Dryad Data Packages

Data from: The impact of paralogy on phylogenomic studies - a case study on annelid relationships

Fri, 17 May 2013 14:20:18 GMT

Phylogenomic studies based on hundreds of genes derived from expressed sequence tags libraries are increasingly used to reveal the phylogeny of taxa. A prerequisite for these studies is the assignment of genes into clusters of orthologous sequences. Sophisticated methods of orthology prediction are used in such analyses, but it is rarely assessed whether paralogous sequences have been erroneously grouped together as orthologous sequences after the prediction, and whether this had an impact on the phylogenetic reconstruction using a super-matrix approach. Herein, I tested the impact of paralogous sequences on the reconstruction of annelid relationships based on phylogenomic datasets. Using single-partition analyses, screening for bootstrap support, blast searches and pruning of sequences in the supermatrix, wrongly assigned paralogous sequences were found in eight partitions and the placement of five taxa (the annelids Owenia, Scoloplos, Sthenelais and Eurythoe and the nemertean Cerebratulus) including the robust bootstrap support could be attributed to the presence of paralogous sequences in two partitions. Excluding these sequences resulted in a different, weaklier supported placement for these taxa. Moreover, the analyses revealed that paralogous sequences impacted the reconstruction when only a single taxon represented a previously supported higher taxon such as a polychaete family. One possibility of a priori detection of wrongly assigned paralogous sequences could to combine 1) a screening of single-partition analyses based on criteria such as nodal support or internal branch length with 2) blast searches of suspicious cases as presented herein. Also possible are a posteriori approaches in which support for specific clades is investigated by comparing alternative hypotheses based on differences in per-site likelihoods. Increasing the sizes of EST libraries will also decrease the likelihood of wrongly assigned paralogous sequences, and in the case of orthology prediction methods like HaMStR it is likewise decreased by using more than one reference taxon.

Data from: The cross-bridge spring: can cool muscles store elastic energy?

Fri, 17 May 2013 14:10:00 GMT

Muscles not only generate force. They may act as springs, providing energy storage to drive locomotion. Although extensible myofilaments are implicated as sites of energy storage, we show that intramuscular temperature gradients may enable molecular motors (cross-bridges) to store elastic strain energy. Using time-resolved small-angle X-ray diffraction paired with in situ measurements of mechanical energy exchange in flight muscle of Manduca sexta we produced high-speed movies of X-ray equatorial reflections indicating cross-bridge association with myofilaments. A temperature gradient within the flight muscle leads to lower cross-bridge cycling in the cooler regions. Those cross-bridges could elastically return energy at the extrema of muscle lengthening and shortening, helping drive cyclic wing motions. These results suggest cross-bridges can perform functions other than contraction, acting as molecular links for elastic energy storage.

Data from: Stress hormones mediate predator-induced phenotypic plasticity in amphibian tadpoles

Thu, 16 May 2013 18:55:58 GMT

Amphibian tadpoles display extensive anti-predator phenotypic plasticity, reducing locomotory activity and, with chronic predator exposure, developing relatively smaller trunks and larger tails. In many vertebrates, predator exposure alters activity of the neuroendocrine stress axis. We investigated predator-induced effects on stress hormone production and the mechanistic link to anti-predator defences in Rana sylvatica tadpoles. Whole-body corticosterone (CORT) content was positively correlated with predator biomass in natural ponds. Exposure to caged predators in mesocosms caused a reduction in CORT by 4 hours, but increased CORT after 4 days. Tadpoles chronically exposed to exogenous CORT developed larger tails relative to their trunks, matching morphological changes induced by predator chemical cue; this predator effect was blocked by the corticosteroid biosynthesis inhibitor metyrapone. Tadpole tail explants treated in vitro with CORT increased tissue weight, suggesting that CORT acts directly on the tail. Short-term treatment of tadpoles with CORT increased predation mortality, likely due to increased locomotory activity. However, long-term CORT treatment enhanced survivorship, likely due to induced morphology. Our findings support the hypothesis that tadpole physiological and behavioural/morphological responses to predation are causally interrelated. Tadpoles initially suppress CORT and behaviour to avoid capture, but increase CORT with longer exposure, inducing adaptive phenotypic changes.

Data from: Structure of a mosaic hybrid zone between the field crickets Gryllus firmus and G. pennsylvanicus

Thu, 16 May 2013 18:38:45 GMT

Hybrid zones provide insight into the nature of species boundaries and the evolution of barriers to gene exchange. Characterizing multiple regions within hybrid zones is essential for understanding both their history and current dynamics. Here, we describe a previously uncharacterized region of a well-studied hybrid zone between two species of field crickets, Gryllus pennsylvanicus and G. firmus. We use a combination of mitochondrial DNA sequencing, morphological data, and modeling of environmental variables to identify the ecological factors structuring the hybrid zone and define patterns of hybridization and introgression. We find an association between species distribution and natural habitat; Gryllus pennsylvanicus occupies natural habitat along forest edges and natural clearings, whereas G. firmus occupies more disturbed areas in agricultural and suburban environments. Hybridization and introgression occur across patch boundaries; there is evidence of substantial admixture both in morphological characters and mtDNA, over a broad geographic area. Nonetheless, the distribution of morphological types is bimodal. Given that F1 hybrids are viable and fertile in the lab, this suggests that strong pre-zygotic barriers are operating in this portion of the hybrid zone.

Data from: PyroClean: Denoising pyrosequences from protein-coding amplicons for the recovery of interspecific and intraspecific genetic variation

Thu, 16 May 2013 18:27:32 GMT

Data from: Distinct neural and neuromuscular strategies underlie independent evolution of simplified advertisement calls

Thu, 16 May 2013 18:07:22 GMT

Independent or convergent evolution can underlie phenotypic similarity of derived behavioural characters. Determining the underlying neural and neuromuscular mechanisms sheds light on how these characters arose. One example of evolutionarily derived characters is a temporally simple advertisement call of male African clawed frogs (Xenopus) that arose at least twice independently from a more complex ancestral pattern. How did simplification occur in the vocal circuit? To distinguish shared from divergent mechanisms, we examined activity from the calling brain and vocal organ (larynx) in two species that independently evolved simplified calls. We find that each species uses distinct neural and neuromuscular strategies to produce the simplified calls. Isolated Xenopus borealis brains produce fictive vocal patterns that match temporal patterns of actual male calls; the larynx converts nerve activity faithfully into muscle contractions and single clicks. In contrast, fictive patterns from isolated Xenopus boumbaensis brains are short bursts of nerve activity; the isolated larynx requires stimulus bursts to produce a single click of sound. Thus, unlike X. borealis, the output of the X. boumbaensis hindbrain vocal pattern generator is an ancestral burst-type pattern, transformed by the larynx into single clicks. Temporally simple advertisement calls in genetically distant species of Xenopus have thus arisen independently via reconfigurations of central and peripheral vocal neuroeffectors.

Data from: Landscape genetics of leaf-toed geckos in the tropical dry forest of northern Mexico

Thu, 16 May 2013 18:01:17 GMT

Habitat fragmentation due to both natural and anthropogenic forces continues to threaten the evolution and maintenance of biological diversity. This is of particular concern in tropical regions that are experiencing elevated rates of habitat loss. Although less well-studied than tropical rain forests, tropical dry forests (TDF) contain an enormous diversity of species and continue to be threatened by anthropogenic activities including grazing and agriculture. However, little is known about the processes that shape genetic connectivity in species inhabiting TDF ecosystems. We adopt a landscape genetic approach to understanding functional connectivity for leaf-toed geckos (Phyllodactylus tuberculosus) at multiple sites near the northernmost limit of this ecosystem at Alamos, Sonora, Mexico. Traditional analyses of population genetics are combined with multivariate GIS-based landscape analyses to test hypotheses on the potential drivers of spatial genetic variation. Moderate levels of within-population diversity and substantial levels of population differentiation are revealed by FST and Dest. Analyses using STRUCTURE suggest the occurrence of from 2 to 9 genetic clusters depending on the model used. Landscape genetic analysis suggests that forest cover, stream connectivity, undisturbed habitat, slope, and minimum temperature of the coldest period explain more genetic variation than do simple Euclidean distances. Additional landscape genetic studies throughout TDF habitat are required to understand species-specific responses to landscape and climate change and to identify common drivers. We urge researchers interested in using multivariate distance methods to test for, and report, significant correlations among predictor matrices that can impact results, particularly when adopting least-cost path approaches. Further investigation into the use of information theoretic approaches for model selection is also warranted.

