A review of criticisms of phylogenetic nomenclature: is taxonomic freedom the fundamental issue?

The proposal to implement a phylogenetic nomenclatural system governed by the PhyloCode), in which taxon names are defined by explicit reference to common descent, has met with strong criticism from some proponents of phylogenetic taxonomy (taxonomy based on the principle of common descent in which only clades and species are recognized). We examine these criticisms and find that some of the perceived problems with phylogenetic nomenclature are based on misconceptions, some are equally true of the current rank-based nomenclatural system, and some will be eliminated by implementation of the PhyloCode. Most of the criticisms are related to an overriding concern that, because the meanings of names are associated with phylogenetic pattern which is subject to change, the adoption of phylogenetic nomenclature will lead to increased instability in the content of taxa. This concern is associated with the fact that, despite the widespread adoption of the view that taxa are historical entities that are conceptualized based on ancestry, many taxonomists also conceptualize taxa based on their content. As a result, critics of phylogenetic nomenclature have argued that taxonomists should be free to emend the content of taxa without constraints imposed by nomenclatural decisions. However, in phylogenetic nomenclature the contents of taxa are determined, not by the taxonomist, but by the combination of the phylogenetic definition of the name and a phylogenetic hypothesis. Because the contents of taxa, once their names are defined, can no longer be freely modified by taxonomists, phylogenetic nomenclature is perceived as limiting taxonomic freedom. We argue that the form of taxonomic freedom inherent to phylogenetic nomenclature is appropriate to phylogenetic taxonomy in which taxa are considered historical entities that are discovered through phylogenetic analysis and are not human constructs.     

Plant biodiversity in the Saint Catherine area of the Sinai peninsula, Egypt

This study focuses on plant species richness, taxonomic diversity, and endemism of the Sinai peninsula as a whole and Saint Catherine area in particular. Beta diversity was also measured using _T to represent the biotic change between different landforms in the St. Catherine area. The peninsula supports about 1285 species including the infraspecific taxa of which about 800 species (also including the infraspecific taxa) are recorded in the southern Sinai south of El-Tih Desert. The present study reveals that southern Sinai is more diverse as compared with the Sinai peninsula as a whole. Southern Sinai also supports more than the expected numbers of rare and very rare species (about 62%) and about 4.3% endemic species. Beta diversity between different landforms in the St. Catherine area reflect a large biotic change between slopes and terraces on the one hand and between terraces and ridges on the other. Finally, the study recommends appropriate management of the peninsula and more research for the management requirements of the numerous endemic and rare species in the Sinai peninsula.     

近金线属的分类地位及金线属的鉴别特征(鲤形目:鲤科:亚科)

本文根据系统学原理,提出了建立新类元的依据;并据此从分类和系统发育上论证了近金线属ＡｎｃｈｉｃｙｃｌｏｃｈｅｉｌｕｓＬｉｅｔＬａｎ独立成属的可能性,认为应将近金线属归于金线属;修订了金线属ＳｉｎｏｃｙｃｌｏｃｈｅｉｌｕｓＦａｎｇ的鉴别特征。     

Taxonomic relationships in East AsianVicia species with unijugate leaves based on random amplified polymorphic DNA markers

Random amplified polymorphic DNA(RAPD) markers were investigated to clarify the taxonomic positions ofVicia linearifolia andV. bifolia, and to assess the genomic diversity among the 9 populations ofV. unijuga, each of which represents a geographical variation or infraspecific taxa in southern Korea. These species are characterized by unijugate leaves in East Asia and have been controversial as to infra-or interspecific classification. The polymorphic markers among the populations examined were observed for fifteen decamer primers. The degree of band sharing was used to calculate genetic similarity between populations, and a phenogram using UPGMA cluster analysis was generated based on the Dice similarity coefficient. The taxa studied were divided into two main groups and the populations ofV. unijuga were all grouped together in the phenogram. The genetic similarities ofV. unijuga were very high among the populations and did not show distinctions between the infraspecific taxa, although the populations of Mt. Odae and adjacent areas in eastern Korea were different from others of the species.V. linearifolia fell within the range of the genomic variation among the populations ofV. unijuga, whileV. bifolia was grouped withV. venosa var.cuspidata having multijugate leaves rather thanV. unijuga. The result from studying RAPD markers suggested thatV. linearifolia should be integrated intoV. unijuga and that species with unijugate leaves ofV. bifolia andV. unijuga are polyphyletic.     

