Weak Phylogenetic Signal Research Articles

The role of evolutionary modes for trait-based cascades in mutualistic networks

The erosion of functional diversity may foster the collapse of ecological systems. Functional diversity is ultimately determined by the distribution of species traits. As species traits are a legacy of species evolutionary history, one might expect that the mode of trait evolution influences community resistance under the loss of functional diversity. In this paper, we investigate the role of trait evolutionary dynamics on the robustness of mutualistic networks undergoing the following scenarios of species loss: (i) random extinctions, (ii) loss of functional distinctiveness and (iii) extinctions biased towards larger sizes. We simulated networks defined by models of single trait complementary and evolutionary modes where traits can arise in recent diversification events with weak phylogenetic signal, in early diversification events with strong phylogenetic signal, or as a random walk through evolutionary time. Our simulations show that mutualistic networks are especially vulnerable to extinctions based on trait distinctiveness and more robust to random extinction dynamics. The networks show an intermediate level of robustness against size-based extinctions. Despite the small range of variation in network robustness, our results show that the mode of trait evolution matters for network robustness in all three scenarios. Networks with low phylogenetic signal are more robust than networks with high phylogenetic signal across all scenarios. As a consequence, our results predict that mutualistic networks based upon current adaptations are more likely to cope with extinction dynamics than those networks that are based upon conserved traits.

Dung beetles maintain phylogenetic divergence but functional convergence across a highly fragmented tropical landscape

Abstract Understanding how human‐modified landscapes affect the phylogenetic composition and assembly mechanisms of biological communities is critical for effectively managing and restoring tropical ecosystems. We evaluated how forest coverage loss, fragmentation and landscape heterogeneity affect the phylogenetic diversity of dung beetles and their assembly mechanisms in Los Tuxtlas Biosphere Reserve, a protected but highly fragmented tropical landscape. We calculated Faith's phylogenetic diversity, mean pairwise phylogenetic distance and mean nearest taxon distance for 5,388 individuals in 36 species. The standardised effect sizes of these metrics were estimated to control their correlation with species richness. Phylogenetic diversity was also assessed separately for each dung beetle functional group. Finally, we compared the mean functional and phylogenetic pairwise distance and mean nearest taxon distance and measured the phylogenetic signal among dung beetle functional traits to determine the influence of niche conservatism on the phylogenetic structure of species assemblages. Faith's phylogenetic diversity of dung beetles was positively correlated with forest coverage, while their mean phylogenetic and nearest taxon distance values decreased with increasing landscape fragmentation. Necrophagous beetles and forest specialists responded most negatively to forest coverage loss and fragmentation. Alpha and beta diversity values showed phylogenetic overdispersion but functional convergence and weak phylogenetic signals in their functional traits, suggesting low niche conservatism. Landscapes with moderate forest coverage (≥40%) favoured higher phylogenetic beta diversity, whereas phylogenetic and functional beta diversity decreased significantly in landscapes with low forest coverage (<30%). Synthesis and applications. Forest habitats in fragmented landscapes are essential for safeguarding the evolutionary history of dung beetles, reducing biotic homogenisation processes by favouring phylogenetic overdispersion and complementarity between sites. Therefore, to secure the phylogenetic diversity of dung beetles within fragmented tropical reserves, we recommend protecting the existing forests, preventing further fragmentation of continuous forest areas and increasing matrix quality by implementing biodiversity‐friendly production systems. Finally, managers should consider assessing different functional groups in other species, as their response to landscape disturbance may not be phylogenetically similar. The above will allow more effective management practices to protect the species most susceptible to disturbances.