Data from: Utilizing descriptive statements from the Biodiversity Heritage Library to expand the Hymenoptera Anatomy Ontology

Thu, 16 May 2013 17:42:48 GMT

Hymenoptera, the insect order that includes sawflies, bees, wasps, and ants, exhibitsan incredible diversity of phenotypes, with over 145,000 species described in a corpusof textual knowledge since Carolus Linnaeus. In the absence of specialized training,often spanning decades, however, these articles can be challenging to decipher. Muchof the vocabulary is domain-specific (e.g., Hymenoptera biology), historically without acomprehensive glossary, and contains much homonymous and synonymousterminology. The Hymenoptera Anatomy Ontology was developed to surmount thischallenge and to aid future communication related to hymenopteran anatomy, as wellas provide support for domain experts so they may actively benefit from the anatomyontology development. As part of HAO development, an active learning, dictionary-based, natural language recognition tool was implemented to facilitate Hymenopteraanatomy term discovery in literature. We present this tool, referred to at the "Proofer",as part of an iterative approach to growing phenotype-relevant ontologies, regardlessof domain. The process of ontology development results in a critical mass of terms thatis applied as a filter to the source collection of articles in order to reveal termoccurrence and biases in natural language species descriptions. Our results indicatethat taxonomists use domain-specific terminology that follows taxonomic specialization,particularly at superfamily and family level groupings.

Data from: Visual phenotype matching: cues to paternity are present in rhesus macaque faces

Thu, 16 May 2013 17:22:33 GMT

The ability to recognize kin and thus behaviourally discriminate between conspecifics based on genetic relatedness is of importance both in acquiring inclusive fitness benefits and to enable optimal inbreeding. In primates, mechanisms allowing recognition of paternal relatives are of particular interest, given that in these mating systems patrilineal information is unlikely to be available via social familiarity. Humans use visual phenotype matching based on facial features to identify their own and other's close relatives, and recent studies suggest similar abilities may be present in other species. However it is unclear to what extent familial resemblances remain detectable against the background levels of relatedness typically found within demes in the wild – a necessary condition if facial cues are to function in kin recognition under natural conditions. Here, we experimentally investigate whether parent-offspring relationships are discernible in rhesus macaque (Macaca mulatta) faces drawn from a large free-ranging population more representative of the latter scenario, and in which genetic relatedness has been well quantified from pedigrees determined via molecular markers. We used the human visual system as a means of integrating multiple types of facial cue simultaneously, and demonstrate that paternal, as well as maternal, resemblance to both sons and daughters can be detected even by human observers. Experts performed better than participants who lacked previous experience working with nonhuman primates. However the finding that even naïve individuals succeeded at the task underlines the strength of the phenotypic cues present in faces.

Data from: Phylogeny and systematics of the bee genus Osmia (Hymenoptera: Megachilidae) with emphasis on North American Melanosmia: Subgenera, synonymies, and nesting biology revisited

Thu, 16 May 2013 17:12:54 GMT

The predominantly Holarctic bee genus Osmia Panzer is species-rich and behaviorally diverse. A robust phylogeny of this genus is important for understanding the evolution of the immense variety of morphological and behavioral traits exhibited by this group. We infer a phylogeny of Osmia using DNA sequence data obtained from three nuclear genes (elongation factor 1-α, LW-rhodopsin and CAD) and the mitochondrial gene COI. Our taxon sampling places special attention on North American members of the subgenus Melanosmia Schmiedeknecht; we discuss the novel placement of a number of species traditionally assigned to O. (Melanosmia) and examine the relative support for alternative classifications of this species-rich subgenus. We use this new phylogeny to guide a reassessment of morphological and behavioral characters within Osmia. Our results provide support for the recognition of Osmia (Hapsidosmia), subgen. n., a monotypic subgenus containing Osmia iridis Cockerell & Titus. We synonymize Osmia (Mystacosmia) Snelling under O. (Melanosmia), syn. n. We synonymize Osmia (Acanthosmioides) Ashmead under O. (Melanosmia), syn. n., propose “odontogaster species group” as a replacement for the subgeneric name Acanthosmioides, and refine the morphological characters that serve to diagnose the species group. We additionally propose “nigrifrons species group” for a clade within O. (Melanosmia) containing most species formerly placed in Osmia (Centrosmia) Robertson. We demonstrate more cohesive patterns of nest substrate use in the nigrifrons and odontogaster species groups than was previously believed to occur, reconsider character polarity of aspects of the female mandible, and show that a large number of morphological characters have evolved convergently within the genus. In order to facilitate discussion of relevant taxa, we propose the following 15 new synonymies: O. bakeri Sandhouse under O. melanopleura Cockerell; O. crenulaticornis Michener under O. pinorum Cockerell; O. claremontensis Michener under O. sedula Sandhouse; O. cockerelli Sandhouse under O. dakotensis Michener; O. francisconis White under O. enixa Sandhouse; O. hurdi White under O. austromaritima Michener; O. sladeni Sandhouse under O. nifoata Cockerell; O. titusi Cockerell under O. phenax Cockerell; O. subtrevoris Cockerell, O. physariae Cockerell, and O. erecta Michener under O. giliarum Cockerell; and O. universitatis Cockerell, O. integrella Cockerell, O. amala Cockerell, and O. metitia Cockerell under O. nigrifrons Cresson, syn. n. We remove O. wyomingensis Michener from synonymy with O. nifoata Cockerell, stat. n., and O. pinorum Cockerell from synonymy with O. physariae Cockerell, stat. n.

Data from: Phylogenetic analysis of 47 chloroplast genomes clarifies the contribution of wild species to the domesticated apple maternal line

Thu, 16 May 2013 16:52:59 GMT

Both the origin of domesticated apple and the overall phylogeny of the genus Malus are still not completely resolved. Having this as a target, we built a 134,553 position long alignment including two previously published cpDNAs and 45 de novo sequenced, fully co-linear chloroplast genomes from cultivated apple varieties and wild apple species. The data produced are free from compositional heterogeneity and from substitutional saturation, which can adversely affect phylogeny reconstruction. Phylogenetic analyses based on this alignment recovered a branch, having the maximum bootstrap support, subtending a large group of the cultivated apple sorts together with all analyzed European wild apple (Malus sylvestris) accessions. One apple cultivar was embedded in a monophylum comprising wild M. sieversii accessions and other Asian apple species. The data demonstrate that M. sylvestris has contributed chloroplast genome to a substantial fraction of domesticated apple varieties, supporting the conclusion that different wild species should have contributed the organelle and nuclear genomes to domesticated apple.

Data from: Molecular phylogeny of an ancient rodent family (Aplodontiidae)

Thu, 16 May 2013 16:49:36 GMT

The family Aplodontiidae contains a single, monotypic extant genus, Aplodontia (mountain beaver), which was 1st described by Rafinesque in 1817. Phylogenetic studies have shown that it is the sister lineage to squirrels. Aplodontia rufa is endemic to the Pacific Northwest and ranges from central California to British Columbia. Currently, 7 described subspecies are recognized based on morphological taxonomic studies. In this study, mitochondrial and nuclear genes were sequenced to infer molecular phylogenies of A. rufa. One of the goals of this study was to test the current taxonomic hypothesis based on morphology with molecular data. Another goal was to incorporate geographic information to elucidate distributions of major clades. Our results support the previously held subspecies designations based on morphological taxonomy, with 1 main exception: we determined that within A. rufa, the subspecies A. rufa rainieri and A. rufa rufa north of the Columbia River represent a single lineage and should revert to the name A. rufa olympica. Although we revised geographic boundaries for some groups (A. r. rufa, A. r. olympica, A. r. pacifica), only the conservation status and management of A. r. olympica (previously 2 subspecies) in Canada may be affected. Our findings support the continued conservation efforts for the isolated and endangered lineages present in coastal California.

