Beta diversity and taxonomic sufficiency: Do higher‐level taxa reflect heterogeneity in species composition?

Aim Virtually all studies exploring the use of taxonomic surrogates in assessing patterns of diversity have focused on clear shifts in the location of samples in multivariate space. The potential use of coarser levels of taxonomic resolution to detect patterns of variability in multivariate space, corresponding to β‐diversity in the case of presence/absence data, remains unexplored. Here we considered five ecological data sets of highly diverse marine molluscan assemblages to test the hypothesis that patterns in compositional heterogeneity would be maintained at coarser levels of taxonomic resolution. Location Italy, Norway, New Zealand and the Arctic. Methods We used multivariate dispersion based on the Jaccard resemblance measure of presence/absence data as a measure of β‐diversity to test the null hypothesis that patterns of heterogeneity in species composition for molluscs would be maintained at coarser levels of taxonomic resolution. Tests to compare β‐diversities among groups (based on distances to centroids and using 9999 permutations) were carried out separately for each of five data sets at the species level and then for each of genus, family, order and class levels. Results Differences in multivariate dispersion at the species level (heterogeneity in the identities of species) were maintained for genera and for families, but not at coarser levels of taxonomic resolution (order or class). These results were consistent across all data sets, despite differences in their spatial scale and extent, geographical location, environmental and habitat features (benthic soft sediments, rocky reefs or kelp holdfasts). Main conclusions These results suggest that either genera or families may be used as effective taxonomic surrogates to detect spatial differences in β‐diversity for molluscs. The use of surrogates can provide considerable sampling efficiencies for biodiversity assessments. We consider, however, that a degree of caution and more work is needed, as heterogeneity at the species level may not be reflected by taxonomic surrogates at smaller spatial scales.     

Macroecology of Aquatic Insects: A Quantitative Analysis of Taxonomic Richness and Composition in the Andes Mountains of Northern Ecuador

To determine the spatial dynamics of Neotropical lotic insect species, specimens were collected from 41 streams on the eastern and western flanks of the Andes Mountains in Ecuador. We examined the manner in which taxonomic richness and composition differed with elevation, latitude, and versant. Statistical analyses were limited to 5 families (Ephemeroptera: Baetidae, Leptohyphidae, Oligoneuriidae; Heteroptera: Naucoridae; Coleoptera: Elmidae), comprising 32 genera and 85 species, for which identifications or morphospecies assignments were reliable. Assessment of taxonomic diversity was based on the richness of genera and species at each site. In addition, each site was characterized by species richness within each of 4 families with more than 10 species. The effects of versant and transect on composition and structure were family‐specific. Mean site differences between versants in elmid richness at generic and specific levels depended on transect. Only baetid richness was affected by versant and transect in a consistent manner. Variation among sites in composition based on all genera and species was captured using multidimensional scaling (MDS). Subsequent MANOVAs based on scores from MDS axes revealed that differences between versants were much stronger in the southern transect, although transects differed from each other at specific and generic levels. A Jaccard's similarity matrix was computed for each family to reflect the spatial organization of taxonomic composition. Mesogeographic patterns of species composition for each of the four families were correlated (Mantel analysis) at both the regional level and at the level of the entire study area. At the regional level, the only pair of families to exhibit correlated patterns of species composition was elmids and naucorids in the southwestern region. The pattern of species composition for each family was correlated with the patterns for one or more other families at the level of the entire study area. Thus, spatial dynamics of species composition was similar for the families examined, suggesting that the Andes exert a consistent influence on species distributions within families, regardless of ordinal affiliation. At a local scale, however, the way in which taxonomic composition changed with latitude and versant was family‐specific. Mayflies, the most vagile of the taxa studied, had the highest percentage of species overlap between versants. Of three genera of Naucoridae collected, species of Ambrysus, of probable Mexican origin, were found only on the eastern versant, corroborating other evidence that the genus is recent in South America. Moreover, dispersion by Ambrysus across the Andes Mountains may not have occurred, as it has for Cryphocricos and Limnocoris, which are of probable South American origin.     

