Genetic Evidence for the Allodiploid Origin of the Moss Species Polytrichum longisetum

Abstract: Fixed heterozygous banding patterns observed for 4 allozyme and 12 microsatellite loci, in combination with a chromosome number of 14, show that Polytrichum longisetum is an allodiploid species. Comparison of these banding patterns with those of related Polytrichaceae species suggest that Polytrichum formosum, or an ancestor taxon of this species, is one of the haploid progenitors of P. longisetum. The second progenitor species of P. longisetum could not be designated in this study as it was not among the examined possible progenitor species. DNA sequence data for two microsatellite loci, however, suggest that the second progenitor species should possibly be more closely related to P. formosum than any of the other haploid possible progenitor species examined in this study. As the current systematic literature does not mention the existence of such a species, this could indicate that the second progenitor species is already extinct.     

上升流和水团对浙江中部近海浮游动物生态类群分布的影响

依据2010年4月、7月和11月对浙江中部近海上升流海域进行的海洋调查资料,运用定量、定性方法,探讨了上升流对该海域浮游动物生态类群分布的影响.结果表明:3个季节共鉴定浮游动物64种,桡足类占主要优势,包括5个生态类群,分别是暖温带近海种、暖温带外海种、亚热带近海种、亚热带外海种和热带大洋种.在种类数组成上,春季以暖温带近海种为主,夏季则是亚热带近海种和亚热带外海种居多,秋季也是亚热带种居多,其中夏季暖温带种种类数要高于春季和秋季,这一现象与同时期东黄海沿海有所不同,主要是由于上升流将一些在海洋底部度夏的暖温种带至海洋表面造成的.此外,3个季节生态类群都是以近海种为主,表明沿岸流是影响这一海域的最主要的水团.在丰度组成上,4月暖温带近海种占总丰度的98.79％,7月暖温带近海种也是组成丰度的重要部分,10月则是亚热带近海种丰度最高.丰度组成所反映的规律与种类数组成规律一致.上升流的存在导致夏季近海暖温带种大量出现,是影响这一海域浮游动物生态类群组成的重要因素;受长江径流和椒江径流的影响,近海种成为主要生态类群,是这一海域浮游动物的一个重要的生态特征.     

Cryptic species as a window into the paradigm shift of the species concept

The species concept is the cornerstone of biodiversity science, and any paradigm shift in the delimitation of species affects many research fields. Many biologists now are embracing a new “species” paradigm as separately evolving populations using different delimitation criteria. Individual criteria can emerge during different periods of speciation; some may never evolve. As such, a paradigm shift in the species concept relates to this inherent heterogeneity in the speciation process and species category—which is fundamentally overlooked in biodiversity research. Cryptic species fall within this paradigm shift: they are continuously being reported from diverse animal phyla but are poorly considered in current tests of ecological and evolutionary theory. The aim of this review is to integrate cryptic species in biodiversity science. In the first section, we address that the absence of morphological diversification is an evolutionary phenomenon, a “process” counterpart to the long‐studied mechanisms of morphological diversification. In the next section regarding taxonomy, we show that molecular delimitation of cryptic species is heavily biased towards distance‐based methods. We also stress the importance of formally naming of cryptic species for better integration into research fields that use species as units of analysis. Finally, we show that incorporating cryptic species leads to novel insights regarding biodiversity patterns and processes, including large‐scale biodiversity assessments, geographic variation in species distribution and species coexistence. It is time for incorporating multicriteria species approaches aiming to understand speciation across space and taxa, thus allowing integration into biodiversity conservation while accommodating for species uncertainty.     

Correcting widespread misidentifications of the highly abundant and commercially important sardine species Sardinella lemuru,Bleeker, 1853 in the Philippines

Morphology, meristics, and molecular genetics tools were used to determine the species level identification of the most commonly landed sardine species in the Philippines. Results from this study indicated that the historical and widely applied nomenclature of the Indian oil sardine, Sardinella longiceps, is incorrect and that this species is instead the Bali sardinella Sardinella lemuru. Developing an effective strategy for managing one of the Philippines most important commodity sardine species first requires accurate identification of this species. Results of this study provide needed information that is now being applied to emerging management policies.     