Data from: Do unattractive friends make you look better? Context-dependent male mating preferences in the guppy

Thu, 16 May 2013 15:51:41 GMT

Recent theory predicts that in species where females tend to mate with the relatively most ornamented males, males may increase their attractiveness to females, and hence mating success, by preferentially associating with females that are surrounded by less ornamented competitors. Despite this prediction, we still lack explicit experimental evidence that males strategically prefer females surrounded by less attractive competitors to maximise their relative attractiveness In this paper we provide a comprehensive test of this hypothesis in the guppy (Poecilia reticulata), a species where female’s perception of a male’s attractiveness depends on his coloration relative to that of surrounding males. We found that males preferentially associated with females that were surrounded by relatively drab competitors, and that the strength of an individual male’s preference was negatively correlated with his level of ornamentation. A series of control experiments made it possible to exclude the potentially confounding effects of male-male competition or social motivations when drawing these conclusions. The ability of males to choose social context to increase their relative attractiveness has important evolutionary consequences, for example by contributing towards the maintenance of variability in male sexual ornamentation despite the strong directional selection exerted by female preferences.

Data from: Outcomes of co-infection by two potyviruses: implications for the evolution of manipulative strategies

Thu, 16 May 2013 14:58:12 GMT

Recent studies have documented effects of plant-viruses on host plants that appear to enhance transmission by insect vectors. But, almost no empirical work has explored the implications of such apparent manipulation for interactions among co-infecting pathogens. We examined single and mixed infections of two potyviruses, Watermelon mosaic virus (WMV) and Zucchini yellow mosaic virus (ZYMV), that frequently co-occur in cucurbitaceae populations and share the same aphid vectors. We found that ZYMV isolates replicated at similar rates in single and mixed infections, while WMV strains accumulated to signficantly lower levels in the presence of ZYMV. Furthermore, ZYMV induced changes in leaf colour and volatile emissions that enhanced aphid (Aphis gossypii) recruitment to infected plants. In contrast, WMV did not elicit strong effects on plant-aphid interactions. Nevertheless, WMV was still readily transmitted from mixed infections, despite fairing poorly in in-plant competition. These findings suggest that pathogen effects on host-vector interactions may well influence competition among co-infecting pathogens. For example, if non-manipulative pathogens benefit from the increased vector traffic elicited by manipulative competitors, their costs of competition may be mitigated to some extent. Conversely, the benefits of manipulation may be limited by free-rider effects in systems where there is strong competition among pathogens for host resources and/or access to vectors.

Data from: Intracellular glucocorticoid receptors in spleen, but not skin, vary seasonally in wild house sparrows (Passer domesticus)

Thu, 16 May 2013 14:05:19 GMT

Over the short-term and at physiological doses, acute increases in corticosterone (CORT) titres can enhance immune function. There are predictable seasonal patterns in both circulating CORT and immune function across many animal species, but whether CORT receptor density in immune tissues varies seasonally is currently unknown. Using radioligand binding assays, we examined changes in concentrations of glucocorticoid receptors (GR) and mineralocorticoid receptors (MR) in spleen and skin in wild-caught house sparrows in Massachusetts during six different life-history stages: moult, early winter, late winter, pre-egg-laying, breeding and late breeding. Splenic GR and MR binding were highest during the pre-laying period. This may help animals respond to immune threats through increased lymphocyte proliferation and/or an increase in delayed-type hypersensitivity reactions, both of which CORT can stimulate and in which spleen is involved. A decrease in splenic GR and MR during the late breeding period coincides with low baseline and stress-induced CORT, suggesting immune function in spleen may be relatively CORT-independent during this period. We saw no seasonal patterns in GR or MR in skin, suggesting skin's response to CORT is modulated primarily via changes in circulating CORT titres and/or via local production of CORT in response to wounding and other noxious stimuli.

Data from: Artificial light at night advances avian reproductive physiology

Thu, 16 May 2013 14:00:03 GMT

Artificial light at night is a rapidly increasing phenomenon and it is presumed to have global implications. Light at night has been associated with health problems in humans as a consequence of altered biological rhythms. Effects on wild animals have been less investigated, but light at night has often been assumed to affect seasonal cycles of urban dwellers. Using light loggers attached to free-living European blackbirds (Turdus merula), we first measured light intensity at night which forest and city birds are subjected to in the wild. Then we used these measurements to test for the effect of light at night on timing of reproductive physiology. Captive city and forest blackbirds were exposed to either dark nights or very low light intensities at night (0.3 lux). Birds exposed to light at night developed their reproductive system up to one month earlier, and also moulted earlier, than birds kept under dark nights. Furthermore, city birds responded differently than forest individuals to the light at night treatment, suggesting that urbanization can alter the physiological phenotype of songbirds. Our results emphasize the impact of human-induced lighting on the ecology of millions of animals living in cities and call for an understanding of the fitness consequences of light pollution.

Data from: Pathways of cryptic invasion in a fish parasite traced using coalescent analysis and epidemiological survey

Wed, 15 May 2013 20:53:30 GMT

Introduced species have the potential to outperform natives via the introduction of new parasites to which the native ecosystem is vulnerable. Cryptic diversity within an invasive species can obscure invasion patterns and confound proper management measures. The aim of this study is to use coalescent theory based methodology to trace recent routes of invasion in populations of Ligula intestinalis, a globally distributed fish parasite possessing both native and recently introduced populations in North Africa. Molecular analyses of mitochondrial DNA discerned a pronounced genetic divergence between introduced and native populations. Distribution of mitochondrial haplotypes demonstrated common origin of European populations with North African parasites sampled from introduced fish species in Tunisia. To test the suggested pathway of introduction, microsatellite data were examined in a model- based coalescent analysis using the software MIGRATE, where Europe to Tunisia direction of migration was favoured over alternative hypotheses of gene flow. Specificity of Tunisian populations to different host species was assessed in an epidemiologic survey confirming prevailing host-based division between introduced and native parasites in North Africa. This approach combining advanced analysis of molecular markers with host-specificity data allows revealing the evolution of host-parasite interactions following biological invasion and provides basis for devising future management measurements.

Data from: Generalist insects behave in a jasmonate-dependent manner on their host plants, leaving induced areas quickly and staying longer on distant parts

Wed, 15 May 2013 20:23:49 GMT

Plants are sessile so have evolved sensitive ways to detect attacking herbivores, and sophisticated strategies to effectively defend themselves. Insect herbivory induces synthesis of the phytohormone jasmonic acid which activates downstream metabolic pathways for various chemical defences such as toxins and digestion inhibitors. Insects are also sophisticated animals, and many have co-evolved physiological adaptations that negate this induced plant defence. Insect behaviour has rarely been studied in the context of induced plant defence, although behavioural adaptation to induced plant chemistry may allow insects to bypass the host’s defence system. By visualizing jasmonate-responsive gene expression within whole plants, we uncovered spatial and temporal limits to the systemic spread of plant chemical defence following herbivory. By carefully tracking insect movement, we found induced changes in plant chemistry were detected by generalist Helicoverpa armigera insects which then modified their behaviour in response, moving away from induced parts and staying longer on un-induced parts of the same plant. This study reveals there are plant-wide signals rapidly generated following herbivory that allow insects to detect the heterogeneity of plant chemical defences. Some insects use these signals to move around the plant, avoiding localised sites of induction and staying ahead of induced toxic metabolites.