Integrating macroecological metrics and community taxonomic structure

We extend macroecological theory based on the maximum entropy principle from species level to higher taxonomic categories, thereby predicting distributions of species richness across genera or families and the dependence of abundance and metabolic rate distributions on taxonomic tree structure. Predictions agree with qualitative trends reported in studies on hyper‐dominance in tropical tree species, mammalian body size distributions and patterns of rarity in worldwide plant communities. Predicted distributions of species richness over genera or families for birds, arthropods, plants and microorganisms are in excellent agreement with data. Data from an intertidal invertebrate community, but not from a dispersal‐limited forest, are in excellent agreement with a predicted new relationship between body size and abundance. Successful predictions of the original species level theory are unmodified in the extended theory. By integrating macroecology and taxonomic tree structure, maximum entropy may point the way towards a unified framework for understanding phylogenetic community structure.     

中国帕米尔高原种子植物的区系地理研究

中国帕米尔高原约有种子植物59科303属963种(包括变种)。分析表明:该区种子植物区系的地理成分较为复杂,联系广泛。温带性质的属有254属,占总属数的83.8%,热带性质的属有13属,占总属数的4.3%;温带性质的种有723种,占总种数的75.1%,热带性质的种有17种,占总种数的1.8%。表明该地区植物区系具有明显的温带性质,同时受到热带植物区系的影响。另外在区系科属分级水平上,寡属科、单属科占绝对优势,而超过20属的大科在该区仅有3科,却占总属数、总种数的35.9%和38.6%,区系优势现象十分明显;单种或少种属也较多,属种比值偏高,表明区系组成上的复杂性。     

Taxonomic and structural similarities in soil oribatid communities

We examined the taxonomic and structural concordance between oribatid mite communities at different sites from around the world using meta-analysis. The study explored similarities in the taxonomie composition and species abundance distributions among oribatid mite communities using 25 published species lists from Africa, Australia, Europe. Japan. Malaysia, New Zealand and the United States, The final data set contained 253 genera from 97 families in 43 superfamilies, A second data set, which included only studies where trees were present at the sites, contained 234 genera, 93 families and 41 superfamilies. Composition was analysed at taxonomic levels higher than species. Only two families and four superfamilies were present in > 90% of all studies. Two genera, six families and seven superfamilies were found in all sites with trees. Common families were different among habitats suggesting that habitat preferences may be expressed at the family level. There were very strong relationships between oribatid mite species richness and richness at higher taxonomic levels with r² values for regression relationships > 0.8. Few species at a site were from the same genus, family or superfamily. Species abundance distributions were remarkably consistent between studies with the three most dominant species each constituting > 10% of the oribatid individuals. Overall, similar factors may determine the relative proportions of soil-dwelling oribatid species at a site.     

中国爬行纲动物分类厘定

本文对中国爬行纲动物的分类体系和物种进行了系统的评估, 规范了中文学名, 给出了《中国爬行纲校正名录》, 结果表明: 中国现存爬行纲动物3目30科132属462种, 其中鳄形目(Crocodylia)1科1属1种, 龟鳖目(Testudines)6科18属33种, 有鳞目(Squamata)蜥蜴亚目(Lacertilia)10科41属189种, 有鳞目蛇亚目(Serpentes)13科72属239种。与《中国动物志 爬行纲 第一卷(总论、龟鳖目、鳄形目)》、《中国动物志 爬行纲 第二卷(有鳞目: 蜥蜴亚目)》和《中国蛇类》相比, 目和亚目无变化; 科级水平新增5科, 变更2科; 属级水平新增23属, 合并15属, 变更6属; 种级水平新增81种, 变动2种; 未收录同物异名12种、杂交6种、中国无分布7种。形态和分子系统发育研究结果在爬行动物不同分类阶元均有一定差异, 文章对这些争议进行了讨论, 并对名录的选择做了说明。     

Phylogenetic relationships among families of Gadiformes (Teleostei, Paracanthopterygii) based on nuclear and mitochondrial data

