Topographic controls on the distribution of tree islands in the high Andes of south‐western Ecuador

Aim To evaluate the hypothesis that geomorphometric parameters of upper montane Andean environments have an important influence on the regional fire ecology and consequently play a role in the spatial distribution of ‘remnant’ tree islands dominated by Polylepis. Location A glacial landscape located between 3600 and 4400 m elevation in Cajas National Park, south‐western Ecuador. Methods The eigenvalue ratio method was used to evaluate the regional geomorphometric parameters of a 30‐m digital elevation model for Cajas National Park. The landscape character was evaluated by quantifying the topographic roughness, organization, and gradient. This information was used to determine the spatial correlations between terrain characteristics and the distribution of tree islands in the region. Results We demonstrate a strong spatial correlation between areas of high topographic roughness and gradient, and the locations of the major tree islands. We find that there is a distinctive relationship between the topographic roughness and organization in the vicinity of the tree islands (e.g. increased upslope roughness and decreased topographic grain strength) that substantiates the notion that the tree islands are located in relatively inaccessible topography. Main conclusions In the northern and central Andes, the location of Polylepis‐dominated ‘forest islands’ has been shown to be a function of climate, terrain characteristics, and anthropogenic disturbances. Although the relative importance of various ecological factors has been debated, it remains clear that fires have exerted a strong influence on these ecosystems. Other authors have noted that tree islands are more likely to occur at the base of cliffs, above moist areas, and in other areas where fires do not burn frequently. Our results corroborate these observations, and demonstrate that the occurrence of Polylepis patches is strongly correlated with specific combinations of terrain features. Although we do not discount the importance of other factors in determining the spatial position and areal extent of these forests, we demonstrate strong support for fire‐related hypotheses.     

Land use legacy effects on woody vegetation in agricultural landscapes of south‐western Ethiopia

Aim

Past land use legacy effects—extinction debts and immigration credits—might be particularly pronounced in regions characterized by complex and dynamic landscape change. The aim of this study was to evaluate how current woody plant species distribution, composition and richness related to historical and present land uses.

Location

A smallholder farming landscape in south‐western Ethiopia.

Methods

We surveyed woody plants in 72 randomly selected 1‐ha sites in farmland and grouped them into forest specialist, generalist and pioneer species. First, we investigated woody plant composition and distribution using non‐metric multidimensional scaling. Second, we modelled species richness in response to historical and current distance from the forest edge. Third, we examined diameter class distributions of trees in recently converted vs. permanent farmland.

Results

Historical distance was a primary driver of woody plant composition and distribution. Generalist and pioneer species richness increased with historical distance. Forest specialists, however, did not respond to historical distance. Only few old individuals of forest specialist species remained in both recently converted and permanent farmlands.

Main conclusions

Our findings suggest that any possible extinction debt for forest specialist species in farmland at the landscape scale was rapidly paid off, possibly because farmers cleared large remnant trees. In contrast, we found substantial evidence of immigration credits in farmland for generalist and pioneer species. This suggests that long‐established farmland may have unrecognized conservation values, although apparently not for forest specialist species. We suggest that conservation policies in south‐western Ethiopia should recognize not only forests, but also the complementary value of the agricultural mosaic—similar to the case of European cultural landscapes. A possible future priority could be to better reintegrate forest species in the farmland mosaic.