Interspecific differences in root foraging precision cannot be directly inferred from species' mycorrhizal status or fine root economics

Nutrient acquisition in plants can be represented by a suite of intercorrelated root traits such as root diameter, nitrogen content, root tissue density and specific root length. However, it is unclear how a plant's ability to precisely forage for nutrients in a heterogeneous soil environment (i.e. the precision of placing roots into nutrient‐rich areas) relates to these traits. Mycorrhizal symbiosis also affects the relationship between the fine root traits and root foraging precision because fungal hyphae may be used for foraging instead of roots. Hypotheses matching high root foraging precision with low mycorrhizal colonization or ‘fast' acquisitive strategies of plants have been raised based either on data from tree species or a limited number of herbaceous species.To test these hypotheses, we compiled data quantifying the experimentally measured degree to which root biomass responded to patchy substrate nutrient concentrations (i.e. root foraging precision) for 123 herbaceous grassland species using a partial meta‐analysis. We tested root foraging precision relationship with root traits involved in nutrient acquisition and mycorrhizal symbiosis (root diameter, specific root length, root tissue density, root tissue nitrogen content and mycorrhizal colonization). The root foraging precision data came from four different pot experiments, and the trait data were extracted from publicly available trait databases. We used a phylogenetically informed approach in order to detect the degree of conservation of the relationships.We found that root foraging precision was not significantly correlated with other fine root traits and mycorrhizal colonization. Thus, it appears unrelated to the main dimensions of the nutrient acquisition space of herbaceous species, namely acquisitive–conservative strategy and outsourcing of acquisition to the fungi. Also, we found only a very weak phylogenetic signal in root foraging precision of 123 species. Our results suggest that root foraging precision constitutes another distinct, evolutionarily independent dimension in herbaceous species' trait space.

Small and slow is safe: On the drought tolerance of tropical tree species.

Understanding how evolutionary history and the coordination between trait trade-off axes shape the drought tolerance of trees is crucial to predict forest dynamics under climate change. Here, we compiled traits related to drought tolerance and the fast-slow and stature-recruitment trade-off axes in 601 tropical woody species to explore their covariations and phylogenetic signals. We found that xylem resistance to embolism (P50) determines the risk of hydraulic failure, while the functional significance of leaf turgor loss point (TLP) relies on its coordination with water use strategies. P50 and TLP exhibit weak phylogenetic signals and substantial variation within genera. TLP is closely associated with the fast-slow trait axis: slow species maintain leaf functioning under higher water stress. P50 is associated with both the fast-slow and stature-recruitment trait axes: slow and small species exhibit more resistant xylem. Lower leaf phosphorus concentration is associated with more resistant xylem, which suggests a (nutrient and drought) stress-tolerance syndrome in the tropics. Overall, our results imply that (1) drought tolerance is under strong selective pressure in tropical forests, and TLP and P50 result from the repeated evolutionary adaptation of closely related taxa, and (2) drought tolerance is coordinated with the ecological strategies governing tropical forest demography. These findings provide a physiological basis to interpret the drought-induced shift toward slow-growing, smaller, denser-wooded trees observed in the tropics, with implications for forest restoration programmes.

Genome size evolution of the extant lycophytes and ferns

Ferns and lycophytes have remarkably large genomes. However, little is known about how their genome size evolved in fern lineages. To explore the origins and evolution of chromosome numbers and genome size in ferns, we used flow cytometry to measure the genomes of 240 species (255 samples) of extant ferns and lycophytes comprising 27 families and 72 genera, of which 228 species (242 samples) represent new reports. We analyzed correlations among genome size, spore size, chromosomal features, phylogeny, and habitat type preference within a phylogenetic framework. We also applied ANOVA and multinomial logistic regression analysis to preference of habitat type and genome size. Using the phylogeny, we conducted ancestral character reconstruction for habitat types and tested whether genome size changes simultaneously with shifts in habitat preference. We found that 2C values had weak phylogenetic signal, whereas the base number of chromosomes (x) had a strong phylogenetic signal. Furthermore, our analyses revealed a positive correlation between genome size and chromosome traits, indicating that the base number of chromosomes (x), chromosome size, and polyploidization may be primary contributors to genome expansion in ferns and lycophytes. Genome sizes in different habitat types varied significantly and were significantly correlated with habitat types; specifically, multinomial logistic regression indicated that species with larger 2C values were more likely to be epiphytes. Terrestrial habitat is inferred to be ancestral for both extant ferns and lycophytes, whereas transitions to other habitat types occurred as the major clades emerged. Shifts in habitat types appear be followed by periods of genomic stability. Based on these results, we inferred that habitat type changes and multiple whole-genome duplications have contributed to the formation of large genomes of ferns and their allies during their evolutionary history.