Phylogenetic hypotheses among Gadiformes fishes at the suborder, family, and subfamily levels are controversial. To address this problem, we analyze nuclear and mitochondrial DNA (mtDNA) sequences for the most extensive taxonomic sampling compiled to date, representing all of the recognized families and subfamilies in the order (except the monotypic family Lyconidae). Our study sampled 117 species from 46 genera, comprising around 20% of the species described for the order (more than 60% of all genera in the order) and produced 2740 bp of DNA sequence data for each species. Our analysis was successful in confirming the monophyly of Gadiformes and most of the proposed families for the order, but alternative hypotheses of sister-group relationships among families were poorly resolved. Our results are consistent with dividing Gadiformes into 12 families in three suborders, Muraenolepidoidei, Macrouroidei, and Gadoidei. Muraenolepidoidei contains the single family Muraenolepididae. The suborder Macrouroidei includes at least three families: Macrouridae, Macruronidae and Steindachneriidae. Macrouridae is deeply divided into two well-supported subfamilies: Macrourinae and Bathygadinae, suggesting that Bathygadinae may be ranked at the family level. The suborder Gadoidei includes the families: Merlucciidae, Melanonidae, Euclichthyidae, Gadidae, Ranicipitidae, and Bregmacerotidae. Additionally, Trachyrincinae could be ranked at family level including two subfamilies: Trachyrincinae and Macrouroidinae within Gadoidei. Further taxonomic sampling and sequencing efforts are needed in order to corroborate these relationships.     

Biflavanoids of the Cycadales

Biflavanoid patterns of leaves of 82 species of the order Cycadales comprising 3 families and 10 genera have been determined. The biflavanoids were identified by TLC, UV, NMR and MS studies. Pattern differences between species, when detected, involve the position or degree of methylation of the base compounds. On the other hand, differences in the biflavanoid patterns at the generic and family levels were sufficient to support taxonomic relationships. Thus, the absence of hinokiflavone and its derivatives clearly distinguish the Zamiaceae from the Cycadaceae and Stangeriaceae. The complete absence of biflavanoids in the latter family suggests an advanced evolutionary condition, but morphologically, this family has the most fern-like characters, and therefore has been considered by previous workers to be the most primitive of the cycads.     

Patterns of taxonomic diversity among terrestrial isopods

The publication of the world catalog of terrestrial isopods some ten years ago by Schmalfuss has facilitated research on isopod diversity patterns at a global scale. Furthermore, even though we still lack a comprehensive and robust phylogeny of Oniscidea, we do have some useful approaches to phylogenetic relationships among major clades which can offer additional insights into isopod evolutionary dynamics. Taxonomic diversity is one of many approaches to biodiversity and, despite its sensitiveness to biases in taxonomic practice, has proved useful in exploring diversification dynamics of various taxa. In the present work, we attempt an analysis of taxonomic diversity patterns among Oniscidea based on an updated world list of species containing 3,710 species belonging to 527 genera and 37 families (data till April 2014). The analysis explores species diversity at the genus and family level, as well as the relationships between species per genera, species per families, and genera per families. In addition, we consider the structure of isopod taxonomic system under the fractal perspective that has been proposed as a measure of a taxon’s diversification. Finally, we check whether there is any phylogenetic signal behind taxonomic diversity patterns. The results can be useful in a more detailed elaboration of Oniscidea systematics.     

Diversity and structural patterns for tropical montane and premontane forests of central Peru,with an assessment of the use of higher-taxon surrogacy

The Chanchamayo valley in the Peruvian Andes formerly contained large areas of montane and premontane tropical forests, although logging and agricultural expansion has resulted in extensive deforestation and habitat fragmentation. This study evaluates the regional context of the valley by a comparison of data from a series of one hectare plots giving data on the diversity and structure of trees ≥10 dbh, and then examines in more detail data from a 1 ha plot located in a newly declared conservation area (Pampa Hermosa Reserved Zone) embodying one of the most intact forest remains. An explicit goal was also to test the efficacy of sampling using taxonomic surrogacy, which could provide an effective means of making more efficient such work among diverse tropical forests. The Cedros de Pampa Hermosa plot contained 444 individuals belonging to 135 species, 66 genera and 35 families. The families Lauraceae, Meliaceae, Moraceae and Urticaceae provided over half of the individuals counted. The high representation of Urticaceae species suggests a disturbance regime driven by the large sizes of the Meliaceae species and their dynamics on steep slopes. Indicator species analyses supported other evidence that this site at 1,600 m is located in a broad ecotonal area transitioning to premontane and lowland rain forests. Ordinations (nMDS) based on Bray–Curtis similarities and total abundance, basal areas and presence-absence data of the 598 species (3,469 individuals) found on all seven one hectare plots sampled in the valley showed a clear separation into three tree assemblage types, namely the lower montane site, and two others on the eastern and western sides of the valley. Ordination patterns were quite similar at species and family level, but did not show any site groupings at the generic level, suggesting important turnover of species and families along environmental gradients. A number of species could not be allocated to known taxonomic groups, and were evaluated as morphotaxa. The inclusion or exclusion of such taxa did not dramatically alter the main ordination patterns within taxonomic levels of botanical family or of species, which implies that rapid inventory methods and incomplete identifications can still provide data useful for conservation planning in this and similar forests.     