     

Multi‐gene phylogenetic analysis of south‐east Asian pest members of the Bactrocera dorsalis species complex (Diptera: Tephritidae) does not support current taxonomy

Bactrocera dorsalis sensu stricto, B. papayae, B. philippinensis and B. carambolae are serious pest fruit fly species of the B. dorsalis complex that predominantly occur in south‐east Asia and the Pacific. Identifying molecular diagnostics has proven problematic for these four taxa, a situation that cofounds biosecurity and quarantine efforts and which may be the result of at least some of these taxa representing the same biological species. We therefore conducted a phylogenetic study of these four species (and closely related outgroup taxa) based on the individuals collected from a wide geographic range; sequencing six loci (cox1, nad4‐3′, CAD, period, ITS1, ITS2) for approximately 20 individuals from each of 16 sample sites. Data were analysed within maximum likelihood and Bayesian phylogenetic frameworks for individual loci and concatenated data sets for which we applied multiple monophyly and species delimitation tests. Species monophyly was measured by clade support, posterior probability or bootstrap resampling for Bayesian and likelihood analyses respectively, Rosenberg's reciprocal monophyly measure, P(AB), Rodrigo's (P(RD)) and the genealogical sorting index, gsi. We specifically tested whether there was phylogenetic support for the four ‘ingroup’ pest species using a data set of multiple individuals sampled from a number of populations. Based on our combined data set, Bactrocera carambolae emerges as a distinct monophyletic clade, whereas B. dorsalis s.s., B. papayae and B. philippinensis are unresolved. These data add to the growing body of evidence that B. dorsalis s.s., B. papayae and B. philippinensis are the same biological species, which poses consequences for quarantine, trade and pest management.     

Coexistence of two congeneric tree species of Lauraceae in a secondary warm‐temperate forest on Miyajima Island,south‐western Japan

We analyzed the spatial distributions of two congeneric tree species, Neolistea aciculata and Neolistea sericea (Lauraceae), in a warm‐temperate forest on Miyajima Island, south‐western Japan. Both species were mainly found in valley sites on the island. Hence, these species shared the same topographic habitat niche. However, we found a clear difference between the spatial distributions of the two species in relation to the light environment. Neolistea aciculata was predominantly found in stands with low light, such as beneath the canopy of dense evergreen broadleaved forest. In contrast, N. sericea was predominantly associated with ample light, such as in secondary Pinus densiflora forest. In stands with moderate light conditions, both species were found. This habitat niche segregation in relation to light conditions presumably allows the coexistence of these two species in the predominantly successional forest on Miyajima Island.     

A conceptual model of vegetation dynamics for the unique obligate‐seeder eucalypt woodlands of south‐western Australia

Models of vegetation dynamics framed as testable hypotheses provide powerful tools for predicting vegetation change in response to contemporary disturbances or climate change. Synthesizing existing information and applying new data, we develop a conceptual model of vegetation states and transitions for the previously overlooked woodlands dominated by obligate‐seeder eucalypts of dry to semi‐arid south‐western Australia. These comprise the largest extant temperate woodland globally, are uniquely dominated by a high diversity of obligate‐seeder eucalypts (55 taxa), but are under threat from wildfire. Our conceptual model incorporates four critical ecological processes that also distinguish obligate‐seeder woodlands from temperate woodlands dominated by resprouting eucalypts: (i) a lack of well‐protected epicormic buds results in major disturbances (prominently fire) being stand‐replacing. The pre‐disturbance tree cohort is killed, followed by dense post‐disturbance recruitment from seed shed from a serotinous seed bank; (ii) competition between saplings leads to self‐thinning over a multi‐century timeframe, with surviving individuals having great longevity (regularly >400 years); (iii) multiple processes limit recruitment in the absence of stand‐replacement disturbances, leading to frequent single‐cohort stands. However, unlike the few other obligate‐seeder eucalypt communities, trickle recruitment in very long‐unburnt stands can facilitate indefinite community persistence in the absence of stand‐replacement disturbances; and (iv) discontinuous fuels, relatively low understorey flammability (low grass and often high chenopod cover) and topographic barriers to fire (salt lakes) allow mature woodlands to persist for centuries without burning. Notably though, evidence suggests that flammability peaks at intermediate times since fire, establishing a ‘flammability bottleneck’ (or landscape fire trap) through which regenerating woodlands must pass. Our model provides a framework to support management to conserve obligate‐seeder eucalypt woodlands. Research into reasons for exceptional tree heights relative to ecosystem productivity, the evolution of diverse and dominant obligate‐seeder eucalypts, the paucity of grass, and the recent spatial distribution of fires, will further inform conservation management.     

