Morphology, taxonomy, and phylogeny of megacerines (Megacerini, Cervidae, Artiodactyla)

Giant deer or megacerines (tribe Megacerini, family Cervidae, order Artiodactyla) dwelt in Eurasia from the Late Miocene to Holocene and in Africa in the Late Pleistocene. Based on comparative morphological data and morphofunctional analysis, morphogenetic and ecogenetic trends in this group are improved. Classification, taxonomy, phylogeny, and geographical and stratigraphical ranges of megacerines are revised.     

Biological significance of protease diversity

Probable stages of the development of enzymes of the hydrolase (protease) class, which resulted in enormous diversity of their modern forms, are considered. It is shown that complication of structural organization of these enzymes and mechanisms of their regulation in living cell promoted functional transformation of lowly selective catalysts of polypeptide destruction into highly specific regulators of biopolymer activity, biochemical pathways, and physiological processes. Undoubted interrelation of molecular evolution of proteases, complication of their repertoire, with certain historical stages in the development of the biosphere are revealed.     

A newly recognized fossil coelacanth highlights the early morphological diversification of the clade

Previously considered an actinopterygian or an osteichthyan incertae sedis, the Devonian (Givetian-Frasnian) Holopterygius nudus is reinterpreted as a coelacanth. This genus is among the oldest coelacanths known from articulated remains, but its eel-like morphology marks a considerable departure from the conventional coelacanth body plan. A cladistic analysis places Holopterygius as the sister taxon of the Carboniferous (Serpukhovian) genus Allenypterus. Despite the specialized morphology of these genera, they occupy a surprisingly basal position in coelacanth phylogeny; only Diplocercides and Miguashaia are further removed from the crown. A morphometric analysis reveals that coelacanths were anatomically disparate early in their history. Conflicts between this result and those of previous studies challenge the adequacy of systematic character sets for describing historical patterns of morphological variety. Coelacanths have long had an iconic place in the study of vertebrate evolution for their apparent anatomical conservatism over geological time, but Holopterygius provides clear evidence for rapid morphological evolution early in the history of this clade.     

The origin and early evolution of plants

Plant (archaeplastid) evolution has transformed the biosphere, but we are only now beginning to learn how this took place through comparative genomics, phylogenetics, and the fossil record. This has illuminated the phylogeny of Archaeplastida, Viridiplantae, and Streptophyta, and has resolved the evolution of key characters, genes, and genomes – revealing that many key innovations evolved long before the clades with which they have been casually associated. Molecular clock analyses estimate that Streptophyta and Viridiplantae emerged in the late Mesoproterozoic to late Neoproterozoic, whereas Archaeplastida emerged in the late-mid Palaeoproterozoic. Together, these insights inform on the coevolution of plants and the Earth system that transformed ecology and global biogeochemical cycles, increased weathering, and precipitated snowball Earth events, during which they would have been key to oxygen production and net primary productivity (NPP).     

Morphological interpretation of darwinism

The development of evolutionary theory requires the resolution of the problem of relationships between random and regular processes in historical development of biological systems. According to the theory of natural selection, ecological factors play a leading role in evolution. Variations are nondirectional, unpredictable, and provide chaotic diversity of variants, only some of which are potentially useful. However, based on random processes, new variants that are useful for organisms and remain adaptive significance in various ecological situations are infrequent. At the same time, morphology demonstrates certain evolutionary patterns. The morphological approach takes into account the role in evolution of structural features of organism and social systems and evolutionary significance of “constructive technologies,” which distinguish morphological interpretation of evolutionary processes. The constructive and evolutionary patterns revealed in biological systems provide the basis for morphological interpretation of the principle of natural selection: both natural and artificial selection is interaction between social systems (populations, ecosystems, biogeocoenoses) and organisms composing them.     