Life histories of Clethrionomys and Microtus (Microtinae)

Although there have been numerous life-history reviews of mammals at high taxonomic levels (e.g. among families within orders), there are far fewer studies at lower taxonomic levels (e.g. among species within genera). Data on adult weights, litter size, gestation length, neonate weight, age and weight at weaning, growth rate to weaning, maximum life span, and length of the breeding season were compiled from the literature on five species of Clethrionomys and 33 species of Microtus. Variability in litter size and male body weights was not significantly different when compared between cyclic and non-cyclic populations. Coefficients of variation were also calculated for the three species with the most data (C. gapperi, C. glareolus and M. pennsylvanicus ). These values showed that the amount of intraspecific variation differed among traits as well as among species. Gestation length was the most invariable of all traits and variation in adult weights, neonate weight, gestation length, and litter size had similar values to those reported for Peromyscus maniculatus. Five and eight traits differed among Clethrionomys and Microtus species, respectively. Differences in litter size, adult weights and length of the breeding season were common to both genera. Male weight, gestation length and neonate weight as well as length of the breeding season were different between genera. Very few traits covaried within C. gapperi, C. glareolus or M. pennsylvanicus. Similarly, few traits covaried among all Clethrionomys populations. However, among all Microtus populations and Microtus species, 11 and 12 correlations were significant. Many of the patterns found in Microtus involved positive relationships between female weight and some other trait. These patterns have also been found by broader surveys at higher taxonomic levels. Large species of Microtus had larger offspring, a greater litter size and occurred in short-season environments relative to small species of this genus.     

Comparative taxonomic structure of the floras of two Mediterranean-climate regions: Iberia and California

Two major events were invoked to understand recent biodiversity patterns in Mediterranean floras: northern hemisphere glaciations and historical human impacts. These two events were considered in this work, where we investigated general patterns in plant species richness and rarity attributes in two different Mediterranean regions: California and Iberia. Our goal was to assess whether comparisons of this sort provided evidence of different extinctions rates, making an effort to decouple anthropogenic from ice age‐related effects in both regions. We employed a taxonomically revised database for eight Mediterranean floras containing information on species richness for 298 families and rarity attributes for 11,834 taxa. We used summary statistics (Gini coefficient) and randomly generated models to test for general patterns of the distribution of diversity within and among taxonomic groups. We then used this general pattern among Mediterranean floras to provide a context in which to evaluate our two focal areas. Results indicated that floras of California and Iberia share the closest taxonomic structure among Mediterranean regions. Differences emerged in rarity attributes and the taxonomic identities of rarity rich groups. These findings were interpreted in the light of Pleistocene changes. In addition, a closer focus on rarity attributes allowed us to pinpoint some segments of these floras where anthropogenic activities may drive variation from general patterns, specifically for rare species in ecologically sensitive habitats.     