Climatic fluctuations shape the phylogeography of a mesic direct‐developing frog from the south‐western Australian biodiversity hotspot

Aim To assess phylogeographic pattern throughout the range of Metacrinia nichollsi in order to develop specific biogeographical hypotheses for the wet forests of south‐western Australia. This was carried out by contrasting a direct‐developing frog species, M. nichollsi, that breeds independently of free surface water with conventional, aquatic breeders and highly specialized direct developers. Location Wet forests of the south‐western Australian biodiversity hotspot – an area of high species richness and endemism for myobatrachid frogs and many other faunal groups. Methods We compiled an extensive phylogeographic data set from field‐collected samples based on mitochondrial ND2 sequences. Phylogenetic analyses combined with estimates of divergence times were used to build a model of major biogeographical events affecting the species. Phylogeographic analyses were used to provide insights into smaller‐scale processes acting within each major lineage. Results Phylogenetic analysis recovered three major lineages, with divergence dates coincident with late Miocene–early Pliocene arid cycles. One lineage was confined to geographically isolated populations in the Stirling Ranges (Stirling Ranges Lineage, SRL). The continuous range of M. nichollsi was split into two: the Main Range Lineage (MRL) and the Southern Coastal Lineage (SCL). The SCL displays a strong drainage‐based population structure, whereas the MRL displays a strong signature of recent expansion, suggesting that these two lineages have had very different biogeographical histories. Main conclusions Late Miocene–Pliocene aridity appears to have isolated populations in the Stirling Ranges and resulted in the formation of two additional lineages on a north–south gradient that are independent of southward‐flowing drainage systems. Our results demonstrate that climatic fluctuations are likely to have generated fine‐scale phylogeographic structure within M. nichollsi and that catchment regions are important refugia during arid cycles.     

Population structure of Squatina guggenheim (Squatiniformes,Squatinidae) from the south‐western Atlantic Ocean

Population genetic analyses based on both mitochondrial cytochrome b and the internal transcribed spacer 2 of recombinant (r)DNA genes were implemented to examine hypotheses of population differentiation in the angular angel shark Squatina guggenheim, one of the four most‐widespread endemic species inhabiting coastal ecosystems in the south‐western Atlantic Ocean. A total of 82 individuals of S. guggenheim from 10 sampling sites throughout the Río de la Plata mouth, its maritime front, the outer shelf at the subtropical confluence and the coastal areas of the south‐west Atlantic Ocean, were included. The analysis of molecular variance (AMOVA) based on the second internal transcribed spacer (its‐2) region supports that the samples from the outer shelf represent an isolated group from other sites. Historical gene flow in a coalescent‐based approach revealed significant immigration and emigration asymmetry between sampling sites. Based on the low level of genetic diversity, the existence of a long‐term population decline or a past recent population expansion following a population bottleneck could be proposed in S. guggenheim. This demographic differentiation suggests a degree of vulnerability to overexploitation in this endemic and endangered south‐west Atlantic Ocean shark, given its longevity and low reproductive potential.     

Vulnerability to longline fisheries of three hammerhead shark Sphyrna species in the south‐western and equatorial Atlantic Ocean

