Hybrid origin of a cichlid population in Lake Malawi: implications for genetic variation and species diversity

The importance of species recognition to taxonomic diversity among Lake Malawi cichlids has been frequently discussed. Hybridization - the apparent breakdown of species recognition - has been observed sporadically among cichlids and has been viewed as both a constructive and a destructive force with respect to species diversity. Here we provide genetic evidence of a natural hybrid cichlid population with a unique colour phenotype and elevated levels of genetic variation. We discuss the potential evolutionary consequences of interspecific hybridization in Lake Malawi cichlids and propose that the role of hybridization in generating both genetic variability and species diversity of Lake Malawi cichlids warrants further consideration.     

A phylogenetic perspective on the evolutionary processes of floristic assemblages within a biodiversity hotspot in eastern Asia

Abstract How to maximize the conservation of biodiversity is critical for conservation planning, particularly given rapid habitat loss and global climatic change. The importance of preserving phylogenetic diversity has gained recognition due to its ability to identify some influences of evolutionary history on contemporary patterns of species assemblages that traditional taxonomic richness measures cannot identify. In this study, we evaluate the relationship between taxonomic richness and phylogenetic diversity of angiosperms at genus and species levels and explore the spatial pattern of the residuals of this relationship. We then incorporate data on historical biogeography to understand the process that shaped contemporary floristic assemblages in a global biodiversity hotspot, Yunnan Province, located in southwestern China. We identified a strong correlation between phylogenetic diversity residuals and the biogeographic affinity of the lineages in the extant Yunnan angiosperm flora. Phylogenetic diversity is well correlated with taxonomic richness at both genus and species levels between floras in Yunnan, where two diversity centers of phylogenetic diversity were identified (the northwestern center and the southern center). The northwestern center, with lower phylogenetic diversity than expected based on taxonomic richness, is rich in temperate‐affinity lineages and signifies an area of rapid speciation. The southern center, with higher phylogenetic diversity than predicted by taxonomic richness, contains a higher proportion of lineages with tropical affinity and seems to have experienced high immigration rates. Our results highlight that maximizing phylogenetic diversity with historical interpretation can provide valuable insights into the floristic assemblage of a region and better‐informed decisions can be made to ensure different stages of a region's evolutionary history are preserved.     

A parametric diversity measure combining the relative abundances and taxonomic distinctiveness of species

Most ecological diversity indices summarize the information about the relative abundances of species without reflecting taxonomic differences between species. Nevertheless, in environmental conservation practice, data on species abundances are mostly irrelevant and generally unknown. In such cases, to summarize the conservation value of a given site, so‐called ‘taxonomic diversity’ measures can be used. Such measures are based on taxonomic relations among species and ignore species relative abundances. In this paper, bridging the gap between traditional biodiversity measures and taxonomic diversity measures, I introduce a parametric diversity index that combines species relative abundances with their taxonomic distinctiveness. Due to the parametric nature of the proposed index, the contribution of rare and abundant species to each diversity measure is explicit.     

An information-theoretical measure of taxonomic diversity

Traditional diversity indices are computed from the abundances of species present and are insensitive to taxonomic differences between species. However, a community in which most species belong to the same genus is intuitively less diverse than another community with a similar number of species distributed more evenly between genera. In this paper, we propose an information-theoretical measure of taxonomic diversity that reflects both the abundances and taxonomic distinctness of the species. Unlike previous measures of taxonomic diversity, such as Rao's quadratic entropy, in this new measure the analyzed taxonomic properties are associated with the single species instead of species pairs.     

Common species have lower taxonomic diversity Evidence from the urban floras of Brussels and Rome

The species pool hypothesis claims that the large‐scale regional species pool is the chief parameter in determining small‐scale species richness through filtering of species that can persist within a community on the basis of their tolerance of the abiotic environment. Accordingly, different environmental conditions give rise to different species assemblages. From a taxonomic perspective, under the assumption of trait conservatism, co‐occurring species that experience similar environmental conditions are likely to be more taxonomically similar than ecologically distant species. The next step consists in understanding how commonness and rarity of individual species produce the observed taxonomic diversity. In this paper, the importance of environmental filtering in regulating the taxonomic structure of rare and common plant species in the urban floras of Brussels (Belgium) and Rome (Italy) is tested. First, we computed the taxonomic diversity of the rare and common species of Brussels and Rome based on the branching topology of the Linnaean taxonomic trees. Next, using a randomization procedure, we determined whether the taxonomic diversity of the rare species was significantly higher than the diversity of the common species. Results show that, for both urban floras, common species that shape the community matrix and experience similar environmental conditions have a taxonomic diversity that is significantly lower than that of the rare species that represent a relatively incidental set of species of more ‘disperse’ origin. Finally, from a conservation/management perspective our results imply that, given their high taxonomic heterogeneity, the protection of rare species is a central issue for preserving high levels of diversity in urban areas.     