杜鹃花属映山红亚属植物叶表皮显微形态特征及其分类学意义

为澄清映山红亚属(Rhododendron subg. Tsutsusi)内的系统关系问题,该研究选择杜鹃花属映山红亚属37种植物作为对象,其中29种为首次报道,通过扫描电镜观察其叶表皮显微特征。结果表明:(1)气孔器均为无规则型且均在远轴面。(2)根据叶片微形态特征将映山红亚属的种类分为杜鹃型(R. simisii-type)、岭南杜鹃型(R. mariae-type)、皋月杜鹃型(R. indicum-type)、崖壁杜鹃型(R. saxatile-type)及丁香杜鹃型(R. farrerae-type)5种类型。(3)杜鹃型植物的气孔器周边无或具间断的条形突起。(4)岭南杜鹃型植物的气孔器周围有多层条形突起环绕,保卫细胞两极不具T型加厚。(5)皋月杜鹃型植物的叶表皮保卫细胞两极具有T型加厚,与叶状苞亚属(Subg. Therorhodion)叶状苞杜鹃(R. redowskianum)的气孔器特征相似,推测其与叶状苞亚属具有一定的亲缘关系。(6)崖壁杜鹃型植物的叶表皮毛单一,多呈卷曲状,与其他类型有所不同且未见腺体。(7)丁香杜鹃型植物的叶表皮仅有腺体。(8)依据叶表皮微形态特征讨论了一些近缘种类的关系,如倾向于将背绒杜鹃(R. hypoblematosum)和千针叶杜鹃(R. polyraphidoideum)处理为独立的种,支持保留紫薇春(R. naamkwanense var. cryptonerve)作为南昆杜鹃(R. naamkwanense)的变种地位,不支持将腺花杜鹃(R. adenanthum)并入细瘦杜鹃(R. tenue)作异名处理等。该研究结果表明叶表皮显微特征在映山红亚属内物种划分上具有重要价值。     

Morphological variation of species through time

Ten measurements, taken from each of 700 shells or four biologically distinct shallow marine gastropod species, were used to define the appropriate phenotypes in multidimensional space. Canonical discriminant analysis was performed on the data and a set of allocatory rules was derived. These allocatory rules, derived from extant specimens, were than applied to 644 fossil specimens of three of these biological species. Fossil individuals occupy the appropriate phenotypic space as defined by their modern descendants. The variation of fossil sample means about the modern means is illustrated. This variation is in the form of oscillations around the modern mean values and is correlated with climate. The distinction between taxonomic and biological species is discussed. The results of a number of previous studies are re-examined in the light of this discussion. It is argued that biological groupings can only be reliably determined when the appropriate data are available for extant organisms. Extant organisms, which have good fossil records, should therefore from the basis of paleontological evolutionary studies.     

Assessing effects of flow alteration on macroinvertebrate assemblages in Australian dryland rivers