Data from: Allee effects in ants

Wed, 15 May 2013 17:48:00 GMT

1. Allee effects occur when the aggregation of individuals result in mutually beneficial intraspecific interactions whereby individual fitness, or per capita growth rate, increases with the number of individuals. Allee effects are common in social species due to their cooperative behaviours, such as breeding, feeding, or defence. Allee effects have important implications for many aspects of basic and applied ecology. Over the past decades, the study of Allee effects has influenced population dynamics, community ecology, endangered species management, and invasion biology. 2. Despite the fact that cooperation is the basis of their social structure, Allee effects have received little attention among eusocial insects. Extreme cooperation is common and reproductive specialization of individuals occurs due to division of labour. These life history traits suggest that the potential contribution of each caste to reproduction and survival may be differential and nonadditive. 3. We studied Allee effects in the invasive Argentine ant (Linepithema humile). In this species, many queens and workers are present in colonies, which allowed us to explore the differential effects of castes on the presence of Allee effects. In the laboratory, we measured brood production and individual survival in experimental colonies that differed in the initial numbers of queens and workers. 4. Our results highlight the differential effect of queens and workers on survival and productivity. We found three positive density-dependent relationships indicative of component Allee effects at the colony level: both workers and queens had a positive effect on the productivity of the other caste, and queens had a positive effect on worker survivorship. 5. Our experimental results suggest a potential positive feedback between worker and queen abundance, which may have contributed to the evolution of large colony sizes. Our study provides the first evidence of Allee effects in eusocial insects, and highlights the need to consider castes separately in population dynamics. Division of labour and differential reproductive rates are factors that should be integrated into the study of Allee effects.

Data from: Feeding-induced rearrangement of green leaf volatiles reduces moth oviposition

Wed, 15 May 2013 17:40:08 GMT

The ability to decrypt volatile plant signals is essential if herbivorous insects are to optimize their choice of host plants for their offspring. Green leaf volatiles (GLVs) constitute a widespread group of defensive plant volatiles that convey a herbivory-specific message via their isomeric composition: feeding of the tobacco hornworm Manduca sexta converts (Z)-3- to (E)-2-GLVs thereby attracting predatory insects. Here we show that this isomer-coded message is monitored by ovipositing M. sexta females. We detected the isomeric shift in the host plant Datura wrightii and performed functional imaging in the primary olfactory center of M. sexta females with GLV structural isomers. We identified two isomer-specific regions responding to either (Z)-3- or (E)-2-hexenyl acetate. Field experiments demonstrated that ovipositing Manduca moths preferred (Z)-3-perfumed D. wrightii over (E)-2-perfumed plants. These results show that (E)-2-GLVs and/or specific (Z)-3/(E)-2-ratios provide information regarding host plant attack by conspecifics that ovipositing hawkmoths use for host plant selection.

Data from: Temporal dynamics of direct reciprocal and indirect effects in a host-parasite network

Wed, 15 May 2013 17:27:17 GMT

1. Temporal variation in the direct and indirect influence that hosts and parasites exert on each other is still poorly understood. However, variation in species’ influence due to species and interactions turnover can have important consequences for host community dynamics and/or for parasite transmission dynamics, and eventually for the risk of zoonotic diseases. 2. We used data on a network of small mammals and their ectoparasites surveyed over six years to test hypotheses exploring (1) the temporal variability in direct and indirect influences species exert on each other in a community, and (2) the differences in temporal variability of direct/indirect influences between temporally persistent and temporally intermittent species. 3. We modelled the temporal variation in: (1) direct reciprocal influence between hosts and parasites (hosts providing resources to parasites and parasites exploiting the resources of hosts), using an asymmetry index; and (2) indirect influence among species within a community (e.g. facilitation of parasite infestation by other parasites), using betweenness centrality. We also correlated asymmetry and centrality to examine the relationship between them. 4. Network dynamics was determined by temporally persistent species but even those species had strong among-species heterogeneity in the temporal variation of the direct/indirect effects they exerted. In addition, there was a significant positive linear correlation between asymmetry and centrality. 5. We conclude that the temporal dynamics of host-parasite interactions is driven by temporally persistent hosts. However, even within this group of persistent species, some exhibit large temporal variation, such that the functional roles they play (e.g. in promoting parasite transmission) change over time. In addition, parasites having a large negative impact on hosts are also those facilitating the spread of other parasites through the entire host community. Our results provide new insights into community dynamics and can be applied in the management of antagonistic networks aimed at preventing disease outbreaks.

Data from: The soundscapes of lakes across an urbanization gradient

Wed, 15 May 2013 16:49:56 GMT

Background/Methodology: A significant implication of increasing urbanization is anthropogenic noise pollution. Although noise is strongly associated with disruption of animal communication systems and negative health effects for humans, the study of these consequences at ecologically relevant spatial and temporal scales (termed ‘soundscape ecology’) is in early stages of application. In this study, we examined the above- and below-water soundscape of recreational and residential lakes in the region surrounding a large metropolitan area. Using univariate and multivariate approaches we test the importance of large- and local-scale landscape factors in driving acoustic characteristics across an urbanization gradient, and visualize changes in the soundscape over space and time. Principal Findings: Anthropogenic noise (‘anthrophony’) was strongly predicted by a landcover-based metric of urbanization (within a 10 km radius of the lake), with presence of a public park as a secondary influence; this urbanization signal was apparent even in below-water recordings. The percent of hourly measurements exceeding noise thresholds associated with outdoor disturbance was 67%, 17%, and 0%, respectively, for lakes characterized as High, Medium, and Low urbanization. Decreased biophony (proportion of natural sounds) was associated with presence of a public park followed by increased urbanization; time of day was also a significant predictor of biophony. Local-scale (shoreline) residential development was not related to changes in biophony. The patterns we identify are illustrated with a multivariate approach which allows use of entire sound samples and facilitates interpretation of changes in a soundscape. Conclusions/Significance: As highly valued residential and recreation areas, lakes represent ‘everyday soundscapes’ important to both humans and wildlife. Our findings that many of these areas, particularly those with public parks, routinely experience sound types and levels associated with disturbance, suggests that urban planners need to account for the effect of increasing development on soundscapes to avoid compromising goals for ecological and human health.

Data from: Tactic-specific differences in seminal fluid influence sperm performance

Wed, 15 May 2013 16:39:15 GMT

Seminal fluid often makes up a large part of an ejaculate, yet most empirical and theoretical studies on sperm competition have focused on how sperm characteristics (number and quality) affect fertilization success. However, seminal fluid influences own sperm performance and may potentially influence the outcome of sperm competition, by affecting also that of rivals. As a consequence males may be expected to allocate their investment in both sperm and seminal fluid in relation to the potential level of competition. Grass goby (Zosterisessor ophiocephalus) is an external fertilizer with guard-sneaker mating tactics, where sperm competition risk varies according to the tactic adopted. Here, we experimentally manipulated grass goby ejaculates by separately combining sperm and seminal fluid from territorial and sneaker males. While sperm of sneaker and territorial males did not differ in their performance when they interacted with their own seminal fluid only, sperm of sneakers increased their velocity and fertilization rate in presence of territorial males’ seminal fluid. In contrast, sneaker seminal fluid had a detrimental effect on the performance of territorial males' sperm. Sperm velocity was unaffected by the seminal fluid of males employing the same tactic, suggesting that seminal fluid's effect on rival-tactic sperm is not based on a self/non-self recognition mechanism. Our findings show that cross interactions of sperm and seminal fluid may influence the fertilization success of competing ejaculates with males investing in both sperm and seminal fluid in response to sperm competition risk.

Data from: Metamorphosis revealed: time-lapse three-dimensional imaging inside a living chrysalis

Wed, 15 May 2013 15:58:51 GMT

Studies of model insects have greatly increased our understanding our animal development. Yet they are limited in scope to this small pool of model species: a small number of representatives for a hyperdiverse group with highly varied developmental processes. One factor behind this narrow scope is the challenging nature of traditional methods of study, such as histology and dissection, which can preclude quantitative analysis and do not allow the development of a single individual to be followed. Here we use high resolution computed tomography to overcome these issues to 3D image numerous lepidopteran pupae throughout their development. The resulting models are presented in figures and supplementary videos taken for a single individual throughout development. They provide new insight and details of lepidotperan metamorphosis, and allow the measurement of tracheal and gut volume. Furthermore, this study demonstrates early and rapid development of the tracheal system – while unresolved in the caterpillar, tracheae become visible in scans just 12 hours after pupation. This suggests that there is less remodelling of the tracheal system than previously expected, and is methodologically important because the tracheal system is an often-understudied character systems in development. In the future this form of CT-scanning could allow faster and detailed developmental studies on a wider range of taxa than is presently possible.