Gradual genome size evolution and polyploidy in Allium from the Qinghai-Tibetan Plateau.

Genome size is an important plant trait, with substantial interspecies variation. The mechanisms and selective pressures underlying genome size evolution are important topics in evolutionary biology. There is considerable diversity in Allium from the Qinghai-Tibetan Plateau, where genome size variation and related evolutionary mechanisms are poorly understood. We reconstructed the Allium phylogeny using DNA sequences from 71 species. We also estimated genome sizes of 62 species, and determined chromosome numbers in 65 species. We examined the phylogenetic signal associated with genome size variation, and tested how well the data fit different evolutionary models. Correlations between genome size variations and seed mass, altitude and 19 bioclimatic factors were determined. Allium genome sizes differed substantially between species and within diploids, triploids, tetraploids, hexaploids and octaploids. Size per monoploid genome (1Cx) tended to decrease with increasing ploidy levels. Allium polyploids tended to grow at a higher altitude than diploids. The phylogenetic tree was divided into three evolutionary branches. The genomes in Clade I were mostly close to the ancestral genome (18.781 pg) while those in Clades II and III tended to expand and contract, respectively. A weak phylogenetic signal was detected for Allium genome size. Furthermore, significant positive correlations were detected between genome size and seed mass, as well as between genome size and altitude. However, genome size was not correlated with 19 bioclimatic variables. Allium genome size shows gradual evolution, followed by subsequent adaptive radiation. The three well-supported Allium clades are consistent with previous studies. The evolutionary patterns in different Allium clades revealed genome contraction, expansion and relative stasis. The Allium species in Clade II may follow adaptive radiation. The genome contraction in Clade III may be due to DNA loss after polyploidization. Allium genome size might be influenced by selective pressure due to the conditions on the Qinghai-Tibetan Plateau (low temperature, high UV irradiation and abundant phosphate in the soil).

Power and Weakness of Repetition – Evaluating the Phylogenetic Signal From Repeatomes in the Family Rosaceae With Two Case Studies From Genera Prone to Polyploidy and Hybridization (Rosa and Fragaria)

Plant genomes consist, to a considerable extent, of non-coding repetitive DNA. Several studies showed that phylogenetic signals can be extracted from such repeatome data by using among-species dissimilarities from the RepeatExplorer2 pipeline as distance measures. Here, we advanced this approach by adjusting the read input for comparative clustering indirectly proportional to genome size and by summarizing all clusters into a main distance matrix subjected to Neighbor Joining algorithms and Principal Coordinate Analyses. Thus, our multivariate statistical method works as a “repeatomic fingerprint,” and we proved its power and limitations by exemplarily applying it to the family Rosaceae at intrafamilial and, in the genera Fragaria and Rosa, at the intrageneric level. Since both taxa are prone to hybridization events, we wanted to show whether repeatome data are suitable to unravel the origin of natural and synthetic hybrids. In addition, we compared the results based on complete repeatomes with those from ribosomal DNA clusters only, because they represent one of the most widely used barcoding markers. Our results demonstrated that repeatome data contained a clear phylogenetic signal supporting the current subfamilial classification within Rosaceae. Accordingly, the well-accepted major evolutionary lineages within Fragaria were distinguished, and hybrids showed intermediate positions between parental species in data sets retrieved from both complete repeatomes and rDNA clusters. Within the taxonomically more complicated and particularly frequently hybridizing genus Rosa, we detected rather weak phylogenetic signals but surprisingly found a geographic pattern at a population scale. In sum, our method revealed promising results at larger taxonomic scales as well as within taxa with manageable levels of reticulation, but success remained rather taxon specific. Since repeatomes can be technically easy and comparably inexpensively retrieved even from samples of rather poor DNA quality, our phylogenomic method serves as a valuable alternative when high-quality genomes are unavailable, for example, in the case of old museum specimens.