An assessment of the dependence of evenness indices on species richness

Evenness is the component of species diversity that was built to be mathematically independent from species richness. Yet, earlier work questioned the generality of this independence. However, this earlier work involved only a few relative abundance distributions (RADs), very limited gradients of species richness, or evenness indices, such as Pielou's index, that were not defined in relation to a precise, coherent set of axioms. We show that for very different theoretical RADs, a relationship between evenness indices and species richness does exist and is strong-at least for some RADs and/or when species richness is under 20. Furthermore, this relationship is mostly negative, which contradicts some previous studies. We also show that, for the very uneven RADs we tested, evenness indices depend even more on species richness than diversity indices do. Finally, we discuss the philosophy behind the analysis of evenness-richness relationships within and between RADs, as well as the interest of correcting evenness indices for species richness when species richness varies, especially with many values under 20.     

Diversity of butterflies on British islands: ecological influences underlying the roles of area, isolation and the size of the faunal source

To distinguish between the influences of area and isolation on the butterfly faunas of British islands two approaches are adopted. First, species richness is related to island area, isolation and the size of the faunal source. Neither area nor isolation account for much variance in species richness, though area is more important than isolation. In contrast, species richness corresponds closely to the size of the faunal source on nearby islands and to that at proximate locations on adjacent mainlands. The second approach relates the incidence of species on islands to their ecological attributes. A very close relationship is found between species incidence on islands and those ecological variables that measure potential for migration and colonization and that resist extinction. The implications are that the majority of British islands in this survey are insufficiently isolated to prevent intermittent migrations of butterflies to them or so small as to generate frequent extinctions. Independent data indicate the capacity of many resident species to migrate distances in excess of the isolation of most of the islands. Some evidence also exists for the long-term survival of species on islands; important considerations in this respect are that most islands in the survey are large compared to habitat patches sustaining species on mainland Britain and that substantial portions of islands are retained in early seral stages or comprise long-lived stable habitats (e.g. peat mosses) that are particularly suitable for many British species.     

Diversification of the forest beetle genus Tarphius on the Canary Islands, and the evolutionary origins of island endemics

The flightless beetle genus Tarphius Erichson (Coleoptera: Colydiidae) is a distinctive element of the beetle fauna of the Canary Islands with 29 species distributed across the five western islands. The majority of Tarphius species are rare and intimately associated with the monteverde forest and only two species occur on more than one island. In this study we investigate the phylogeography of the Canary Island Tarphius, and their relationship to Tarphius from the more northerly archipelagos of Madeira and the Azores using maximum parsimony and Bayesian inference analysis of mitochondrial cytochrome oxidase I and II sequence data. We use geological datings for the Canary Islands, Azores, and Madeira to calibrate specific nodes of the tree for the estimation of divergence times using a penalized likelihood method. Data suggest that the Canary Island species assemblage is of some antiquity, however, much of this species diversity is relatively recent in origin. The phylogenetic relationships of species inhabiting the younger islands of El Hierro and La Palma indicate that colonization events between islands have probably been a significant factor in the evolutionary history of the Canary Island species assemblage. A comparison of molecular phylogenetic studies of arthropods on the Canary Islands suggests that, in the evolution of the arthropod species community of an island, the origin of endemic species is initially the result of colonizing lineages differentiating from their source populations. However, as an island matures a greater proportion of endemic species originate from intra-island speciation.     

Evolutionary conservation of the chromosomal configuration and regulation of amylase genes among eight species of the Drosophila melanogaster species subgroup

Nuclear DNA was extracted from each of the eight species comprising the Drosophila melanogaster species subgroup. Southern hybridization of this DNA by using a molecular probe specific for the alpha-amylase coding region showed that the duplicated structure of the amylase locus, first found in D. melanogaster, is conserved among all species of the melanogaster subgroup. Evidence is also presented for the concerted evolution of the duplicated genes within each species. In addition, it is shown that the glucose repression of amylase gene expression, which has been extensively studied in D. melanogaster, is not confined to this species but occurs in all eight members of the species subgroup. Thus, both the duplicated gene structure and the glucose repression of Drosophila amylase gene activity are stable over extended periods of evolutionary time.      