Catch and effort data from 29 418 longline sets from Brazilian tuna longline vessels operating in the south‐western and equatorial Atlantic Ocean between 2004 and 2011 were analysed to investigate the distribution, catch rate and size of three species of hammerhead sharks (Sphyrna lewini, Sphyrna mokarran and Sphyrna zygaena). During that period, 6172 hammerhead sharks were caught. Among the elasmobranchs, the highest percentage of hammerhead sharks were caught in 2007, when they accounted for 3·90% of the group, while the lowest value of 0·40% was recorded in 2010. In general, the spatial distribution of the mean catch per unit effort (CPUE) by years and quarters showed a trend of higher catches near the equatorial region and in southern Brazil. The nominal mean CPUE was 0·12 Sphyrna spp. 1000⁻¹ hooks, with the highest value being recorded in 2007 (0·30 Sphyrna spp. 1000⁻¹ hooks). The standardized yearly CPUE estimated by a generalized linear model assuming a zero inflated negative binomial (ZINB) distribution were not much different from nominal values. Of the 205 sexed specimens, 117 were females and 88 were males, resulting in a sex ratio with a predominance of females (1·30:1·00), although not statistically significant. The total length of females ranged from 1200 to 2800 mm and of males from 1100 to 3100 mm. Juvenile hammerhead sharks represented 82 and 54% of the sexed female and male specimens, respectively.     

Application of a Gondwanan perspective to restore ecological integrity in the south‐western Australian global biodiversity hotspot

Bounded by ocean and desert, the isolated, predominately Mediterranean‐climate region of south‐western Australia (SWA) includes nine bioregions (circa 44 million hectares). The ecological integrity of the landscapes in this global biodiversity hotspot has been compromised by deforestation, fragmentation, exploitation, and introduced biota. Nature and degree of transformation varies between four interconnected landscapes (Swan Coastal Plain; South‐west Forests; Wandoo Woodlands; and Great Western Woodlands). A Gondwanan perspective emphasizes a venerable biota and a cultural component to deep time. The particular importance of remnants and protected areas is recognized in restoring ecological integrity to Gondwanan landscapes. The nature and magnitude of the restoration task in these ancient, and neighboring, landscapes require higher levels of investment and more time than do recent landscapes. The protection, conservation, restoration, and rehabilitation of ecological integrity require multiple approaches in each landscape as well as consideration of the whole. Active conservation of biota and minimizing the impact of industrial‐ and agricultural‐use are priorities. Integrating a climate focus and rethinking fire are critical restoration considerations to future trajectories under anthropogenic climate change. A legislative mandate to coordinate industrial‐scale restoration and active conservation to build from protected areas must become a societal priority to restore ecological integrity.     

Investigating the effects of age‐related spatial structuring on the transmission of a tick‐borne virus in a colonially breeding host

Higher pathogen and parasite transmission is considered a universal cost of colonial breeding due to the physical proximity of colony members. However, this has rarely been tested in natural colonies, which are structured entities, whose members interact with a subset of individuals and differ in their infection histories. We use a population of common guillemots, Uria aalge, infected by a tick‐borne virus, Great Island virus, to explore how age‐related spatial structuring can influence the infection costs borne by different members of a breeding colony. Previous work has shown that the per‐susceptible risk of infection (force of infection) is different for prebreeding (immature) and breeding (adult) guillemots which occupy different areas of the colony. We developed a mathematical model which showed that this difference in infection risk can only be maintained if mixing between these age groups is low. To estimate mixing between age groups, we recorded the movements of 63 individually recognizable, prebreeding guillemots in four different parts of a major colony in the North Sea during the breeding season. Prebreeding guillemots infrequently entered breeding areas (in only 26% of watches), though with marked differences in frequency of entry among individuals and more entries toward the end of the breeding season. Once entered, the proportion of time spent in breeding areas by prebreeding guillemots also varied between different parts of the colony. Our data and model predictions indicate low levels of age‐group mixing, limiting exposure of breeding guillemots to infection. However, they also suggest that prebreeding guillemots have the potential to play an important role in driving infection dynamics. This highlights the sensitivity of breeding colonies to changes in the behavior of their members—a subject of particular importance in the context of global environmental change.     