Environmentally-induced osmoregulation in Neotropical freshwater stingrays (Myliobatiformes: Potamotrygoninae) after controlling for phylogeny

The osmotic physiology of freshwater stingrays was investigated in fifteen species from white (WW), black (BW), and clearwater (CW) rivers of Brazilian hydrographic basins. Regardless of phylogeny, potamotrygonids collected in the BW (Negro, Jutai, Nhamunda, and Manacapuru rivers), and CW (Tapajos, Parana, Mutum, Demeni, and Branco rivers) exhibited lower levels of osmolytes and plasma osmolality than those from WW (Amazon estuary, Solimoes, and Tarauaca rivers). However, the gill and kidney Na+/K+-ATPase activities were higher in the potamotrygonid species from BW and CW than those from WW. These results may be related to the ability of the potamotrygonids to achieve high ion uptake from ion-poor waters, such as those of BW and/or CW. Additionally, the high kidney Na+/K+-ATPase activity may help to minimize ion loss and generate diluted urine. Thus, diffusional losses of salts are balanced by uptake of ions in the gill, and reabsorption by the kidney. The physiological traits showed a weak phylogenetic signal, which indicates a strong evolutionary convergence. Multivariate analyses revealed that variations in physiological traits has a significant association with the type of water, as well as its physical and chemical characteristics such as electric conductivity and pH. Therefore, the South American Neotropical freshwater stingrays adjust their osmoregulatory mechanisms according to the environment in which they live.

Phytochemistry reflects different evolutionary history in traditional classes versus specialized structural motifs

Foundational hypotheses addressing plant–insect codiversification and plant defense theory typically assume a macroevolutionary pattern whereby closely related plants have similar chemical profiles. However, numerous studies have documented variation in the degree of phytochemical trait lability, raising the possibility that phytochemical evolution is more nuanced than initially assumed. We utilize proton nuclear magnetic resonance (1H NMR) data, chemical classification, and double digest restriction-site associated DNA sequencing (ddRADseq) to resolve evolutionary relationships and characterize the evolution of secondary chemistry in the Neotropical plant clade Radula (Piper; Piperaceae). Sequencing data substantially improved phylogenetic resolution relative to past studies, and spectroscopic characterization revealed the presence of 35 metabolite classes. Metabolite classes displayed phylogenetic signal, whereas the crude 1H NMR spectra featured little evidence of phylogenetic signal in multivariate tests of chemical resonances. Evolutionary correlations were detected in two pairs of compound classes (flavonoids with chalcones; p-alkenyl phenols with kavalactones), where the gain or loss of a class was dependent on the other’s state. Overall, the evolution of secondary chemistry in Radula is characterized by strong phylogenetic signal of traditional compound classes and weak phylogenetic signal of specialized chemical motifs, consistent with both classic evolutionary hypotheses and recent examinations of phytochemical evolution in young lineages.

Intraspecific trait variation of woody species reduced in a savanna community, southwest China

Plants deploy various ecological strategies in response to environmental heterogeneity. In many forest ecosystems, plants have been reported to have notable inter- and intra-specific trait variation, as well as clear phylogenetic signals, indicating that these species possess a degree of phenotypic plasticity to cope with habitat variation in the community. Savanna communities, however, grow in an open canopy structure and exhibit little species diversification, likely as a result of strong environmental stress. In this study, we hypothesized that the phylogenetic signals of savanna species would be weak, the intraspecific trait variation (ITV) would be low, and the contribution of intraspecific variation to total trait variance would be reduced, owing to low species richness, multiple stresses and relatively homogenous community structure. To test these hypotheses, we sampled dominant woody species in a dry-hot savanna in southwestern China, focusing on leaf traits related to adaptability of plants to harsh conditions (year-round intense radiation, low soil fertility and seasonal droughts). We found weak phylogenetic signals in leaf traits and low ITV (at both individual and canopy-layer levels). Intraspecific variation (including leaf-, layer- and individual-scales) contributed little to the total trait variance, whereas interspecific variation and variation in leaf phenology explained substantial variance. Our study suggests that intraspecific trait variation is reduced in savanna community. Furthermore, our findings indicate that classifying species by leaf phenology may help better understand how species coexist under similar habitats with strong stresses.