Data from: Submicroscopic Plasmodium falciparum gametocyte densities frequently result in mosquito infection.

Wed, 15 May 2013 15:17:42 GMT

Submicroscopic Plasmodium falciparum gametocytemia (<5,000 gametocytes/mL) is common and may result in mosquito infection. We assessed the relation between gametocyte density and mosquito infection under experimental and field conditions using real-time quantitative nucleic acid sequence-based amplification (QT-NASBA) for gametocyte quantification. Serial dilutions of NF54 P. falciparum gametocytes showed a positive association between gametocyte density and the proportion of infected mosquitoes (beta=6.1; 95% confidence interval [CI], 2.7-9.6; P=0.001). Successful infection became unlikely below an estimated density of 250-300 gametocytes/mL. In the field, blood samples of 100 naturally infected children showed a positive association between gametocyte density and oocyst counts in mosquitoes (beta=0.38; 95% CI, 0.14-0.61; P=0.002). The relative contribution to malaria transmission was similar for carriers with submicroscopic and microscopic gametocytemia. Our results show that transmission occurs efficiently at submicroscopic gametocyte densities and that carriers harboring submicroscopic gametocytemia constitute a considerable proportion of the human infectious reservoir.

Data from: Substantial contribution of submicroscopical Plasmodium falciparum gametocyte carriage to the infectious reservoir in an area of seasonal transmission.

Wed, 15 May 2013 14:56:35 GMT

Background: Man to mosquito transmission of malaria depends on the presence of the sexual stage parasites, gametocytes, that often circulate at low densities. Gametocyte densities below the microscopical threshold of detection may be sufficient to infect mosquitoes but the importance of submicroscopical gametocyte carriage in different transmission settings is unknown. Methodology/Principal Findings: Membrane feeding experiments were carried out on 80 children below 14 years of age at the end of the wet season in an area of seasonal malaria transmission in Burkina Faso. Gametocytes were quantified by microscopy and by Pfs25-based quantitative nucleic acid sequence-based amplification assay (QT-NASBA). The children's infectiousness was determined by membrane feeding experiments in which a venous blood sample was offered to locally reared Anopheles mosquitoes. Gametocytes were detected in 30.0% (24/80) of the children by microscopy compared to 91.6% (65/71) by QT-NASBA (p<0.001). We observed a strong association between QT-NASBA gametocyte density and infection rates (p = 0.007). Children with microscopically detectable gametocytes were more likely to be infectious (68.2% compared to 31.7% of carriers of submicroscopical gametocytes, p = 0.001), and on average infected more mosquitoes (13.2% compared to 2.3%, p<0.001). However, because of the high prevalence of submicroscopical gametocyte carriage in the study population, carriers of sub-microscopical gametocytes were responsible for 24.2% of the malaria transmission in this population. Conclusions/Significance: Submicroscopical gametocyte carriage is common in an area of seasonal transmission in Burkina Faso and contributes substantially to the human infectious reservoir. Submicroscopical gametocyte carriage should therefore be considered when implementing interventions that aim to reduce malaria transmission.

Data from: Do differences in food web structure between organic and conventional farms affect the ecosystem service of pest control?

Wed, 15 May 2013 14:26:55 GMT

While many studies have demonstrated that organic farms support greater levels of biodiversity, it is not known whether this translates into better provision of ecosystem services. Here we use a food-web approach to analyse the community structure and function at the whole-farm scale. Quantitative food webs from 10 replicate pairs of organic and conventional farms showed that organic farms have significantly more species at three trophic levels (plant, herbivore and parasitoid) and significantly different network structure. Herbivores on organic farms were attacked by more parasitoid species on organic farms than on conventional farms. However, differences in network structure did not translate into differences in robustness to simulated species loss and we found no difference in percentage parasitism (natural pest control) across a variety of host species. Furthermore, a manipulative field experiment demonstrated that the higher species richness of parasitoids on the organic farms did not increase mortality of a novel herbivore used to bioassay ecosystem service. The explanation for these differences is likely to include inherent differences in management strategies and landscape structure between the two farming systems.

Data from: Hypogonadism and low bone mineral density in patients on long-term intrathecal opioid delivery therapy

Tue, 14 May 2013 18:13:01 GMT

Objectives This study aimed to investigate the hypothalamic-pituitary-gonadal axis in a sample of male patients undertaking intrathecal opioid delivery for the management of chronic non-malignant pain and the presence of osteopenia and/or osteoporosis in those diagnosed with hypogonadism. Design Observational study using health data routinely collected for non-research purposes. Setting Department of Pain Management, Russells Hall Hospital, Dudley, United Kingdom. Patients Twenty consecutive male patients attending follow-up clinics for intrathecal opioid therapy had the gonadal axis evaluated by measuring their serum luteinising hormone, follicle stimulating hormone, total testosterone, sex hormone binding globulin and calculation of free testosterone. Bone mineral density was measured by DEXA scanning in those patients diagnosed with hypogonadism. Results Based on calculated free testosterone concentrations, 17 (85%) patients had biochemical hypogonadism with 15 patients (75%) having free testosterone <180 pmol/L and 2 patients (10%) between 180 and 250 pmol/L. Bone mineral density was assessed in 14 of the 17 patients after the exclusion of 3 patients. Osteoporosis (defined as a T-score ≤ -2.5 SD) was detected in three patients (21.4%) and osteopenia (defined as a T-score between -1.0 and -2.5 SD) was observed in seven patients (50%). Five of the 14 patients (35.7%) were at or above the intervention threshold for hip fracture. Conclusion This study suggests an association between hypogonadism and low bone mass density in patients undertaking intrathecal opioid delivery for the management of chronic non-malignant pain. Surveillance of hypogonadism and bone mineral density levels followed by appropriate treatment may be paramount to reduce the risk of osteoporosis development and prevention of fractures in this group of patients.

Data from: Extracellular matrix-associated gene expression in adult sensory neurons cultured on laminin substrates

Tue, 14 May 2013 17:58:58 GMT

Background: In our previous investigations of the role of the extracellular matrix (ECM) in promoting neurite growth we have observed that a permissive laminin (LN) substrate stimulates differential growth responses in subpopulations of mature dorsal root ganglion (DRG) neurons. DRG neurons expressing Trk and p75 receptors grow neurites on a LN substrate in the absence of neurotrophins, while isolectin B4-binding neurons (IB4+) do not display significant growth under the same conditions. We set out to determine whether there was an expression signature of the LN-induced neurite growth phenotype. Using a lectin binding protocol IB4+ neurons were isolated from dissociated DRG neurons, creating two groups - IB4+ and IB4-. A small-scale microarray approach was employed to screen the expression of a panel of ECM-associated genes following dissociation (t=0) and after 24 hr culture on LN (t=24LN). This was followed by qRT-PCR and immunocytochemistry of selected genes. Results: The microarray screen showed that 36 of the 144 genes on the arrays were consistently expressed by the neurons. The array analyses showed that six genes had lower expression in the IB4+ neurons compared to the IB4- cells at t=0 (CTSH, Icam1, Itgβ1, Lamb1, Plat, Spp1), and one gene was expressed at higher levels in the IB4+ cells (Plaur). qRT-PCR was carried out as an independent assessment of the array results. There were discrepancies between the two methods, with qRT-PCR confirming the differences in Lamb1, Plat and Plaur, and showing decreased expression of AdamTs1, FN, and Icam in the IB4+ cells at t=0. After 24 hr culture on LN, there were no significant differences detected by qRT-PCR between the IB4+ and IB4- cells. However, both groups showed upregulation of Itgβ1 and Plaur after 24 hr on LN, the IB4+ group also had increased Plat, and the IB4- cells showed decreased Lamb1, Icam1 and AdamTs1. Further, the array screen also detected a number of genes (not subjected to qRT-PCR) expressed similarly by both populations in relatively high levels but not detectably influenced by time in culture (Bsg, Cst3, Ctsb, Ctsd, Ctsl, Mmp14, Mmp19, Sparc. We carried out immunohistochemistry to confirm expression of proteins encoded by a number of these genes. Conclusions:Our results show that 1B4+ and IB4- neurons differ in the expression of several genes that are associated with responsiveness to the ECM prior to culturing (AdamTs1, FN, Icam1, Lamb1, Plat, Plaur). The data suggest that the genes expressed at higher levels in the IB4- neurons could contribute to the initial growth response of these cells in a permissive environment and could also represent a common injury response that subsequently promotes axon regeneration. The differential expression of several extracellular matrix molecules (FN, Lamb1, Icam) may suggest that the IB4- neurons are capable of maintaining /secreting their local extracellular environment which could aid in the regenerative process. Overall, these data provide new information on potential targets that could be manipulated to enhance axonal regeneration in the mature nervous system.