Effect of CYP2C19 Genetic Polymorphisms on the Efficacy of Proton Pump Inhibitor‐Based Triple Therapy for Helicobacter pylori Eradication: A Meta‐Analysis

Objective: CYP2C19 polymorphisms have been inconsistently reported to associate with the efficacy of proton pump inhibitor (PPI)‐based triple therapies for eradicating Helicobacter pylori infection. The aim of this meta‐analysis was to determine whether CYP2C19 polymorphism affect H. pylori eradication rates obtained with first‐line PPI‐based triple therapies. Methods: A systematic literature search was conducted up to July 2007 using Medline, PubMed, EMBase, Cochrane Central Register of Controlled Trials (CENTRAL), ISI Web of Science, CNKI (Chinese), and Wanfang (Chinese) digital database. MeSH terms and keywords included proton pump inhibitor, omeprazole, lansoprazole, rabeprazole, pantoprazole, or esomeprazole, cytochromeP4502C19 or CYP2C19, and Helicobacter pylori or H. pylori. Twenty articles met the inclusion criteria, and were included in the meta‐analysis by using Review Manager 4.2.8. Results: Eradication rates were significantly different between poor metabolizers (PM) and heterozygous extensive metabolizers (HetEM) (odds ratio (OR) = 1.73, p = .002) and between PM and homozygous extensive metabolizers (HomEM) (OR = 2.79, p < .0001). Moreover, eradication rates were also significant difference between HetEM and HomEM (OR = 2.00, p < .0001). Triple omeprazole and lansoprazole therapies achieved higher H. pylori eradication rates in PM than in HomEM (OR = 4.28, p = .0005 for omeprazole and OR = 3.06, p = .001 for lansoprazole), and higher in HetEM than those in HomEM (OR = 3.22, p < .0001 for omeprazole and OR = 1.95, p = .040 for lansoprazole). Rabeprazole therapies had no significant effect on H. pylori eradication rates (between PM and HomEM, OR = 1.35, p = .610 and between HetEM and HomEM, OR = 1.57, p = .190). No significant difference in H. pylori eradication rates between PM and HetEM was observed in the three individual PPI therapies. Conclusion: The efficacy of omeprazole‐ and lansoprazole‐based first‐line triple therapies at the standard doses is dependent on CYP2C19 genotype status, which appears not to affect the efficacy of the regimens including rabeprazole.     

Reproductive biology of Haemulon plumierii in the south‐western Atlantic Ocean's most extensive reefs: implications for fisheries management

The reproductive biology of the white grunt Haemulon plumierii was studied from 360 individuals obtained from artisanal fisheries landings in the Abrolhos Bank, Brazil, between August 2010 and March 2012. The overall sex‐ratio did not differ significantly from 1:1, although males predominated in larger size classes. β‐Binomial modelling of historical sex‐ratio data indicated that the catch rate of females has increased in recent years. Females reached maturity at a smaller total length (L_T; 214 mm) than males (235 mm L_T) and the L_T at which 50% of all individuals are mature (L₅₀) was 220 mm, corresponding to 41·5% of the maximum recorded L_T. Variation in the gonado‐somatic index and in the relative frequency of reproductive stages indicates that reproduction occurs year round, with increased activity during the austral spring and summer. Fecundity was not size dependent. The reproductive parameters provided here can support management measures focussed on seasonal closures during spawning peaks (September to November and February to March) and minimum sizes (>L₅₀) for the capture of this important artisanal fisheries resource in Abrolhos, the region with the largest and most biodiverse coralline reefs in the South Atlantic Ocean.     

Flaviviral disease mosquito vector surveillance in Incheon Metropolitan City and the Hwaseong area,Gyeonggi‐Do,Republic of Korea,in 2015