Generalizations and kinds in natural science: the case of species

Species in biology are traditionally perceived as kinds of organisms about which explanatory and predictive generalizations can be made, and biologists commonly use species in this manner. This perception of species is, however, in stark contrast with the currently accepted view that species are not kinds or classes at all, but individuals. In this paper I investigate the conditions under which the two views of species might be held simultaneously. Specifically, I ask whether upon acceptance of an ontology of species as diachronic segments of the tree of life (this is one version of the species as individuals ontology) species can perform the epistemic role of kinds of organisms to which explanatory and predictive generalizations apply. I show that, for species-level segments of the tree of life, several requirements have to be met before the performance of this epistemic role is possible, and I argue that these requirements can be met by defining species according to the Composite Species Concept proposed by Kornet and McAllister in the 1990s.     

The scale of analysis determines the spatial pattern of woody species diversity in the Mediterranean environment

We examine the spatial pattern of woody species diversity at different scales, in two sites of Mt. Holomontas in northern Greece, which falls within the transitional zone between temperate forests and Mediterranean-type ecosystems. We investigate how diversity is distributed in space and whether the perceived pattern changes with the scale of observation. We use two different metrics of diversity: species richness and species turnover. Our main finding is that the spatial pattern of diversity changes with the scale of observation or analysis. For a given scale, the pattern of species richness (alpha diversity) is negatively correlated with the pattern of species turnover (beta diversity). Species-rich areas have more species in common with their neighbors than species-poor areas. The between-scale disparity of the spatial pattern of diversity may be a general feature of ecological systems. For this to be validated, studies with different groups of species in different biomes and in different biogeographical areas are required; our study contributes to this direction providing evidence that this holds true for woody species in Mediterranean communities. Finally, we discuss how these findings might affect important issues in theoretical and applied ecology, such as identifying the environmental factors driving biodiversity.     

Identifying the rooted species tree from the distribution of unrooted gene trees under the coalescent

Gene trees are evolutionary trees representing the ancestry of genes sampled from multiple populations. Species trees represent populations of individuals—each with many genes—splitting into new populations or species. The coalescent process, which models ancestry of gene copies within populations, is often used to model the probability distribution of gene trees given a fixed species tree. This multispecies coalescent model provides a framework for phylogeneticists to infer species trees from gene trees using maximum likelihood or Bayesian approaches. Because the coalescent models a branching process over time, all trees are typically assumed to be rooted in this setting. Often, however, gene trees inferred by traditional phylogenetic methods are unrooted. We investigate probabilities of unrooted gene trees under the multispecies coalescent model. We show that when there are four species with one gene sampled per species, the distribution of unrooted gene tree topologies identifies the unrooted species tree topology and some, but not all, information in the species tree edges (branch lengths). The location of the root on the species tree is not identifiable in this situation. However, for 5 or more species with one gene sampled per species, we show that the distribution of unrooted gene tree topologies identifies the rooted species tree topology and all its internal branch lengths. The length of any pendant branch leading to a leaf of the species tree is also identifiable for any species from which more than one gene is sampled.     

