. lucumonis, Scardinius scardafa, Gobio benacensis and P. nigricans ) and four anadromous species ( Petromyzon marinus, Lampetra fluviatilis, Acipenser sturio and Huso huso ) no longer breed in Italian fresh waters. The processes of change in the composition of the Italian freshwater fish fauna as a whole may be summarized as successively 'padanization', 'danubization' and now 'globalization'.     

干旱胁迫对青藏高原6种植物生理指标的影响

以青藏高原6种植物:红花岩黄芪(Hedysarum multijugum Maxim.)、西北沼委陵菜(Comarum salesovianum(Steph.)Asch.et Graebn.)、鲜黄小檗(Berberis diaphana Maxim.)、鲜卑花(Sibiraea laevigata(Linn.)Maxim.)、树锦鸡儿(Caragana arborescens(Amm.)Lam.)、砂生槐(Sophora moorcroftiana(Benth.)Baker)为试材进行干旱胁迫模拟盆栽试验,通过对比6种植物叶片中丙二醛(MDA)、脯氨酸、可溶性蛋白质、叶绿素、可溶性糖、淀粉含量的变化,对供选植物进行抗旱性能分析与评价,为在青藏高原地区筛选优良耐旱植物提供参考依据。设置土壤含水量占田间持水量80%以上为正常水平,50%—70%为轻度干旱,30%—50%为中度干旱,低于30%为重度干旱。研究表明,6种供试植物叶片MDA含量逐渐升高,当土壤含水量占田间持水量12%左右时达到最大值,树锦鸡儿的增幅较另5种苗木最小,而峰值最大。脯氨酸含量都呈增加趋势,其中砂生槐最高,为9981.67mg/g,峰值与对照值相比,砂生槐增加最多为37.43倍,鲜卑花最小为0.49倍。苗木叶片中可溶性蛋白质含量总体表现出现增大后减小的规律,且所有测定值都高于正常水分条件下的含量。6种苗木的叶绿素含量在干旱胁迫下总体呈现先降低再升高最后再降低的趋势,24 d时均低于对照值,下降最多的为西北沼委陵菜(15.43 mg/g)。由于干旱下苗木的光合产物转化受抑,以淀粉形式的累积量减少,所以6种苗木的可溶性糖含量呈上升趋势,而淀粉含量呈下降趋势,通过积累可溶性糖以提高细胞的渗透调节能力。砂生槐、树锦鸡儿的可溶性糖含量增幅与淀粉含量的减少明显高于其余苗木,使其在较低叶水势下仍保持较高的细胞膨压,以减缓水分胁迫的不利影响。主成分分析表明,6种苗木抗旱性由强到弱依次为:树锦鸡儿、红花岩黄芪、砂生槐、鲜黄小檗、鲜卑花、西北沼委陵菜。     

Phenetic analysis of Anemone coronaria (Ranunculaceae) and related species

This study clarifies the taxonomic status of Anemone coronaria and segregates the species and A. coronaria infraspecific variants using morphological and morphometric analyses. Principal component analysis of the coronaria group was performed on 25 quantitative and qualitative characters, and morphometric analysis of the A. coronaria infraspecific variants was performed on 21 quantitative and qualitative characters. The results showed that the A. coronaria group clustered into four major groups: A. coronaria L., A. biflora DC, A. bucharica (Regel) Juz.ex Komarov, and a final group including A. eranthioides Regel and A. tschernjaewii Regel. The data on the A. coronaria infraspecific variants clustered into six groups: A. coronaria L. var. coronaria L., var. cyanea Ard., var. albiflora Rouy & Fouc., var. parviflora Regel, var. ventreana Ard., and var. rissoana Ard.  © 2007 The Linnean Society of London, Botanical Journal of the Linnean Society , 2007, 153 , 417–438.     

Divergence in drought‐response traits between sympatric species of Mimulus

Differential adaptation to local environmental conditions is thought to be an important driver of speciation. Plants, whose sedentary lifestyle necessitates fine‐tuned adaptation to edaphic conditions such as water availability, are often distributed based on these conditions. Populations occupying water‐limited habitats may employ a variety of strategies, involving numerous phenotypes, to prevent and withstand desiccation. In sympatry, two closely related Mimulus species—M. guttatus and M. nasutus—occupy distinct microhabitats that differ in seasonal water availability. In a common garden experiment, we characterized natural variation within and between sympatric M. guttatus and M. nasutus in the ability to successfully set seed under well‐watered and drought conditions. We also measured key phenotypes for drought adaptation, including developmental timing, plant size, flower size, and stomatal density. Consistent with their microhabitat associations in nature, M. nasutus set seed much more successfully than M. guttatus under water‐limited conditions. This divergence in reproductive output under drought was due to differences in mortality after the onset of flowering, with M. nasutus surviving at a much higher rate than M. guttatus. Higher seed set in M. nasutus was mediated, at least in part, by a plastic increase in the rate of late‐stage development (i.e., fruit maturation), consistent with the ability of this species to inhabit more ephemeral habitats in the field. Our results suggest adaptation to water availability may be an important factor in species maintenance of these Mimulus taxa in sympatry.     

Structural Characterisation of Alkaloids in Leaves and Roots of Stephania kwangsiensis by LC‐QTOF‐MS

Introduction

The tuberous roots of Stephania kwangsiensis, which contain bioactive alkaloids, are used as a traditional Chinese medicine. Overexploitation of the roots has made the plant increasingly rare, and the abundant leaves of the same plant may offer a potential alternative. However, there is insufficient phytochemical information for a comparison of alkaloid compositions in the two parts.

Objective

To characterise and compare the alkaloids in the leaves and roots of S. kwangsiensis.

Methods

The alkaloids in S. kwangsiensis were characterised using high pressure liquid chromatography coupled with positive electrospray ionisation quadrupole time‐of‐flight tandem mass spectrometry (HPLC‐(+)ESI‐QTOF‐MS/MS). The alkaloid compositions in the leaves and roots were compared by visual inspection combined with principal component analysis (PCA) of the HPLC‐MS data.

Results

Seventy‐five alkaloids comprising aporphine‐, proaporphine‐, protoberberine‐, benzylisoquinoline‐, bisbenzylisoquinoline‐ and morphine‐type alkaloids were identified or tentatively identified in the roots and leaves of S. kwangsiensis. Sixty‐three of these alkaloids have not been previously reported in this species, and three have not been previously reported in the literature. The roots and leaves had similarities in alkaloid composition but differences in the peak intensities of most alkaloids. The PCA revealed that the samples were clustered into two distinct groups, which corresponded to leaves and roots.

Conclusion

This study further clarified the chemical constituents in the roots of S. kwangsiensis, and revealed that diverse alkaloids were also present in the leaves. The comparative chemical profiling of the two parts provides useful information on their potential medicinal use. Copyright © 2017 John Wiley & Sons, Ltd.