广西特有植物区系特征研究

分析论述了广西特有植物区系特征。结果表明:(1)广西特有植物共859种,隶属于119科303属,其中蕨类植物15科22属42种,裸子植物3科4属7种,被子植物101科277属810种。这些特有种中,以草本植物种类最多,有440种,灌木、乔木类型次之。(2)地理成分复杂多样,分布交错混杂。种子植物科包含9个分布类型,属包含14个分布类型。种则依据在广西区内地理分布可划分为5个分布亚型,其中以桂西南分布种类最多。(3)科属种的水平上都表现出明显的的热带-亚热带性质。4.区系成份兼具古老性和年青性,并表现出岩溶地区特有化发展的特征。     

The influence of species pools and local processes on the community structure: a test case with woody plant communities in China's mountains

Understanding how patterns of biodiversity vary among taxonomic levels can provide insights into the mechanisms that regulate the assembly of ecological communities. In this study, we examined the scale and environmental dependence of the relationship between number of species and number of genera/families in woody plant communities to investigate the influences of species pool and local ecological processes on the taxonomic structures of local communities. The data we used are based on a large number of forest plots collected across the eastern part of China and the globe. The results showed that the ratio of the number of genera/families:species and the taxonomic exponents, i.e. the exponents of the genus/family–species relationship, were generally lower than null expectations based on the regional species pool, suggesting that abiotic filtering (e.g. environmental filtering and dispersal limitation) is more important than interspecific competition in shaping local communities. The extent of species pool and the area sampled for local communities both influenced our ability to infer whether local ecological processes were important. In particular, the deviation of the taxonomic ratios and exponents between empirical and null patterns increased as the extent of species pool increased, and the taxonomic exponents declined as area of the local community increased, due partly to the reduced effect of interspecific competition. We conclude that regional species pools and local processes both influenced the taxonomic structure of local woody plant communities, but their effects vary substantially among spatial scales.     

An approach based on the total‐species accumulation curve and higher taxon richness to estimate realistic upper limits in regional species richness

Most of accumulation curves tend to underestimate species richness, as they do not consider spatial heterogeneity in species distribution, or are structured to provide lower bound estimates and limited extrapolations. The total‐species (T–S) curve allows extrapolations over large areas while taking into account spatial heterogeneity, making this estimator more prone to attempt upper bound estimates of regional species richness. However, the T–S curve may overestimate species richness due to (1) the mismatch among the spatial units used in the accumulation model and the actual units of variation in β‐diversity across the region, (2) small‐scale patchiness, and/or (3) patterns of rarity of species. We propose a new framework allowing the T–S curve to limit overestimation and give an application to a large dataset of marine mollusks spanning over 11 km² of subtidal bottom (W Mediterranean). As accumulation patterns are closely related across the taxonomic hierarchy up to family level, improvements of the T–S curve leading to more realistic estimates of family richness, that is, not exceeding the maximum number of known families potentially present in the area, can be considered as conducive to more realistic estimates of species richness. Results on real data showed that improvements of the T–S curve to accounts for true variations in β‐diversity within the sampled areas, small‐scale patchiness, and rarity of families led to the most plausible richness when all aspects were considered in the model. Data on simulated communities indicated that in the presence of high heterogeneity, and when the proportion of rare species was not excessive (>2/3), the procedure led to almost unbiased estimates. Our findings highlighted the central role of variations in β‐diversity within the region when attempting to estimate species richness, providing a general framework exploiting the properties of the T–S curve and known family richness to estimate plausible upper bounds in γ‐diversity.     

Flowering patterns among angiosperm species in Korea: diversity and constraints

Because of the complexities of their flowering parameters, it is difficult to make generalizations about flowering phenology among temperate angiosperms. We examined patterns of flowering time and duration among 2867 Korean angiosperm species, and these patterns were associated with climatic factors. The effect of taxonomic membership was also tested. Overall data pooled over species from 165 families showed that 63.8% of these angiosperms flowered in summer, 19.5% in spring, 16.5% in autumn, and 0.2% in winter. Summer and autumn flowering periods were significantly longer than springtime events. Both mean monthly temperature and precipitation were strongly positively correlated with the number of species in flower, but not with flowering duration. The seven largest families differed in their flowering season and duration; both parameters were also segregated among genera within large families. In a two-way analysis, both flowering season and family membership exerted significant effects on flowering duration. These results demonstrate that the evolutionary influence on flowering time and duration can be observed at the community level when two factors are considered, i.e., the interaction of flowering parameters and the taxonomic composition of species within those communities.     