The evolution of the ribosomal loci in the subgenusLeopoldia of the genusMuscari (Hyacinthaceae)

In the subgenusLeopoldia of the genusMuscari, M. comosum is an exceptional species because it presents the most asymmetrical karyotype of the group and because its only active NOR is located in the fifth chromosome pair, while in the other species it is located in the first or second chromosome pairs (all the species have 2n = 18 chromosomes). SinceM. comosum has a derived karyotype different from those of the other species of the group, the resulting question is whether, in the first and second chromosome pair of this species, ribosomal cistrons persist. Observations after fluorescence in situ hybridization (FISH) using rDNA probes indicate that there are indeed ribosomal loci in the first and second chromosome pairs of this species, although these loci are inactive with respect to nucleolus organization. The location of rDNA regions in another three species of the same genus (M. atlanticum, M. dionysicum andM. matritensis) provides a basis for examining the significance of these findings in relation to the evolution of the ribosomal loci in this genus. Our observations indicate that in the genusMuscari, the largest sites for rRNA genes are not necessarily active, and, therefore, the activation of these regions is not related to the number of copies but to a specific regulation mechanism.     

On the centrality and uniqueness of species from the network perspective

Identifying important species for maintaining ecosystem functions is a challenge in ecology. Since species are components of food webs, one way to conceptualize and quantify species importance is from a network perspective. The importance of a species can be quantified by measuring the centrality of its position in a food web, because a central node may have greater influence on others in the network. A species may also be important because it has a unique network position, such that its loss cannot be easily compensated. Therefore, for a food web to be robust, we hypothesize that central species must be functionally redundant in terms of their network position. In this paper, we test our hypothesis by analysing the Prince William Sound ecosystem. We found that species centrality and uniqueness are negatively correlated, and such an observation is also carried over to other food webs.     

Does the species/area relationship account for the density/area relationship?

The best-known macroecological generalisation is the species/area relationship: larger areas contain more species. It has also been observed that the estimated densities of individual species is lower when they are censused over a larger area. Let us call this the density/area relationship. Numerous explanations for the density/area relationship have been proposed – including the idea that the relationship is artefactual. One possible explanation is that it is a necessary consequence of the species/area relationship – after all, if a larger area is to contain more species then the average abundance of individual species must decline. We study a data set that allows us to study both relationships simultaneously. We conclude that the density/area relationship observed for the individual species in this study is consistent with the species/area relationship explanation: in other words, the densities of individual species decline, quantitatively, in the manner required to fit more species into communities with larger areas. We conclude that whatever explains the species/area relationship also explains the density/area relationship and discuss, in particular, the habitat heterogeneity hypothesis.     

生产力与生物多样性关系研究进展

生物多样性与生态系统的功能的关系已经成为人类社会面临的一个重大科学问题。本文简要介绍了生产力与生物多样性的概念和研究背景,综述了生产力与物种多样性关系研究的最新进展与争论：1．是物种多样性还是物种特性或物种组成决定生态系统的功能,目前还没有一致的结论;2．生产力与物种多样性关系的尺度效应极其明显,深刻理解和把握生态学尺度和尺度效应有望成为解析生产力与物种多样性关系的突破口：3．不能只保护所谓的关键种,考虑到生态系统的功能很大程度上依赖于受各式各样物种影响的各种不同的过程,尽最大可能保护最大的多样性,才是谨慎而明智的：4．由于自然生态系统极大的复杂性,生产力与物种多样性关系并没有一般的模式。在对已有成果进行综合分析的基础上,对生产力与物种多样性关系研究中亟待解决的区别物种特性与物种多样性问题、尺度问题、实验设计问题进行了探讨,并对未来的发展方向进行了展望。     

Daily flight activity of moths in the continuous daylight of the arctic summer

The daily onset of flight and the lime of activity of moths were studied at an arctic and a subarctic locality in midsummer under natural light conditions but with all other factors kept constant. The daily variation of light intensity is much smaller than at temperate latitudes, and the illumination is continuously at levels that normally inhibit the activity of moths. In spite of this, the investigated species showed a distinct daily periodicity with the activity occurring at about the same time of day as in the same or related species from lower latitudes. It is suggested that this is the result of a process of acclimatization to high light intensities.
A number of species show a diurnal activity pattern, and it is suggested that this is connected with their high temperature requirements. In the field, Anarta zetterstedti Staud. thermoregulates by settling frequently on dark rocks which can reach high temperatures when the sun is shining. This species can not fly unless its body temperature is above 30°C and it prefers an ambient temperature of about 36°C.     