Intra- and interspecific variations on plant functional traits along a successional gradient in a Brazilian tropical dry forest

The present study aimed to determine how plant functional traits change both at the intra- and interspecific levels along three successional stages (early, intermediate and late) in a Brazilian tropical dry forest (TDF). Plants in early-successional plots are expected to exhibit conservative traits to increase photoprotection and water conservation, whereas late successional plants would invest on acquisitive traits. Sampling was conducted in three plots of 50 × 20 m per successional stage, where plant species composition and structural parameters were previously determined for individuals with DBH ≥ 5 cm. From each of three plots, the five tree species with the highest importance values were selected. This resulted in a total of 13 species from seven families selected for this study. We quantified specific leaf area (SLA), leaf slenderness, polyphenols and chlorophyll contents, and leaf lifespan. Based on leaf traits, we detected two major tree functional species groups: the early-intermediate and the late successional groups. Confirming our expectations, the former was positively associated with drought tolerance traits (polyphenols and slenderness) related to conservative resource use; and the latter was positively associated with acquisitive traits (SLA). This pattern was partially corroborated at the intraspecific level for species that occurred in more than one successional stage. We found a weak phylogenetic signal for the functional grouping (only for polyphenols). The analysis of variance structure across scales indicated that a very small proportion (up to 2.8%) of the general variance in leaf traits occurred at intraspecific level suggesting that, compared to interspecific variations, trait differences among individuals due to phenotypic plasticity are low. Although further studies with a larger number of species are needed, our findings suggest a decoupling between functional and structural/species composition regeneration, contradicting several studies on secondary succession where species composition is regarded as the main indicator of the regeneration of ecological functions.

Gut Microbiota in Decapod Shrimps: Evidence of Phylosymbiosis.

Gut microbiota have long attracted the interest of scientists due to their profound impact on the well-being of animals. A non-random pattern of microbial assembly that results in a parallelism between host phylogeny and microbial similarity is described as phylosymbiosis. Phylosymbiosis has been consistently observed in different clades of animal hosts, but there have been no studies on crustaceans. In this study, we investigated whether host phylogeny has an impact on the gut microbiota assemblages in decapod shrimps. We examined the gut microbial communities in 20 shrimp species from three families inhabiting distinct environments, using metabarcoding analyses of the V1-V3 hypervariable region of the 16S rRNA gene. Gut microbial communities varied within each shrimp group but were generally dominated by Proteobacteria. A prevalent phylosymbiotic pattern in shrimps was evidenced for the first time by the observations of (1) the distinguishability of microbial communities among species within each group, (2) a significantly lower intraspecific than interspecific gut microbial beta diversity across shrimp groups, (3) topological congruence between host phylogenetic trees and gut microbiota dendrograms, and (4) a correlation between host genetic distances and microbial dissimilarities. Consistent signals of phylosymbiosis were observed across all groups in dendrograms based on the unweighted UniFrac distances at 99% operational taxonomic units (OTUs) level and in Mantel tests based on the weighted UniFrac distances based on 97% OTUs and amplicon sequence variants. Penaeids exhibited phylosymbiosis in most tests, while phylosymbiotic signals in atyids and pandalids were only detected in fewer than half of the tests. A weak phylogenetic signal was detected in the predicted functions of the penaeid gut microbiota. However, the functional diversities of the two caridean groups were not significantly related to host phylogeny. Our observations of a parallelism in the taxonomy of the gut microbiota with host phylogeny for all shrimp groups examined and in the predicted functions for the penaeid shrimps indicate a tight host-microbial relationship during evolution.