Organic evolution and natural stratigraphical classification

Krassilov, Valentin 1978 04 IS: Organic evolution and natural stratigraphical classifcation.
Typological stratigraphy persisted up to the early 1940's. when it gave way to gradualistic concepts. Because world-wide periodicity of evolutionary events and their functional relations to crustal disturbances were denied, it was decided to define geological time divisions by a set of time-planes marked by agreed reference points. Actually, evolution is discontinuous at the molecular, population, species and community levels. Evolution of the whole biosphere depends on periodicity of tectonic and climatic events which add to general environmental instability and alter adaptive strategies. The perception of geological time is derived from the succession of unique litho- and biosphere events which Serve as a base of natural stratigraphical classification. Correlation is based on the parallelism of cliseres and chronoclines. Their homotaxial members are recognized as coenozones and phenozones. Standard stratigraphical boundaries are materialized in local boundaries defined by historical events of high 'confidence level'. Nominotypes designated for nomenclatural procedures need not coincide with the boundary reference points; otherwise they would hamper further development of stratigraphical classification.     

微生物的遗传多样性

微生物是生物圈中不可或缺的重要组成部分, 维系着自然界生态平衡。随着分子生物学技术的发展, 微生物遗传多样性的研究从形态学水平、蛋白水平进入到了DNA水平。而高通量测序技术和宏基因组技术的发展, 不仅为我们理解微生物的遗传多样性提供了更加丰富的信息和有力的证据, 也对于合理利用生物资源、保护生态平衡等方面具有重要意义。文章就微生物遗传多样性研究的相关内容, 如物种的分离鉴定、微生物群体遗传结构、物种形成以及系统发育和进化等方面的研究进展进行综述。     

Phylogeny, taxonomy, and evolution of the endothelin receptor gene family

A gene phylogeny provides the natural historical order to classify genes and to understand their functional, structural, and genomic diversity. The gene family of endothelin receptors (EDNR) is responsible for many key physiological and developmental processes of tetrapods and teleosts. This study provides a well-defined gene phylogeny for the EDNR family, which is used to classify its members and to assess their evolution. The EDNR phylogeny supports the recognition of the EDNRA, EDNRB, and EDNRC subfamilies, as well as more lineage-specific duplicates of teleosts and the African clawed frog. The duplications for these nominal genes are related to the various whole-genome amplifications of vertebrates, jawed vertebrates, fishes, and frog. The EDNR phylogeny also identifies several gene losses, including that of EDNRC from placental and marsupial (therian) mammals. When coupled with structural and biochemical information, site-specific analyses of evolutionary rate shifts reveal two distinct patterns of potential functional changes at the sequence level between therian versus non-therian EDNRA and EDNRB (i.e., between groups without and with EDNRC). An analysis of linkage maps and tetrapod synteny further suggests that the loss of therian EDNRC may be related to a chromosomal deletion in its common ancestor.     

The ‘biomineralization toolkit’ and the origin of animal skeletons

Biomineralized skeletons are widespread in animals, and their origins can be traced to the latest Ediacaran or early Cambrian fossil record, in virtually all animal groups. The origin of animal skeletons is inextricably linked with the diversification of animal body plans and the dramatic changes in ecology and geosphere–biosphere interactions across the Ediacaran–Cambrian transition. This apparent independent acquisition of skeletons across diverse animal clades has been proposed to have been driven by co‐option of a conserved ancestral genetic toolkit in different lineages at the same time. This ‘biomineralization toolkit’ hypothesis makes predictions of the early evolution of the skeleton, predictions tested herein through a critical review of the evidence from both the fossil record and development of skeletons in extant organisms. Furthermore, the distribution of skeletons is here plotted against a time‐calibrated animal phylogeny, and the nature of the deep ancestors of biomineralizing animals interpolated using ancestral state reconstruction. All these lines of evidence point towards multiple instances of the evolution of biomineralization through the co‐option of an inherited organic skeleton and genetic toolkit followed by the stepwise acquisition of more complex skeletal tissues under tighter biological control. This not only supports the ‘biomineralization toolkit’ hypothesis but also provides a model for describing the evolution of complex biological systems across the Ediacaran–Cambrian transition.     