On the measurement of species diversity incorporating species differences

When pairwise differences (relatedness) between species are numerically given, the average of the species differences weighted by relative frequencies can be used as a species diversity index. This paper first theoretically develops the indices of this type, then applies them to forestry data. As examples of diversity indices, this paper explores the taxonomic diversity and the newly introduced amino acid diversity, which is a modification of the nucleotide diversity in genetics. The first, mathematical part shows that both indices can be decomposed into three inner factors; evenness of relative frequencies (=the Simpson index), the simple average over species differences regardless of relative frequencies, and the taxonomic or genetic balance in relative frequencies. The taxonomic diversity has another decomposition: the sum over the Simpson indices at all the taxonomic levels. The second part examines the effects of different forest management techniques on diversity. It is shown that a thinning operation for promoting survival of specific desirable species also contributed to increasing the taxonomic diversity. If we calculated only conventional indices that do not incorporate species relatedness, we would simply conclude that the thinning did not significantly affect the diversity. The theoretical developments of the first part complement the result, leading us to a better interpretation about contrasting vegetation structures. The mathematical results also reveal that the amino acid diversity involves redundant species, which is undesirable when measuring diversity; hence, this index is used to demonstrates crucial points when we introduce species relatedness. The results suggest further possibilities of applying diversity indices incorporating species differences to a variety of ecological studies.     

Quantifying the effects of nutrient addition on the taxonomic distinctness of serpentine vegetation

Traditional diversity indices summarize the information about the relative abundances of species within a community without regard to differences between species. However, intuitively, a community composed of dissimilar taxa is more diverse than a community composed of more similar taxa. Therefore, useful indices of diversity should account for taxonomic relations among species. In this paper, a new parametric diversity index that combines species relative abundances and their taxonomic distinctiveness is used to quantify the way in which soil fertilization affects the diversity of a garigue community on ultramafic soils of Tuscany (central Italy). Results show that, while ultramafic soils generally host plant communities of limited taxonomic diversity with respect to similar communities on other substrates, fertilization significantly enhances the biomass production of species that are not exclusive to ultramafic soils. As a consequence, if diversity is measured combining species relative abundances with their taxonomic distinctiveness, nutrient addition tends to increase the diversity of ultramafic communities.     

Taxonomic diversity as complementary information to assess plant species diversity in secondary vegetation and primary tropical deciduous forest

Question: Species diversity is commonly expressed as the number of species present in an area, but this unique value assumes that all species contribute equally to the area's biodiversity. Can taxonomic diversity be used as a complementary measure for species richness in order to assess plant biodiversity in remnants of primary forest and patches of secondary vegetation? Location: Veracruz, Mexico. Methods: Using data from six sampling transects of each vegetation type in an elevation gradient (400‐900 m a.s.l.), we compare the point, mean and cumulative floristic diversity of primary forest and secondary vegetation in a tropical deciduous landscape, using species richness and two measures of taxonomic diversity: average taxonomic distinctness (Δ+) and variation in taxonomic distinctness (Λ+). We performed a randomization test to detect differences in the observed taxonomic diversity, from the expected values derived from the species pool of each vegetation type. Results: We found that the species of secondary vegetation are more closely related at low taxonomic levels (lower Δ+ value) than the species of primary forest remnants. Also, in secondary vegetation the distribution of species is uneven among the taxonomic levels and units (high Λ+ value). These patterns are consistent for point, mean and cumulative taxonomic diversity. Families Asteraceae, Euphorbiaceae, Fabaceae and Poaceae are over‐represented, while families Bromeliaceae, Cactaceae, Orchidaceae and Pteridaceae are under‐represented in secondary vegetation. Conclusions: Although in a previous paper we concluded that secondary vegetation is more alpha‐diverse than primary forest (in terms of both cumulative and mean species richness), and beta‐diversity between vegetation types is notoriously high, we now provide a wider view by highlighting the importance of taxonomic diversity in primary forest remnants. Our data indicate that to measure biodiversity accurately, we should seek to capture its different facets. This will allow us to make conservation recommendations based on a broader view, and not on a single dimension.     