Diversification of the cranium and mandible of spiny rats of the genus Trinomys (Rodentia: Echimyidae) in an environmental and phylogenetic context

Abstract Evolutionary constraints and ecological pressures influence species’ morphological diversity. The aim of this study was to explore patterns of morphological variation, to investigate the influence of environmental variables on morphological differentiation, and assess the strength of phylogenetic signal for the cranium and mandible in spiny rats of the genus Trinomys. We examined 377 crania and mandibles of all species of the genus Trinomys. We used geometric morphometric methods based on two-dimensional anatomical landmarks to describe cranium and mandible shape and size. Phylogenetic signal was tested using the K statistics and associations between morphology and environmental variables were made using a phylogenetic partial least squares analysis. We found marked differences in size and shape in the synchranium among species, especially in the segregation of T. albispinus and T. yonenagae from the other species, which in turn greatly overlapped both in size and shape spaces. We found a weak phylogenetic signal for size of the synchranium and intermediate phylogenetic signals for shape, a pattern similar to other studies. Differentiation of the synchranium shape in Trinomys was associated largely with precipitation-related variables, while the association between size and environmental variables was weak. Notably, Trinomys species inhabiting xeric environments had relatively larger tympanic bullae.

Bridging gaps in demographic analysis with phylogenetic imputation.

Phylogenetically informed imputation methods have rarely been applied to estimate missing values in demographic data but may be a powerful tool for reconstructing vital rates of survival, maturation, and fecundity for species of conservation concern. Imputed vital rates could be used to parameterize demographic models to explore how populations respond when vital rates are perturbed. We used standardized vital rate estimates for 50 bird species to assess the use of phylogenetic imputation to fill gaps in demographic data. We calculated imputation accuracy for vital rates of focal species excluded from the data set either singly or in combination and with and without phylogeny, body mass, and life-history trait data. We used imputed vital rates to calculate demographic metrics, including generation time, to validate the use of imputation in demographic analyses. Covariance among vital rates and other trait data provided a strong basis to guide imputation of missing vital rates in birds, even in the absence of phylogenetic information. Mean NRMSE for null and phylogenetic models differed by <0.01 except when no vital rates were available or for vital rates with high phylogenetic signal (Pagel's λ > 0.8). In these cases, including body mass and life-history trait data compensated for lack of phylogenetic information: mean normalized root mean square error (NRMSE) for null and phylogenetic models differed by <0.01 for adult survival and <0.04 for maturation rate. Estimates of demographic metrics were sensitive to the accuracy of imputed vital rates. For example, mean error in generation time doubled in response to inaccurate estimates of maturation time. Accurate demographic data and metrics, such as generation time, are needed to inform conservation planning processes, for example through International Union for Conservation of Nature Red List assessments and population viability analysis. Imputed vital rates could be useful in this context but, as for any estimated model parameters, awareness of the sensitivities of demographic model outputs to the imputed vital rates is essential.

The mechanism of species coexistence and diversity maintenance along aspects in the northeast of the Qinghai–Tibetan plateau

To examine the role of plant functional traits and phylogenetic relationships in predicting plant community species coexistence and diversity maintenance, we measured 73 species and six functional traits along a slope aspect gradient on the Qinghai–Tibetan plateau. We calculated the net relatedness index (NRI), the nearest taxon index (NTI), phylogenetic diversity (PD), functional diversity, and analysed phylogenetic signals. The results show that the species richness, plant composition, and PD changed substantially from northern to southern aspects, and the phylogenetic structure of the community changed from clustering to over-dispersion. Weak phylogenetic signals in plant height, leaf nitrogen content, and leaf potassium content were recorded. We conclude that the influencing factor(s) of species coexistence on northern and north-western aspects is limiting similarity (interspecific competition), whereas on southern and south-western aspects, habitat filtering (environmental effect) is predominant. On western aspects, the influencing factors are driven by three processes: limiting similarity, habitat filtration, and random processes. Results suggest that niche processes (including habitat filtration and limiting similarity) are the main mechanisms for species coexistence and diversity maintenance on aspects of the alpine meadow in the northeast of the Qinghai–Tibetan plateau, while random processes appear at the transitional zone (the western aspect in our study) between aspects.