中国高等植物多样性编目进展

中国高等植物多样性编目是“中国生物物种名录”项目中的重要组成部分, 旨在后植物志时代对中国高等植物的物种名录进行修订和年度更新。自2017年深圳国际植物学大会以来, 中国高等植物物种名录已进行了5次年度更新。名录参考最新的植物分类学研究进展, 对各大类群全面采用有分子证据的新分类系统, 收录5年来发表的中国植物新类群和新记录, 补充往年遗漏的部分类群, 并依据新的专科专属的修订结果对发生属间分类变动的类群进行了更新。目前的中国高等植物物种名录包含角苔类4科9属27种, 苔类62科170属1,081种94个种下等级, 藓类94科453属2,006种154个种下等级, 石松类3科12属165种4个种下等级, 蕨类38科177属2,215种228个种下等级, 裸子植物10科45属291种118个种下等级, 被子植物272科3,409属32,708种6,909个种下等级, 共计483科4,275属38,493种7,507个种下等级, 较5年前增加了19科270属2,334种。     

Phytogeography of the Kaieteur Falls, Potaro Plateau, Guyana: floral distributions and affinities

Aim The plant diversity of one location on the Guiana Shield, Kaieteur National Park in Guyana, is used to examine the various hypothesized origins of the flora and to evaluate which may best explain the current plant distributions. Location Kaieteur National Park is located on eastern edge of the Potaro Plateau in central Guyana, South America. The species examined have distributions that vary from local to global. Methods The distribution patterns of the families, genera and species known from Kaieteur are examined using generalized distribution patterns. Results Data on distribution patterns, elevation and habitat were gathered from 131 flowering plant families, 517 genera and 1227 species. These plants represent all taxa that are currently known to occur in the area of the original Kaieteur National Park. Families tend to have cosmopolitan or pantropical distribution, genera are mostly neotropical and at the species level, most species are restricted to the Guiana Shield (c. 40%), northern South America (69%) or neotropical (96%) in distribution, each level inclusive of the previous. Conclusions The flora at the study site in Kaieteur National Park has its strongest affinity with the Guiana Shield; 42.1% of the species have a distribution that corresponds with the Shield or is more restricted within the Shield. There is a distinct flora on the Guiana Shield and its affinities lie with the flora of northern South American and beyond that, the neotropics. The flora is not closely affiliated with the floras of the Brazilian Shield, the Amazon, the Andes, the eastern coastal forests of Brazil, southern South America, or Africa as has been previous suggested.     

Angiosperm growth habit,dispersal and diversification reconsidered

Summary Previous studies have sought to elucidate the relationship between dispersal mode (biotic versus abiotic) and the taxonomic diversification of angiosperm families, but with ambiguous results. In this study, we propose the hypothesis that the combination of (1) the large seed size required of plants germinating in closed, light-poor environments and (2) the necessity to move disseminules away from the maternal plant in order to avoid intraspecific competition, predation and pathogens should favour biotically-dispersed relative to abiotically-dispersed woody arborescent angiosperms, resulting in higher diversification of the former. In this paper, we seek patterns of diversification that support this hypothesis. We examine the association between dispersal mode, growth habit and taxonomic richness of monocotyledon and dicotyledon families using (1) contingency table analyses to detect the effect of dispersal mode on the relative abundances and diversification of woody versus herbaceous taxa and (2) non-parametric analyses of variance to detect the statistical effect of dispersal mode on taxonomic diversification (mean number of species per genus, genera per family and species per family) in monocot and dicot families dominated by biotic or abiotic dispersal. We found a clear statistical effect of dispersal mode on diversification. Among families of woody dicots, dispersal by vertebrates is associated with significantly higher levels of species per genus, genera per family and species per family than is abiotic dispersal. The same pattern is observed among woody monocots, but is not significant at the 0.05 level. Among families of herbaceous monocots and dicots, the situation is reversed, with abiotically-dispersed families exhibiting higher levels of diversification than vertebrate-dispersed families. When woody and herbaceous families are pooled, there is no association between dispersal mode and diversification. These data coincide with evidence from the fossil record to suggest vertebrate dispersal has positively contributed to the diversification of woody angiosperms. We suggest that vertebrate dispersal may have promoted the diversity of extant taxa by reducing the probability of extinction over evolutionary time, rather than by elevating speciation rates. Our results suggest vertebrate dispersal has contributed to, but does not explainin toto, the diversity of living angiosperms.