Comparative responses of termite functional and taxonomic diversity to land‐use change

1. While it is clear that land‐use change significantly impacts the taxonomic dimension of soil biodiversity, how the functional dimension responds to land‐use change is less well understood. 2. This study examined how the transformation of primary forests into rubber tree monocultures impacts individual termite species and how this change is reflected in termite taxonomic and functional α‐diversity (within site) and β‐diversity (among sites). 3. Overall, individual species responded strongly to land‐use change, whereby only 11 of the 27 species found were able to tolerate both habitats. These differences caused a 27% reduction in termite taxonomic richness and reduced taxonomic β‐diversity in rubber plantations compared with primary forests. The study also revealed that the forest conversion led to a shift in some termite species with smaller body size, shorter legs and smaller mandibular traits. Primary forests exhibited higher functional richness and functional β‐diversity of termite species, indicating that functional traits of termite species in rubber plantations are more evenly distributed. 4. The present study suggests that forest conversion does not merely decrease taxonomic diversity of termites, but also exerts functional trait filtering within some termite species. The results affirm the need for biodiversity assessments that combine taxonomic and functional indicators when monitoring the impact of land‐use change.     

中国兽类名录(2021版)

中国是全球兽类物种多样性最高的国家之一,掌握我国兽类物种多样性和分类地位是兽类学研究的基础前提,也是科学保护野生种群的前提。为厘清中国兽类的物种数量及分类地位等关键分类学信息,中国动物学会兽类学分会组织国内长期致力于兽类各类群分类的科学研究人员,在总结前人研究的基础上,根据最新的形态学和分子遗传学证据,综合现代兽类分类学家意见,经编委会充分讨论,形成了最新的中国兽类名录,包括我国现阶段兽类12目59科254属686种。该中国兽类名录使用基于系统发生关系的分类系统,并对物种有效性进行了充分慎重的确认和讨论。     

Taxonomic and functional diversity covary in rock pool microalgal communities despite their different drivers

Local biodiversity has traditionally been estimated with taxonomic diversity metrics such as species richness. Recently, the concept of biodiversity has been extended beyond species identity by ecological traits determining the functional role of a species in a community. This interspecific functional diversity typically responds more strongly to local environmental variation compared with taxonomic diversity, while taxonomic diversity may mirror more strongly dispersal processes compared with functional metrics. Several trait‐based indices have been developed to measure functional diversity for various organisms and habitat types, but studies of their applicability on aquatic microbial communities have been underrepresented. We examined the drivers and covariance of taxonomic and functional diversity among diatom rock pool communities on the Baltic Sea coast. We quantified three taxonomic (species richness, Shannon''s diversity, and Pielou''s evenness) and three functional (functional richness, evenness, and divergence) diversity indices and determined abiotic factors best explaining variation in these indices by generalized linear mixed models. The six diversity indices were highly collinear except functional evenness, which merely correlated significantly with taxonomic evenness. All diversity indices were always explained by water conductivity and temperature–sampling month interaction. Taxonomic diversity was further consistently explained by pool distance to the sea, and functional richness and divergence by pool location. The explained variance in regression models did not markedly differ between taxonomic and functional metrics. Our findings do not clearly support the superiority of neither set of diversity indices in explaining coastal microbial diversity, but rather highlight the general overlap among the indices. However, as individual metrics may be driven by different factors, the greatest advantage in assessing biodiversity is nevertheless probably achieved with a simultaneous application of the taxonomic and functional diversity metrics.     