Data from: Is the continental life of the European eel Anguilla anguilla affected by the parasitic invader Anguillicoloides crassus?

Mon, 13 May 2013 19:52:36 GMT

Quantifying the fitness cost that parasites impose on wild hosts is a challenging task because the epidemiological history of field-sampled hosts is often unknown. In this study we used an internal marker of the parasite pressure on individual hosts to evaluate the costs of parasitism with respect to host body condition, size increase and reproductive potential of field-collected animals for which we also determined individual age. In our investigated system, the European eel Anguilla anguilla and the parasitic invader Anguillicoloides crassus, high virulence and severe impacts are expected because the host lacks an adaptive immune response. We demonstrated a nonlinear relationship between the severity of damage to the affected organ (i.e. the swimbladder, our internal marker) and parasite abundance and biomass, thus showing that the use of classical epidemiological parameters was not relevant here. Surprisingly, we found that the most severely affected eels (with damaged swimbladder) had greater body length and mass (+11% and +41%, respectively) than unaffected eels of same age. We discuss mechanisms that could explain this finding and other counter-intuitive results in this host–parasite system, and highlight the likely importance of host panmixia in generating great inter-individual variability in growth potential and infection risk. Under that scenario, the most active foragers would not only have the greatest size increase, but also the highest probability of becoming repeatedly infected –via trophic parasite transmission– during their continental life.

Data from: Fruit flies medicate offspring after seeing parasites

Mon, 13 May 2013 18:58:58 GMT

Hosts have numerous defenses against parasites, of which behavioral immune responses are an important but under-appreciated component. Here we describe a behavioral immune response Drosophila melanogaster utilizes against endoparasitoid wasps. We found that when flies see wasps they switch to laying eggs in alcohol-laden food sources that protect hatched larvae from infection. This oviposition behavior change, mediated by neuropeptide F, is retained long after wasps are removed. Flies respond to diverse female larval endoparasitoids but not to pupal endoparasitoids or males, showing they maintain specific wasp search images. Furthermore, the response evolved multiple times across the genus Drosophila. Our data reveal a behavioral immune response based on anticipatory medication of offspring, and outline a non-associative memory paradigm based on innate parasite recognition by the host.

Data from: A multilocus phylogenetic analysis of Escallonia (Escalloniaceae): diversification in montane South America

Mon, 13 May 2013 18:40:18 GMT

The mountains of South America are hotspots of plant diversity. How this diversity originated and evolved, and what roles geographic and environmental factors may have played in the diversification of lineages occurring in these regions is not well understood. Escallonia, a morphologically and ecologically diverse group of shrubs and trees widely distributed in these mountains, provides an ideal opportunity for studying the historical underpinnings that have shaped the extraordinarily distinctive, diverse, and endangered flora of these regions, and for evaluating the role of abiotic factors in the process of lineage divergence. I analyzed neutral DNA sequence data from two nuclear loci and one chloroplast locus using maximum parsimony, maximum likelihood, and Bayesian phylogenetic approaches. I used a Bayesian approach to analyze the geographic structure of gene trees, and a phylogenetically controlled decomposition of the variance in bioclimatic variables to analyze the eco-climatic structure of gene trees. I found i) that Escallonia is monophyletic, ii) a remarkable level of geographical and climatic phylogenetic structure, iii) that Escallonia likely originated in the tropical Andes, and iv) a widespread absence of species exclusivity. Geography played an important role early on the history of Escallonia by separating populations that later diversify likely in isolation. Although geographic isolation was generally accompanied by changes in climate, it is not clear whether environmental gradients along elevation have influenced more recent diversification events, or species have evolved broader environmental tolerances.

Data from: Isolation and characterization of fifteen polymorphic microsatellite loci for the citrus mealybug, Planococcus citri (Hemiptera: Pseudococcidae), and cross-amplification in two other mealybug species

Mon, 13 May 2013 18:36:34 GMT

Data from: Proboscis profiler: a tool for detecting acanthocephalan morphotypes

Mon, 13 May 2013 18:34:08 GMT

Molecular studies conducted over the past 25 years have revealed previously unrecognised diversity in the phylum Acanthocephala. Several nominal species have been shown to represent complexes of morphologically cryptic biological species, a situation potentially confounding the analysis of ecological data. A software tool, ‘Proboscis profiler’, was developed to detect morphological heterogeneity in collections of superficially similar acanthocephalan worms based on the multivariate statistical analysis of proboscis hook dimensions. Proboscis profiler identifies objective, natural groups in a collection of acanthocephalans which may correspond to distinct biological species or populations. Initial trials demonstrate that Proboscis profiler can discriminate biological acanthocephalan species of the Echinorhynchus gadi Zoega in Müller, 1776 complex and differentiate between dorsal and ventral hook rows from the proboscis of E. salmonis Müller, 1784. Proboscis profiler is free software and can be downloaded from http://acanthocephala.sourceforge.net.

Data from: Does learning or instinct shape habitat selection?

Mon, 13 May 2013 18:27:25 GMT

Habitat selection is an important behavioural process widely studied for its population-level effects. Models of habitat selection are, however, often fit without a mechanistic consideration. Here, we investigated whether patterns in habitat selection result from instinct or learning for a population of grizzly bears (Ursus arctos) in Alberta, Canada. We found that habitat selection and relatedness were positively correlated in female bears during the fall season, with a trend in the spring, but not during any season for males. This suggests that habitat selection is a learned behaviour because males do not participate in parental care: a genetically predetermined behaviour (instinct) would have resulted in habitat selection and relatedness correlations for both sexes. Geographic distance and home range overlap among animals did not alter correlations indicating that dispersal and spatial autocorrelation had little effect on the observed trends. These results suggest that habitat selection in grizzly bears are partly learned from their mothers, which could have implications for the translocation of wildlife to novel environments.

Data from: Role of grooming in reducing tick load in wild baboons (Papio cynocephalus)

Mon, 13 May 2013 18:17:35 GMT

Nonhuman primate species spend a conspicuous amount of time grooming during social interactions, a behaviour that probably serves both social and health-related functions. While the social implications of grooming have been relatively well studied, less attention has been paid to the health benefits, especially the removal of ectoparasites, which may act as vectors in disease transmission. In this study, we examined whether grooming behaviour reduced tick load (number of ticks) and haemoprotozoan infection status in a population of wild adult baboons (Papio cynocephalus). We found that younger and higher-ranking adults were groomed more often than older, low-ranking adults, and females were groomed more often than males. Animals that received more grooming, in turn, had lower tick loads. Baboons with lower tick loads had higher packed red cell volume (PCV or haematocrit), one general measure of health status. We detected a tick-borne haemoprotozoan, Babesia microti, but its low prevalence in the population precluded identifying sources of variance in infection.

Data from: Correlated responses to clonal selection in populations of Daphnia pulicaria: mechanisms of genetic correlation and the creative power of sex

Mon, 13 May 2013 18:06:39 GMT

Genetic correlations among traits alter evolutionary trajectories due to indirect selection. Pleiotropy, chance linkage, and selection can all lead to genetic correlations, but have different consequences for phenotypic evolution. We sought to assess the mechanisms contributing to correlations with size at maturity in the cyclic parthenogen Daphnia pulicaria. We selected on size in each of four populations that differ in the frequency of sex, and evaluated correlated responses in a life table. Size at advanced adulthood, reproductive output, and adult growth rate clearly showed greater responses in high sex populations, with a similar pattern in neonate size and r. This pattern is expected only when trait correlations are favored by selection and the frequency of sex favors the creation and demographic expansion of highly fit clones. Juvenile growth and age at maturity did not diverge consistently. The inter-clutch interval appeared to respond more strongly in low sex populations, but this was not statistically significant. Our data support the hypothesis that correlated selection is the strongest driver of genetic correlations, and suggest that in organisms with both sexual and asexual reproduction, adaptation can be enhanced by recombination.