1. Possible impacts of water‐resource development on assemblages of freshwater macroinvertebrates were investigated in the upper Darling River and some of its tributaries in north‐western New South Wales (Australia), an arid and semi‐arid region of low relief where alteration of river flows has intensified through expansion of irrigated agriculture. 2. Study sites were grouped into four hydrological regimes resulting from impoundment, flow regulation, water abstraction and natural variation, namely (i) intermittent flow with relatively little hydrological alteration from water‐resource development, (ii) intermittent flow with substantial alteration, (iii) near‐perennial flow with substantial alteration but unimpounded and (iv) near‐perennial flow with substantial alteration plus impoundment by weirs that stabilise water levels. 3. Macroinvertebrates were sampled with three methods (a quantitative cylinder sampler, handnet sampling and baited traps) in three periods with differing hydrology (recessional low flow in June 2003, high flow in March 2004 and increasing flow after drought in December 2004). 4. Taxonomic richness, assemblage composition and catch per unit effort of the crayfish Cherax destructor differed significantly among the site groups, but total macroinvertebrate density and the AUSRIVAS O/E (Australian River Assessment System observed‐over‐expected) index did not. The principal spatial differences were between the intermittent and near‐perennial rivers, and apparent effects of water‐resource development and impoundment were more subtle. Temporal differences in richness, abundance and composition were substantial and appeared to be related mainly to variations in discharge and temperature. 5. Current macroinvertebrate‐based methods for assessing the ‘condition’ or ‘health’ of Australian dryland rivers are inadequate. Such assessments might be improved with (i) reference data that take adequate account of antecedent hydrological conditions, (ii) consideration of long‐term taxonomic richness as well as richness on individual sampling occasions, (iii) evaluation of invertebrate population sizes, (iv) analysis of assemblage data by trait composition and (v) adoption of the genus as the default level of taxonomic resolution.     

云南产凤尾蕨属植物(凤尾蕨科)的新修订

在《中国植物志》和《云南植物志》的基础上,对云南产凤尾蕨属植物进行新的分类修订。文中澄清了8个混淆类群,其中新等级1种,即高原凤尾蕨Pteriscuspigera(Chingex Ching et S.H.Wu)X.Q.Song;云南分布新记录1种,即假指状凤尾蕨Pteris psudodactylina Ching et S.K.Wu;新异名3个,即Pteris asperi-caulis var.cuspigera Chingex Ching et S.H.Wu,Pteris inaequalis Bak.及Pteris wallichiana var.yunnanensis(Christ)Ching et S.H.Wu。还列出了新修订种类的文献引证、标本引证、生境和地理分布。经该文研究确认,现知云南有该属植物48种。     

楼梯草属研究随记

在该文中首次给出革叶楼梯草的雄头状花序描述;还给出樱叶楼梯草雄头状花序的修正描述和兜苞墨脱楼梯草的修正特征集要;写出托叶楼梯草和南川楼梯草二种的分类学修订,其中包括2新变种和2新等级;描述了小叶楼梯草组的1新种和骤尖楼梯草组的3新种;数年前被归并为异名的兜苞墨脱楼梯草和五肋楼梯草得到恢复。     

Ecological biogeography of Malagasy non‐volant mammals: community structure is correlated with habitat

Aim To examine the relationship between ecoregions, as a proxy for regional climate and habitat type, and mammalian community structure, defined by species composition and richness (e.g. taxonomic structure) and ecological diversity (e.g. ecological structure) of non‐volant species. Location Madagascar. Methods Faunal lists of non‐volant mammal species occurring in 35 communities from five World Wildlife Fund ecoregions were collected from published and unpublished sources. Species were assigned to ecological groups defined by trophic status, locomotor habits, activity cycle and body mass. We used Mantel tests, cluster analysis and principal coordinates analysis to evaluate geographic patterning in taxonomic composition and species richness. We used stepwise multiple discriminant analysis to characterize patterns in the ecological diversity of the mammalian communities from each ecoregion. Communities from transitional habitats (e.g. representing more than one ecoregion) were used to test the predictive power of the analyses. Results Non‐volant mammal communities divided into clusters that correspond to ecoregions. There was a strong distance effect in the taxonomic structure of communities across the island and within both humid and dry forest communities, but this effect was weak within humid forest communities. Mammalian species richness was significantly lower in dry forest than in humid forest communities. The ecological structure of communities was also correlated with ecoregions. Changes in the relative percentages of omnivory, arboreal quadrupedalism, terrestrial/arboreal quadrupedalism and two body mass classes accounted for 98.1% of the variation in ecological structure. Transitional communities were projected in intermediate positions by the discriminant model. Main conclusions Our analysis demonstrates that the broad‐scale habitat and climate variables captured by the ecoregion model have shaped the assembly of non‐volant mammal communities in Madagascar over evolutionary time. The spatial pattern is consistent with ecological sorting of species ranges along environmental gradients. Historical processes, such as recent extinction and migration, may have also affected the structure of mammal communities, although these factors have played a secondary role.