Measuring beta‐diversity from taxonomic similarity

Question: The utility of beta (β‐) diversity measures that incorporate information about the degree of taxonomic (dis)similarity between species plots is becoming increasingly recognized. In this framework, the question for this study is: can we define an ecologically meaningful index of β‐diversity that, besides indicating simple species turnover, is able to account for taxonomic similarity amongst species in plots? Methods: First, the properties of existing measures of taxonomic similarity measures are briefly reviewed. Next, a new measure of plot‐to‐plot taxonomic similarity is presented that is based on the maximal common subgraph of two taxonomic trees. The proposed measure is computed from species presences and absences and include information about the degree of higher‐level taxonomic similarity between species plots. The performance of the proposed measure with respect to existing coefficients of taxonomic similarity and the coefficient of Jaccard is discussed using a small data set of heath plant communities. Finally, a method to quantify β‐diversity from taxonomic dissimilarities is discussed. Results: The proposed measure of taxonomic β‐diversity incorporates not only species richness, but also information about the degree of higher‐order taxonomic structure between species plots. In this view, it comes closer to a modern notion of biological diversity than more traditional measures of β‐di‐versity. From regression analysis between the new coefficient and existing measures of taxonomic similarity it is shown that there is an evident nonlinearity between the coefficients. This nonlinearity demonstrates that the new coefficient measures similarity in a conceptually different way from previous indices. Also, in good agreement with the findings of previous authors, the regression between the new index and the Jaccard coefficient of similarity shows that more than 80% of the variance of the former is explained by the community structure at the species level, while only the residual variance is explained by differences in the higher‐order taxonomic structure of the species plots. This means that a genuine taxonomic approach to the quantification of plot‐to‐plot similarity is only needed if we are interested in the residual system's variation that is related to the higher‐order taxonomic structure of a pair of species plots.     

Using the relationship between taxonomic and functional diversity to assess functional redundancy in streams of an altered tropical watershed

The relationship between taxonomic and functional diversity indices has been used to better describe and understand the structure of biological communities. Functional diversity is expected to have an asymptotic relationship with species richness because at some point, the addition of new species will increase some of the already established functional groups (functional redundancy). However, the asymptotic relationship may not be reached in intermediately disturbed systems once many intolerant species that would have played a redundant role or even represented some functional groups have been lost. This study aimed to address such a relationship (taxonomic and functional indices) and to evaluate the functional redundancy in intermediately disturbed streams in the Atlantic Rainforest domain. We expected a positive linear relationship between taxonomic and functional diversity; however, we did not expect to find an asymptotic relationship between richness and functional diversity because of the loss of many intolerant species caused by anthropogenic uses. The taxonomic diversity indices were Species Richness (SR) and Simpson’s Diversity (SD), while the functional diversity indices were the Functional Richness (FRic) and Functional Dispersion (FDisp). The two taxonomic and two functional diversity indices showed a significant positive relationship that never reached an asymptote, suggesting low functional redundancy in the fish communities. Our results indicate that care is needed in the management of the studied streams because assemblies with low functional redundancy are more susceptible to loss of functions in the case of species loss.     

Effect of non-native species on taxonomic and functional diversity of fish communities in different river types

Recent researches suggest that functional diversity represents the response of communities to environmental alterations better than taxonomic diversity. However, there is scarce information about how the functional diversity of freshwater fishes is affected by habitat type and the dominance of non-native species. To address this question, we analysed a large database containing 15 morpho-functional traits of 61 fish species from the Pannon Biogeographic region (Hungary). Based on a fish faunistic list and relative abundance of taxa, we quantified the taxonomic and functional diversity of riverine communities for?>?700 sites of six habitat types. We asked how non-native fishes affected the taxonomic and functional diversity in different river types and at the local scale (i.e. at the site level), and how the diversity measures of native fauna elements changes along the invasion gradient. Our results showed that both functional and taxonomic richness increases with habitat complexity, from small headwater streams to large rivers. Therefore taxonomic diversity served as a good proxy for functional diversity along the environmental gradient of river types. Non-natives showed considerable functional diversity relative to their species number in each habitat type. Diversity values of native fauna elements initially increased, and then showed a major decrease along the invasion gradient. River type-specific evaluations highlighted the importance of considering the proliferation of invasive species based on both taxonomic and functional diversity indices. We argue that type-specific action plans are needed in conservation management to preserve the taxonomic and functional diversity of native fishes in Hungary, but also elsewhere.

     

Spatial patterns of dicot diversity in Argentina

In this paper, we analyzed the taxonomic diversity of the Argentine dicots to evaluate their relationships with area, latitude, and longitude. We also evaluated species diversity and higher taxa diversity relationships. The families, genera and species diversity in Argentine dicots was not explained by the area of each province but it varied through latitudinal and longitudinal gradients. The taxonomic diversity of these plants increased from high to low latitudes and west–east longitudes. These patterns would explain why the main diversity centers are located in the North region of this country. As we expected the species diversity and higher taxa diversity showed a positive relationship. At this scale, higher taxa diversity could be use as surrogate for species diversity.     