Data from: Alarming features: birds use specific acoustic properties to identify heterospecific alarm calls

Mon, 13 May 2013 17:56:52 GMT

Vertebrates that eavesdrop on heterospecific alarm calls must distinguish alarms from sounds that can safely be ignored, but the mechanisms for identifying heterospecific alarm calls are poorly understood. While vertebrates learn to identify heterospecific alarms through experience, some can also respond to unfamiliar alarm calls that are acoustically similar to conspecific alarm calls. We used synthetic calls to test the role of specific acoustic properties in alarm call identification by superb fairy wrens, Malurus cyaneus. Individuals fled more often in response to synthetic calls with peak frequencies closer to that of conspecific calls, even if other acoustic features were dissimilar to that of fairy-wren calls. Further, they then spent more time in cover following calls that had both peak frequencies and frequency modulation rates closer to natural fairy-wren means. Thus, fairy wrens use similarity in specific acoustic properties to identify alarms and adjust a two-stage antipredator response. Our study reveals how birds respond to heterospecific alarm calls without experience, and together with previous work using playback of natural calls shows that both acoustic similarity and learning are important for interspecific eavesdropping. More generally, this work reconciles contrasting views on the importance of alarm signal structure and learning in recognition of heterospecific alarms.

Data from: A multilocus perspective on phylogenetic relationships in the Namib darkling beetle genus Onymacris (Tenebrionidae)

Mon, 13 May 2013 17:42:27 GMT

Tenebrionid beetles, common constituent faunae of arid ecosystems worldwide, are particularly abundant in Africa’s Namib and Kalahari deserts. Within this region, flightless, diurnal members of the tribe Adesmiini are among the more intensively studied of all desert beetles, especially with regard to ecology. Much of this research centers on Onymacris, a psammophilous genus largely endemic to the Namib. Here we present the first molecular phylogenetic analysis conducted for Onymacris, emphasizing relationships among other adesmiines. Our multilocus phylogeny identifies a strongly supported clade containing Onymacris and two other genera, Eustolopus and Physadesmia—an assemblage recovered in earlier morphological analyses. However, Onymacris is not monophyletic; rather, we demonstrate its paraphyly with respect to the genus Physadesmia, identified as the sister taxon to the white-bodied species of Onymacris. In turn, the Physadesmia-‘white’ Onymacris clade is the sister group to the remaining (black-bodied) Onymacris. Non-monophyly of ‘black’ versus ‘white’ Onymacris is corroborated by distribution patterns and nodal age estimates, which suggest separate origins in different dune systems.

Data from: Long-term population size of the North Atlantic humpback whale within the context of worldwide population structure

Mon, 13 May 2013 17:30:19 GMT

Once hunted to the brink of extinction, humpback whales (Megaptera novaeangliae) in the North Atlantic have recently been increasing in numbers. However, uncertain information on past abundance makes it difficult to assess the extent of the recovery in this species. While estimates of pre-exploitation abundance based upon catch data suggest the population might be approaching pre-whaling numbers, estimates based on mtDNA genetic diversity suggest they are still only a fraction of their past abundance levels. The difference between the two estimates could be accounted for by inaccuracies in the catch record, by uncertainties surrounding the genetic estimate, or by differences in the timescale to which the two estimates apply. Here we report an estimate of long-term population size based on nuclear gene diversity. We increase the reliability of our genetic estimate by increasing the number of loci, incorporating uncertainty in each parameter and increasing sampling across the geographic range. We report an estimate of long-term population size in the North Atlantic humpback of ~112,000 individuals (95% CI: 45,000 – 235,000). This value is 2-3 fold higher than estimates based upon catch data. This persistent difference between estimates parallels difficulties encountered by population models in explaining the historical crash of North Atlantic humpback whales. The remaining discrepancy between genetic and catch-record values, and the failure of population models, highlights a need for continued evaluation of whale population growth and shifts over time, and continued caution about changing the conservation status of this population.

Data from: Host resistance, population structure and the long-term persistence of bubonic plague: contributions of a modelling approach in the Malagasy focus

Mon, 13 May 2013 17:17:31 GMT

Although bubonic plague is an endemic zoonosis in many countries around the world, the factors responsible for the persistence of this highly virulent disease remain poorly known. Classically, the endemic persistence of plague is suspected to be due to the coexistence of plague resistant and plague susceptible rodents in natural foci, and/or to a metapopulation structure of reservoirs. Here, we test separately the effect of each of these factors on the long-term persistence of plague. We analyse the dynamics and equilibria of a model of plague propagation, consistent with plague ecology in Madagascar, a major focus where this disease is endemic since the 1920s in central highlands. By combining deterministic and stochastic analyses of this model, and including sensitivity analyses, we show that (i) endemicity is favoured by intermediate host population sizes, (ii) in large host populations, the presence of resistant rats is sufficient to explain long-term persistence of plague, and (iii) the metapopulation structure of susceptible host populations alone can also account for plague endemicity, thanks to both subdivision and the subsequent reduction in the size of subpopulations, and extinction-recolonization dynamics of the disease. In the light of these results, we suggest scenarios to explain the localized presence of plague in Madagascar.

Data from: Information content is more important than sensory system or physical distance in guiding the long-term evolutionary relationships between signaling modalities in Sceloporus lizards

Mon, 13 May 2013 17:11:05 GMT

Long-term signal evolution is shaped by a variety of selective pressures including the need to convey additional information or to improve message transfer to specific receivers or through multiple environments. Here, we test the relative importance of information and sensory modality in shaping the long-term evolution of multimodal signals in Sceloporus lizards. To broadcast identity at territorial boundaries, male Sceloporus use both visual motion (headbob) and chemical signals, whereas they use color (blue belly patches) to signal aggression. Using modern phylogenetic comparative methods, we found a negative correlation between evolutionary changes in visual motion (headbobs) and chemical (femoral pore) signals, but only indirect ties between the evolution of color and motion signals (both of which are perceived visually) through viviparity, and no evidence of an evolutionary link between color and chemical signals. We also find a negative correlation between arboreality and chemical signals. Thus, information content (in this case, broadcasting individual identity versus signaling aggression) appears to play a more important role than sensory modality or physical distance in guiding long-term signal evolution. Additional insights into the underlying evolutionary processes are described, illustrating the utility of a phylogenetic approach.

Data from: Molecular identification of natural mangrove hybrids of Rhizophora in Peninsular Malaysia

Mon, 13 May 2013 17:01:24 GMT

Natural hybridization is common in plants. Very often, the identity of a putative hybrid is inferred based on the observation of morphological features intermediate between two possible parental species occurring in a specific location. However, due to plasticity of morphological features and the co-occurrence of more than two possible parental species, molecular markers would be most useful to establish the origin of a putative hybrid. In mangroves, three Rhizophora species (Rhizophora apiculata, Rhizophora mucronata, and Rhizophora stylosa) and two putative hybrids (Rhizophora × lamarckii and Rhizophora × annamalayana) are distributed in the Indo-West Pacific region. Leaf samples of Rhizophora were obtained from two locations in Peninsular Malaysia, namely, Bagan Lalang and Pulau Burung, where all three species grow in sympatry. We analyzed sequences of one chloroplast and six nuclear DNA regions. Our results confirmed earlier claims that the morphologically identified putative hybrids growing in Pulau Burung are R. × lamarckii, a cross between R. apiculata and R. stylosa. Our data also pointed to the possible discovery of a new Rhizophora hybrid—a cross between R. mucronata and R. stylosa—the identification of which would have been difficult based on morphological features alone. The directions and the stages of hybridization are also discussed.