Floral Color Diversity: How Are Signals Shaped by Elevational Gradient on the Tropical-Subtropical Mountainous Island of Taiwan?

Pollinators with different vision are a key driver of flower coloration. Islands provide important insights into evolutionary processes, and previous work suggests islands may have restricted flower colors. Due to both species richness with high endemism in tropical–subtropical environments, and potentially changing pollinator distributions with altitude, we evaluated flower color diversity across the mountainous island of Taiwan in a comparative framework to understand the cause of color diversity. We sampled flower color signaling on the tropical–subtropical island of Taiwan considering altitudes from sea level to 3300 m to inform how over-dispersion, random processes or clustering may influence flower signaling. We employed a model of bee color space to plot loci from 727 species to enable direct comparisons to data sets from continental studies representing Northern and Southern Hemispheres, and also a continental mountain region. We observed that flower color diversity was similar to flowers that exist in mainland continental studies, and also showed evidence that flowers predominantly had evolved color signals that closely matched bee color preferences. At high altitudes floras tend to be phylogenetically clustered rather than over-dispersed, and their floral colors exhibited weak phylogenetic signal which is consistent with character displacement that facilitated the co-existence of related species. Overall flower color signaling on a tropical–subtropical island is mainly influenced by color preferences of key bee pollinators, a pattern consistent with continental studies.

Phylogenetically aligned component analysis

Abstract It has become common in evolutionary biology to characterize phenotypes multivariately. However, visualizing macroevolutionary trends in multivariate datasets requires appropriate ordination methods. In this paper we describe phylogenetically aligned component analysis (PACA): a new ordination approach that aligns phenotypic data with phylogenetic signal. Unlike phylogenetic principal component analysis (Phy‐PCA), which finds an alignment of a principal eigenvector that is independent of phylogenetic signal, PACA maximizes variation in directions that describe phylogenetic signal, while simultaneously preserving the Euclidean distances among observations in the data space. We demonstrate with simulated and empirical examples that with PACA, it is possible to visualize the trend in phylogenetic signal in multivariate data spaces, irrespective of other signals in the data. In conjunction with Phy‐PCA, one can visualize both phylogenetic signal and trends in data independent of phylogenetic signal. Phylogenetically aligned component analysis can distinguish between weak phylogenetic signals and strong signals concentrated in only a portion of all data dimensions. We provide empirical examples that emphasize the difference. Use of PACA in studies focused on phylogenetic signal should enable much more precise description of the phylogenetic signal, as a result. Overall, PACA will return a projection that shows the most phylogenetic signal in the first few components, irrespective of other signals in the data. By comparing Phy‐PCA and PACA results, one may glean the relative importance of phylogenetic and other (ecological) signals in the data.

Weak phylogenetic and climatic signals in plant heat tolerance

AbstractAimHigh heat tolerance is a potential way for plants to maintain performance under high temperatures that can be acted upon by environmental filters to influence community assembly. Plant heat tolerances are phenotypically plastic and thus common garden experiments are needed to test if species from hotter environments have consistently higher heat tolerance than species from colder environments. Past studies that have measured heat tolerance from species grown in common gardens have found conflicting relationships between species' climatic origins and their heat tolerance, possibly due to phylogenetic non‐independence of study species. In this study, we test the hypothesis that phylogenetic structure can help to explain variation in heat tolerance in order to resolve the confliciting relationships between climate and plant heat tolerance.LocationFairchild Tropical Botanic Garden and the Gifford Arboretum, Miami, FL, USA.TaxonPteridophytes, Gymnosperms and Angiosperms.MethodsWe tested for phylogenetic signal in the photosynthetic heat tolerance of 123 species of ferns, gymnosperms, magnoliids, monocots and eudicots by calculating Blomberg's K. Phylogenetic independent contrasts of heat tolerance and climatic distributions for &gt;100 species were used to test the hypothesis that climate can predict variation in heat tolerance.ResultsSpecies' heat tolerances were not phylogenetically conserved according to Blomberg's K, but we found significant differences in the heat tolerance of ferns, gymnosperms, magnoliids, monocots and eudicots. When controlling for phylogenetic non‐independence, we found a significant, but weak relationship between the mean maximum temperature of the warmest month of species' climatic distributions and their photosynthetic heat tolerance.Main conclusionsWe conclude that phylogeny and climate are weak predictors of photosynthetic heat tolerance. However, differences among the groups we studied suggest that the variation in heat tolerance may be better explained by differences in microenvironment, thermoregulatory traits and leaf temperatures.