Does taxonomic homogenization imply functional homogenization in temperate forest herb layer communities?

Biotic homogenization, the decrease in beta diversity among formerly distinct species assemblages, has been recognized as an important form of biotic impoverishment for more than a decade. Although researchers have stressed the importance of the functional dimension to understand its potential ecological consequences, biotic homogenization has mostly been studied at a taxonomic level. Here, we explore the relationship between taxonomic and functional homogenization using data on temperate forest herb layer communities in NW Germany, for which taxonomic homogenization has recently been demonstrated. We quantified beta diversity by partitioning Rao’s quadratic entropy. We found a general positive relationship between changes in taxonomic and functional beta diversity. This relationship was stronger if multiple functional traits were taken into account. Averaged across sites, however, taxonomic homogenization was not consistently accompanied by functional homogenization. Depending on the traits considered, taxonomic homogenization occurred also together with functional differentiation or no change in functional beta diversity. The species shifts responsible for changes in beta diversity differed substantially between taxonomic and functional beta diversity measures and also among functional beta diversity measures based on different traits. We discuss likely environmental drivers for species shifts. Our study demonstrates that functional homogenization must be explicitly studied as an independent phenomenon that cannot be inferred from taxonomic homogenization.     

What governs the functional diversity patterns of fishes in the headwater streams of the humid forest enclaves: environmental conditions,taxonomic diversity or biotic interactions?

The relationship between functional and taxonomic diversity is a major issue in ecology. Biodiversity in aquatic environments is strongly influenced by environmental gradients that act as dispersion and niche barriers. Environmental conditions act as filters to select functional traits, but biotic interactions also play a role in assemblage structure. In headwater streams, the relationship between functional and taxonomic diversity remains unclear. In this study we investigated how environmental conditions, taxonomic diversity and biotic interactions influence the spatial distribution of traits and functional diversity in stream fish species. Standardized sampling of fish species was carried out in 50 m sections of 16 streams located in rainforest enclaves in a semiarid region of Brazil (Caatinga biome). The functional diversity indices displayed different responses to the predictor variables used. Functional richness was mainly influenced by environmental conditions, while functional evenness was mostly determined by taxonomic diversity. On the other hand, functional dispersion was explained by a combination of environmental conditions and taxonomic diversity. The spatial distribution of fish species with the same functional traits was random, indicating that biotic interactions are not a strong predictor in these ecosystems. Channel width, pH and substrate were the most important variables in the spatial distribution of the functional traits of the fish species. Our results suggest that the functional structure of fish assemblages in headwater streams depends mainly on environmental conditions and taxonomic diversity.     

Strong requirements for weak diversities

Weikard et al . ( Diversity and Distributions , 12 , 215–217) show that the taxonomic diversity measure proposed by Ricotta (2004) violates 'weak species monotonicity'. This condition requires that the addition of a species to a given species set should always increase diversity if abundances change only marginally. They further propose a new taxonomic diversity index that overcomes this drawback. In this paper, some statistical properties of this new diversity index are briefly analysed.     

Taxonomic diversity of the terrestrial bird and mammal fauna in temperate and boreal biomes of the northern hemisphere

Abstract. Using comprehensive range information of northern Hemisphere birds and mammals, we assessed the taxonomic diversity of these two groups in four different regions: Europe, east Asia, and western and eastern North America. East Asia is the richest region in the number of bird and mammal species, genera, families and orders, except that mammal species richness is highest in western North America. Eastern North America is taxonomically the poorest region, but when only forest-associated taxa were considered in mammals taxonomic diversity is equally low in Europe and in eastern North America, and in birds, Europe is the least diverse region. Patterns in endemic taxa follow overall taxonomic diversity. The proportion of shared taxa between regions is higher among boreal species and genera than among all taxa. A comparison with tree species diversity underpins the role of east Asia as the most diverse of all northern biota. Largely congruent patterns at different taxonomic levels emphasizes the role of historical processes, such as differential extinction rate in response to paleoenvironmental fluctuations, in producing these patterns, but we stress the need for more research on the coevolution of species diversity and habitat diversity.