Owing to global climate change, the global resurgence of vector‐borne infectious diseases and their potential to inflict widespread casualties among human populations has emerged as a pivotal burden on public health systems. In this study, the prevalence of flaviviral diseases transmitted by mosquitoes, and their target vector diversity, abundance, and distribution was investigated to enable the mapping of hotspots for these diseases. For the surveillance of the vector mosquitoes carrying flaviviruses during April to November 2015, female mosquitoes were collected to study whether they carried pathogens from abroad at seven locations in Incheon Metropolitan City (Incheon) as a typical urban area and Hwaseong‐si (= city, Hwaseong) of Gyeonggi‐do (= province) as a rural area. A total of 15 species belonging to seven genera (29,102 female mosquitoes) were collected with black‐light and BG‐Sentinel? traps at a collection rate of 260 per trap/night from whole collection locations. The most collected mosquito species in Incheon were Aedes vexans nipponii (species ratio (SR), 29.9%) and the Culex pipiens complex (SR, 28.8%), followed by Anopheles sinensis s.l. (SR, 27.9%) and Ochlerotatus koreicus (SR, 7.1%). From the results of viral RNA detection, five flaviviruses were found in 20,981 individuals (excluding An. sinensis; 696 pools) in the Cx. pipiens complex and Ae. vexans nipponii. Three Japanese encephalitis virus (JEV)‐positive pools were from the Cx. pipiens complex, a Chaoyang virus pool was found from Ae. vexans nipponii, and the remaining unidentified flavivirus pool was from Cx. pipiens. The three JEV‐positive pools were phylogenetically grouped as genotype V. The results of our study demonstrate that enhanced monitoring and long‐term surveillance of these vector viruses are of great public health importance.     

Influence of hydrographic features on larval fish distribution during the south‐westerly monsoon in the waters of Taiwan,western North Pacific Ocean

The spatial distribution patterns of fish larvae and the relationships with hydrographic conditions in the waters surrounding Taiwan were studied in August 2004 when the south‐westerly monsoon prevailed. A total of 6566 fish larvae were identified, belonging to 80 families, 129 genera and 230 species. Cluster analysis revealed two station groups, one associated with the South China Sea Surface Current (SCSSC) and the other with the Kuroshio Current (KC). The SCSSC group was characterized by mostly coastal and neritic species, and the KC group was predominated by oceanic species. Larger fish larvae were generally more abundant in the neritic waters west of Taiwan where the SCSSC prevails than in the waters east of Taiwan where the KC prevails. The combination of chlorophyll a, zooplankton and nitrite best explained the relationship of larval fish distribution and environmental variables, implying that the distribution of fish larvae in summer was closely linked to the food source. The changing of monsoons potentially affects the succession of water masses and the transport and assemblage of fish larvae in this study area.     

Network analysis for co‐occurrence of pest insects on host crops

In this study, the co‐occurrence patterns of 618 pest insects for 47 host crops, including vegetables, grains, and fruits, were identified. To identify the pest co‐occurrence patterns for various crops, and the interactions among the pest insects and crops, we employed social network analysis methods. We used three traditional centrality measures (degree, closeness, and eigenvector) to determine the relative significance of each crop and pest as a node in the network. Throughout the network analysis, crops and pest nodes were divided into six groups, based on modularity. Crops in the same group could be considered as alternate hosts for pests from the same group. There were clear differences in the cultural practices between groups (i.e., dryland farming versus wetland farming). This indicated that dryland crop pests do not use wetland crops as resources. Pome fruit trees, such as apple and pear, had high centrality indices, which indicated the importance of these crops in the network and their high vulnerability to damage by a multitude of pests. In this study, although it was assumed that all crops were cultivated on the same piece of land during a single growing season, the complex interactions between the whole units were visualized and analyzed as a computable network.     

Fish assemblages associated with oil industry structures on the continental shelf of north‐western Australia

This study provides the first assessment of fish associations with oil and gas structures located in deep water (85–175 m) on Australia's north‐west continental shelf, using rare oil industry video footage obtained from remotely operated vehicles. A diverse range of taxa were observed associating with the structures, including reef‐dependent species and transient pelagic species. Ten commercially fished species were observed, the most abundant of which was Lutjanus argentimaculatus, with an estimated biomass for the two deepest structures (Goodwyn and Echo) of 109 kg.