Morphometric Variations in Leg Segments’ Length in the Family Dolichopodidae (Diptera)

Interspecific variations of legs’ morphometric signs have been investigated on 2885 individuals from 65 species of 22 genera of the family Dolichopodidae. Nine morphometric signs of legs, including lengths of femora, tibia, and first segment of tarsi have been measured, and the data on 12 relative signs have been obtained. The results of analysis of variance showed significant differences between the genera but not between the subfamilies. Most of the studied signs showed weak phylogenetic signal. Significant phylogenetic signal has been found in only one of the studied signs: the ratio of length of mid legs' femora and tibia. Principal component analysis revealed the set of characters most typical for the family representatives as well as two general trends in leg morphometry diversity: elongation of the first segment of the mid- and hind-legs and variation in the ratio of fore-, mid-, and hind-femora. Cluster analysis revealed three morphologically distinguishable species groups that also differed in terms of their microhabitats: Medetera-like species (lengths of fore-, mid-, and hind-femora are nearly equal), Hydrophorus-like species (mid- and hind-femora and tibia are significantly extended regarding the fore-femora and tibia), and Sciapus-like species (all first segments of tarsi are significantly extended). Each of the identified groups includes species belonging to different subfamilies. Therefore, the similarity in leg morphometry features in dolichopodids is supported to be related to convergent evolution and not to the presence of a common ancestor with a similar morphology.

Evolutionary Diversity in the Intracellular Microsporidian Parasite Nosema sp. Infecting Wild Silkworm Revealed by IGS Nucleotide Sequence Diversity.

Intracellular microsporidian Nosema mylitta infects Indian wild silkworm Antheraea mylitta causing pebrine disease. Genetic structure and phylogeny of N. mylitta are analysed using nucleotide variability in 5S ribosomal DNA and intergenic spacer (IGS) sequence from 20 isolates collected from Southern, Northern and Central regions of Jharkhand State. Nucleotide diversity (π) and genetic differentiation Gst were highest in the Central isolates whereas lowest in the North. Among the isolates, absence of nucleotides, transitions and transversions were observed. Haplotyping showed nucleotide variability at 83 positions in IGS and 13 positions in 5S rDNA. Haplotype-based genetic differentiation was 0.96 to 0.97 whereas nucleotide sequence-based genetic differentiation was higher (Ks = 22.29) between Southern and Central isolates. Bottleneck analysis showed negative value for Tajima's D and other summary statistics revealing induction of loss of rare alleles and population explosion. From IGS, 17 ancestral sequences were inferred by Network algorithm. Core of nine closely related nodes having ancient nucleotides and peripheral nodes with highly divergent nucleotides were derived. Most diverged peripheral haplotype was Bero (H11) from the Central region whereas Deoghar (H3) of the Northern region diverged early. Phylogeny of N. mylitta grouped Southern and Northern isolates together revealed weak phylogenetic signal for these locations. Phylogeny of N. mylitta with Nosema sp. infecting other lepidopterans clustered N. mylitta isolates with N. antheraea and N. philosamiae of China indicating genetic similarity whereas other species were dissimilar showing diversity irrespective of country of origin.