Reverse Genetics for Peste des Petits Ruminants Virus: Current Status and Lessons to Learn from Other Non-segmented Negative-Sense RNA Viruses

Peste des petits ruminants (PPR) is a highly contagious transboundary animal disease with a severe socio-economic impact on the livestock industry, particularly in poor countries where it is endemic. Full understanding of PPR virus (PPRV) pathobiology and molecular biology is critical for effective control and eradication of the disease. To achieve these goals, establishment of stable reverse genetics systems for PPRV would play a key role. Unfortunately, this powerful technology remains less accessible and poorly documented for PPRV. In this review, we discussed the current status of PPRV reverse genetics as well as the recent innovations and advances in the reverse genetics of other non-segmented negative-sense RNA viruses that could be applicable to PPRV. These strategies may contribute to the improvement of existing techniques and/or the development of new reverse genetics systems for PPRV.     

Body mass estimation for †Cyonasua (Procyonidae,Carnivora) and related taxa based on postcranial skeleton

Procyonidae were the first northern placental carnivorans that reached the Neotropics. They are represented by two extinct genera: ?Cyonasua and ?Chapalmalania (late Miocene – early Pleistocene). Postcranial elements are only known for ?Cyonasua and related taxa (?Parahyaenodon argentinus and ?Tetraprothomo argentinus). To obtain highly reliable allometric equations for body mass estimations of fossil procyonids, we performed least squares regressions (multiple and bivariate lineal models) using 51 postcranial linear measurements. The extant sample included 124 taxa corresponding to nine families of Carnivora, with body mass data from the literature. We obtained about 63 equations from diverse combinations of postcranial measurements; 14 of them were selected using several reliability indexes as criteria. Our results show that body masses calculated for ?Cyonasua range between 12.63 and 28.45 kg, ?P. argentinus was estimated at 14.41 kg, while ?T. argentinus at 25.31 kg. Thus, the body mass of ?Cyonasua would have been at least twice as high as the mean of the extant procyonid Procyon cancrivorus. ?Cyonasua was probably able to fend off predators and quite capable of climbing slowly on thick-enough branches. Other palaeoecological and palaeobiological inferences are discussed.     

An evolutionary framework for the polar regions

Abstract: Our knowledge of the nature, generation and maintenance of largescale biodiversity patterns is still far from complete. This is particularly so in the Southern Hemisphere and in the marine realm, where recent taxonomic investigations of Mollusca and other invertebrate groups has cast doubt upon the existence of a simple cline in species richness between the tropics and the pole. Comparatively high regional diversity values for the shelled gastropods and other epifaunal taxa implies a considerable evolutionary legacy; this is supported, at least in part, by available evidence from the fossil record. Certain families within the living gastropod fauna maintain their prominence when traced back 40 m.y., and perhaps even longer; in addition, several Southern Ocean gastropod and bivalve genera can now be traced back to at least the late Eocene. Use of a variety of refugia may have enabled many taxa to survive repeated glacial advances. As we begin to revise our concept of the nature of latitudinal diversity gradients, so we also need to examine regional variations in evolutionary rates. Clearly this is a complex issue. but recourse to a pilot study based on the molluscan fossil record suggests that there may be no significant difference between the rates of radiation of tropical and cold-temperatdpolar taxa. The most diverse clades, which are all tropical, are simply the oldest. What data are available from the fossil record indicate that there is no appreciable latitudinal variation in rates of extinction either. Time, but not necessarily environmental stability, would appear to be crucial to the development of pockets of high taxonomic diversity. Recent improvement in our understanding of the biology of many polar marine invertebrates suggests that life in cold water is not an insuperable evolutionary problem. Of qual importance to any intrinsic properties of organisms which may have governed the differentiation of large-scale biodiversity patterns is the role of extrinsic processes. Foremost among these has almost certainly been repeated range shifts in response to Cenozoic climatic cycles.     