太行山脉东坡中南段种子植物区系初步分析

太行山脉东坡中南段分布有种子植物106科、464属、942种。对该地区种子植物区系进行了统计分析,结果表明:(1)本地区种子植物种类不丰富,有裸子植物2科, 4属, 5种;单子叶植物16科, 88属, 173种;双子叶植物88科, 372属, 764种。(2)属的地理分布类型多样,有15个分布类型及12个变型。其中温带成分占73.25%,具有明显的优势。热带成分占23.75%。(3)古老、残遗、原始成分较多,反映该地区植物区系具有一定的古老性。(4)有中国种子植物特有属12属,国家级保护植物11种。分析认为该地区是华北植物区系的重要组成部分。     

Modelling the known and unknown plant biodiversity of the Amazon Basin

Aims The overall aim of this study is to provide the data needed for Amazonian conservation and the sustainable management of the region. To this end I model the hypothetical distribution of plant species richness across the Amazon Basin, the distribution of the proportion of this species richness that can be accounted for by described species, and hence the distribution of the biodiversity which remains unknown. Location Amazonia, Neotropics. Methods Species richness across the Amazon Basin is estimated by comparing the occurrences of 1584 species of Magnoliophyta whose taxonomy and geographical distributions are relatively well known. These data are used to collate checklists for squares of 1° latitude by 1° longitude. Comparison of the checklists allows estimation of the relative expected diversity in the vicinity of each degree square. Summing the distributions of the hypothetical real ranges gives the proportion of the biodiversity that can be accounted for by described species. Subtraction of the second distribution from the first gives a distribution of the contribution to the overall biodiversity that the model predicts, potentially, results from as yet undescribed species. Results Collections documented in recent botanical monographs show an extremely biased distribution with the best knowledge being found in a very few relatively well‐collected areas. At the degree square level, this model predicts that gamma biodiversity in the Amazon Basin is uniformly high across most of the basin. The model predicts that four large areas of the basin are particularly poorly known, and that they should contain large numbers of uncollected species. Main conclusions The model presented here highlights the difficulties of quantifying Amazonian plant diversity and its distribution. The low density of collections, and especially their extremely clumped distribution, undermines confidence in theories that seek to explain the apparent distribution of biodiversity. The model's prediction is substantially different from published predictions of the distribution of alpha diversity. Testing of this model in the areas identified as lacunae would require collecting programmes designed to collect fertile material of rare species. If the model's predictions are approximately accurate, the plant biodiversity of the Amazon Basin is considerably underestimated.     

Successful city dwellers: a comparative study of the ecological characteristics of urban birds in the Western Palearctic

Numerous species have adapted to the proximity of humans, and this feature is no clearer than among species that have invaded towns and cities. The characteristics of species that have successfully managed to expand their range into urban areas remain largely unexplored, although they are of general interest in a world that is increasingly urbanised. I hypothesised that widely distributed species with high dispersal abilities, species with a high rate of innovation, a high level of risk-taking, and a fast life history would have a selective advantage in habitats influenced by humans. Consistent with this hypothesis, in a comparative analysis of 39 independent evolutionary events of urbanisation of birds in the Western Palearctic (thus taking the fact that closely related species that have become urbanised are caused by common phylogenetic descent rather than convergent evolution), bird species that adapted to urban habitats were characterised by large breeding ranges, high propensity for dispersal, high rates of feeding innovation (novel ways of acquiring food), short flight distances when approached by a human, and a life history characterised by high annual fecundity and high adult survival rate. Urban species may be disproportionately resistant to parasitism and predation because they had disproportionately strong immune responses, as reflected by the size of the bursa of Fabricius, and a history of weak predation-mediated natural selection, as reflected by the force required to remove feathers from the rump. Urban species had high overall ecological success as indicated by large range size and population size and high population density. This suggests that a suite of ecological features providing them with general ecological success characterises species of birds that have successfully invaded urban environments. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.