Data from: Morphological variation in different populations of Aceria anthocoptes (Acari: Eriophyoidea) associated with the Canada thistle, Cirsium arvense, in Serbia

Mon, 13 May 2013 16:57:22 GMT

The russet mite, Aceria anthocoptes (Nal.), is the only eriophyid that has been recorded on Canada thistle, Cirsium arvense (L.) Scop. It has been noted in several European countries and recently in the USA. With its apparent host specificity and because of the damage it causes to its host plant, A. anthocoptes is being studied as a potential candidate for classical biological control. The aim of the present study was to examine quantitative morphological traits in four populations of A. anthocoptes living on two infraspecific host plant taxa (C. arvense var. arvense and C. arvense var. vestitum) in two geographically separate areas of Serbia in order to test the hypothesis of absence of the possible host plant impact on mite morphology. MANOVA analysis revealed significant differences between populations from different localities in Serbia. Populations of A. anthocoptes inhabiting two thistle varieties in the vicinity of Belgrade differed significantly from mites inhabiting the same two host varieties in the vicinity of the town of Ivanjica. Canonical discriminant analysis showed that the trait which best discriminates the populations of A. anthocoptes is the number of dorsal annuli. It was not possible to ascribe morphological differences to the impact of the host plant.

Data from: Population genetic structure of Picea engelmannii, P. glauca and their previously unrecognized hybrids in the central Rocky Mountains

Fri, 10 May 2013 19:49:58 GMT

Areas of geographic overlap between potentially hybridizing species provide the opportunity to study interspecific gene flow and reproductive barriers. Here we identified hybrids between Picea engelmannii and P. glauca by their genetic composition at 17 microsatellite markers, and determined the broad-scale geographic distribution of hybrids in the central Rocky Mountains of North America, a geographic region where hybrids and isolation between species had not previously been studied. Parameter estimates from admixture models revealed considerable variation in ancestry within and among collection sites, suggesting that within this area of geographic overlap, the interaction of the two species varies extensively. The results document a previously unrecognized patchy distribution of hybrids between P. engelmannii and P. glauca, including locations where hybrids were not known or expected to exist. Further, the ancestry of many hybrids was consistent with multiple generations of hybridization, with probable directional backcrossing to P. engelmannii, suggesting a relatively porous species boundary. The identification and characterization of hybridization between these spruce in this region raises the question of what factors maintain barriers to gene flow in these long-lived forest trees. The current research lays the groundwork for future study of the ecological and evolutionary contexts of their hybridization, as well as of differential introgression and permeability of species boundaries.

Data from: Songbird frequency selectivity and temporal resolution vary with sex and season

Fri, 10 May 2013 19:38:05 GMT

Many species of songbirds exhibit dramatic seasonal variation in song output. Recent evidence suggests that seasonal changes in auditory processing are coincident with seasonal variation in vocal output. Here we show for the first time that frequency selectivity and temporal resolution of the songbird auditory periphery change seasonally and in a sex-specific manner. Male and female house sparrows (Passer domesticus) did not differ in their frequency sensitivity during the non-breeding season, nor did they differ in their temporal resolution. In contrast, female house sparrows showed enhanced frequency selectivity during the breeding season which was matched by a concomitant reduction of temporal resolution. However, males failed to show seasonal plasticity in either of these auditory properties. We discuss potential mechanisms generating these seasonal patterns and the implications of sex-specific seasonal changes in auditory processing for vocal communication.

Data from: Characterization of the first Batrachochytrium dendrobatidis isolate from the Colombian Andes, an amphibian biodiversity hotspot

Fri, 10 May 2013 19:28:22 GMT

The pathogenic chytrid fungus, Batrachochytrium dendrobatidis (Bd), constitutes a significant threat to more than 790 amphibian species occurring in Colombia. To date there is no molecular or morphological description of strains infecting Colombian populations. Here we report the genetic and morphological characterization of the first Colombian isolate of Bd (strain EV001). Our goals were threefold: (1) to characterize the morphology of EV001 using light and scanning electron microscopy, (2) to genotype this strain by direct sequencing of 17 polymorphic nuclear markers developed previously, and (3) to compare our findings with published reports on strains from other areas of the globe. We found that EV001 is morphologically consistent with previously described strains. Multi-locus genotyping suggested that EV001 is grouped genetically with Panamanian strains and is most similar to JEL203 isolated from a captive individual. This finding fills an important gap in our knowledge of Neotropical strains of Bd and provides a baseline for further evolutionary and functional analyses.

Data from: Leaf size in three generations of a dioecious tropical tree, Ocotea tenera (Lauraceae): sexual dimorphism and changes with age

Fri, 10 May 2013 19:00:33 GMT

PREMISE OF THE STUDY: In dioecious species, selection should favor different leaf sizes in males and females whenever the sexes experience distinct environments or constraints, such as different costs of reproduction. We took advantage of a long-term experimental study of Ocotea tenera (Lauraceae), a dioecious understory tree in Monteverde, Costa Rica, to explore leaf size differences between genders and age classes across generations. METHODS: We measured leaf size in adult trees in a natural population, in their adult F1 offspring in two experimental populations, and in their F2 offspring at the seedling stage. Individual trees were measured at various times over a 20-year period. RESULTS: Leaves of female trees averaged 8% longer and 12% greater in area than those of males. Leaves were sexually dimorphic at reproductive maturity. Leaf size declined over the course of most trees’ lifetimes. Heritability estimates for leaf length were positive although not statistically significant (h2 = 0.63, SE = 0.48, P= 0.095). CONCLUSIONS: We ruled out the “ecological causation” hypothesis for sexual dimorphism in leaf size because male and female trees co-occurred in the same habitats. Sexual dimorphism appeared not to result from genetic or phenotypic correlations with other traits such as height or flower size. Rather, females appear to compensate for higher costs of reproduction and diminished photosynthetic capacity by producing larger leaves. Additive genetic variance in leaf size, a prerequisite for an evolutionary response to selection for sexual dimorphism, was suggested by positive (although only marginally significant) heritability estimates.

Data from: Butterfly survival on an isolated island by improved grip

Fri, 10 May 2013 18:30:31 GMT

On small isolated islands, natural selection is expected to reduce the dispersal capacity of organisms, as short distances do not require a high rate of dispersal, which might lead to accidental emigration from the population. In addition, individuals foregoing the high cost of maintaining flight capacity may instead allocate resources to other functions. However, in butterflies and many other insects, flight is necessary not only for dispersal but also for most other activities. A weakly flying individual would probably do worse and have an elevated rather than reduced probability of accidental emigration. Here, we report results consistent with the hypothesis that a butterfly population on an isolated island, instead of having lost its flight capacity, has evolved better grip to resist the force of wind and to avoid being blown off the island. Our study suggests that local adaptation has occurred in this population in spite of its very small size (Ne ∼ 100), complete isolation, low genetic variation and high genetic load.

Data from: Size-dependent physiological responses of shore crabs to single and repeated playback of ship noise

Fri, 10 May 2013 18:19:45 GMT

Anthropogenic noise has fundamentally changed the acoustics of terrestrial and aquatic environments, and there is growing empirical evidence that even a single noise exposure can impact behaviour in a variety of vertebrate organisms. Here we use controlled experiments to investigate how the physiology of a marine invertebrate, the shore crab (Carcinus maenas), is affected by both single and repeated exposure to ship-noise playback. Crabs experiencing ship-noise playback consumed more oxygen, indicating a higher metabolic rate and potentially greater stress, than those exposed to ambient-noise playback. The response to single ship-noise playback was size-dependent, with heavier crabs showing a stronger response than lighter individuals. Repeated exposure to ambient-noise playback led to increased oxygen consumption (likely due to handling stress), whereas repeated exposure to ship-noise playback produced no change in physiological response; explanations include the possibility that crabs exhibited a maximal response on first exposure to ship-noise playback or that they habituated or become tolerant to it. These results highlight that invertebrates, like vertebrates, may also be susceptible to the detrimental impacts of anthropogenic noise, and demonstrate their tractability for more detailed investigations into the effects of this pervasive global pollutant.