古生物信息查询系统

介绍了古生物微机信息查询系统的结构设置（包括数据库设置和功能模块设置），和程序设计（包括数据库结构设计、结构化程序设计、子程序设计、菜单技术程序设计和宏替换函数＆程序设计）。     

Morphological perspective on the classification and evolution of Recent Pterioidea (Mollusca: Bivalvia)

The evolutionary relationships of the Recent Pterioidea are inferred from a phylogenetic analysis of representatives of all pterioidean genera based on original observations of anatomy and shell morphology, and an extensive survey of bivalve literature. The well-resolved cladogram supports monophyly for the superfamily, but renders all but one family (the monotypic Pulvinitidae) polyphyletic. In addition, these results reveal a considerable level of convergence and parallelisms through the Pterioidea. The branching order of pterioid genera in the morphological analysis is largely corroborated by the sequence of their appearance in the fossil record. The palaeontological evidence provides important information on dating lineage splitting events and transitional taxa. The proposed phylogeny integrates the cladistic analysis of the Recent Pterioidea with the fossil record and suggests that the crown-group pterioideans probably originated in the Triassic from the Bakevelliidae, an extinct paraphyletic stem group from which the Ostreoidea are also ultimately derived.  © 2006 The Linnean Society of London, Zoological Journal of the Linnean Society , 2006, 148 , 253–312.     

Molecular and palaeoecological evidence for multiple glacial refugia for evergreen oaks on the Iberian Peninsula

Aim  A multiple glacial refugia hypothesis for Mediterranean plant species was tested with the evergreen Quercus complex ( Quercus suber L., Quercus ilex L. and Quercus coccifera L.) from the Iberian Peninsula, using molecular and palaeobotanical data.
Location  The Iberian Peninsula, which is an ecologically and physiographically complex area located on the western edge of the Mediterranean Basin.
Methods  We sampled 1522 individuals from 164 populations of Q. suber , Q. ilex and Q. coccifera . A review of the recent literature on fossil pollen and charcoal records and a nested clade analysis on chloroplast DNA polymerase chain reaction-restriction fragment length polymorphism was carried out to infer demographic and historical processes.
Results  The analysis indicates at least one glacial refugium for Q. suber in south-western Iberia. Extensive introgression of Q. suber with Q. ilex indicates several potential refugia in eastern Iberia. Past fragmentation was followed by a restricted range flow/range expansion, suggesting multiple refugia for Q. ilex–Q. coccifera elsewhere in central and northern Iberia and multiple areas of secondary contact. This finding is consistent with fossil records.
Main conclusions  The predicted multiple refugia during glacial periods indicates the existence of secondary post-glaciation contact areas. These areas contained complex diversity patterns resulting mainly from range expansions followed by isolation by distance. To a lesser degree, traces of restricted and long-distance dispersal were also found.     

Tectonic blocks and molecular clocks

Evolutionary timescales have mainly used fossils for calibrating molecular clocks, though fossils only really provide minimum clade age constraints. In their place, phylogenetic trees can be calibrated by precisely dated geological events that have shaped biogeography. However, tectonic episodes are protracted, their role in vicariance is rarely justified, the biogeography of living clades and their antecedents may differ, and the impact of such events is contingent on ecology. Biogeographic calibrations are no panacea for the shortcomings of fossil calibrations, but their associated uncertainties can be accommodated. We provide examples of how biogeographic calibrations based on geological data can be established for the fragmentation of the Pangaean supercontinent: (i) for the uplift of the Isthmus of Panama, (ii) the separation of New Zealand from Gondwana, and (iii) for the opening of the Atlantic Ocean. Biogeographic and fossil calibrations are complementary, not competing, approaches to constraining molecular clock analyses, providing alternative constraints on the age of clades that are vital to avoiding circularity in investigating the role of biogeographic mechanisms in shaping modern biodiversity.This article is part of the themed issue ‘Dating species divergences using rocks and clocks’.     

How many dinosaur species were there? Fossil bias and true richness estimated using a Poisson sampling model

The fossil record is a rich source of information about biological diversity in the past. However, the fossil record is not only incomplete but has also inherent biases due to geological, physical, chemical and biological factors. Our knowledge of past life is also biased because of differences in academic and amateur interests and sampling efforts. As a result, not all individuals or species that lived in the past are equally likely to be discovered at any point in time or space. To reconstruct temporal dynamics of diversity using the fossil record, biased sampling must be explicitly taken into account. Here, we introduce an approach that uses the variation in the number of times each species is observed in the fossil record to estimate both sampling bias and true richness. We term our technique TRiPS (True Richness estimated using a Poisson Sampling model) and explore its robustness to violation of its assumptions via simulations. We then venture to estimate sampling bias and absolute species richness of dinosaurs in the geological stages of the Mesozoic. Using TRiPS, we estimate that 1936 (1543–2468) species of dinosaurs roamed the Earth during the Mesozoic. We also present improved estimates of species richness trajectories of the three major dinosaur clades: the sauropodomorphs, ornithischians and theropods, casting doubt on the Jurassic–Cretaceous extinction event and demonstrating that all dinosaur groups are subject to considerable sampling bias throughout the Mesozoic.