Galactic Factors,the Young Sun,the Earth,and the Biophysics of Living Systems

The effects of radiation from the young Sun and galactic cosmic rays on the physical conditions on the early Earth are significantly underestimated in studies of the problems related to the origin and evolution of the biosphere. This review considers the dynamics of solar and galactic processes over the 4.56 billion years of the existence of the Solar System. These factors substantially affected the development of adaptive technologies in ancient and modern living systems. The features of biosphere development are considered for the early Earth under the young Sun, which was fainter, but more flare active. The radiation spectrum of the young Sun is discussed together with the paradoxical mismatch between the solar radiation spectrum and the chlorophyll adsorption spectrum. Ways of solving the paradox are proposed. The role of solar radiation is important when studying models of the early biosphere of the Earth and hypothetical biospheres of giant planet satellites and exoplanets.

     

On the early stages of the evolution of the geosphere and biosphere

The conditions necessary for the existence of nucleic-protein life are as follows: the presence of liquid water, an atmosphere, and a magnetic field (all of which protect from meteorites, abrupt changes in temperature, and a flow of charged particles from space) and the availability of nutrients (macro-and microelements in the form of dissolved compounds). In the evolution of the geosphere, complex interference of irreversible processes (general cooling, gravitational differentiation of the Earth’s interior, dissipation of hydrogen, etc.) with cyclic processes of varying natures and periodicities (from the endogenic cycles “from Pangea to Pangea” to Milankovitch cycles), these conditions have repeatedly changed; hence, in the coevolution of the geosphere and biosphere, the vector of irreversible evolution was determined by the geosphere. Only with the appearance of the ocean as a global system of homeostasis, which provided the maintenance and leveling of nutrient concentrations in the hydrosphere, and the conveyor of nutrients from the mantle, “the film of life” could begin its expansion from the source of the nutrients. Life itself is a system of homeostasis, but not due to the global size and a vast buffer capacity, but because of the high rate of reactions and presence of a program (genome) that allowed its development (ontogeny) independent from the outside environment. The early stages of the origin and evolution of the biosphere (from the RNA-world to the development of the prokaryotic ecosystems) were characterized by the domination of chemotrophic ecosystems. The geographical ranges of these ecosystems were directly or indirectly (through the atmosphere and hydrosphere) tied to the sources of nutrients in the geosphere, which were in turn connected to various sources of volcanic and geotectonic activity (geothermal waters, “black smokers” along the rift zones, etc.). This gave the biosphere consisting of chemotrophic ecosystems a mosaic appearance composed of separate local oases of life. The decrease of methane and accumulation of O₂ in the atmosphere in the geological evolution of the Earth caused the extinction of chemotrophic ecosystems and directed evolution of the biosphere toward autotrophy. Autotrophic photosynthesis gave the biosphere an energy source that was not connected to the geosphere, and for the first time allowed its liberation from the geosphere by developing its own vector of evolution. This vector resulted in the biosphere forming a continuous film of life on the planet by capturing the continents and occupying pelagic and abyssal zones, and the appearance of eukaryotes. The geosphere formed biogeochemical cycles in parallel to the geochemical ones, and comparable in the annual balances of participating matter.     

A molecular phylogeny for digger wasps in the tribe Ammophilini (Hymenoptera,Apoidea, Sphecidae)

The evolution of parental care strategies in aculeate (stinging) wasps and bees has been much studied from a functional perspective, but relatively little phylogenetic information is available to place this in a rigorous historical context, especially at the species level. We used mitochondrial cytochrome oxidase I and two nuclear genes, the elongation factor‐1α and LW rhodopsin, to investigate the phylogeny of Sphecidae digger wasps. We focus particularly on the tribe Ammophilini, a clade of nonsocial apoid wasps that exhibit unusually diverse parental care strategies. We analysed a 2232 bp dataset for 40 ammophilines plus nine other taxa from within the remaining Sphecidae. Our Bayesian phylogeny provides strong support for the monophyly of Ammophilini and for the monophyly of all six individual ammophiline genera, except that the position of P. affinis within the genus Podalonia is only weakly supported. The monophyly of some, but not all, previously designated species groups within the genus Ammophila is supported. We discuss the implications of our results for the evolution of morphological traits used previously in ammophiline systematics.     

Phylogeny and the evolution of acoustic communication in extant Ensifera (Insecta, Orthoptera)

Ensifera present an appropriate and interesting model for the study of acoustic communication, because of their diverse signal and communication modalities, and due to their accessibility for field and laboratory studies. Several hypotheses have been proposed to explain the acoustic evolution of Ensifera, but they were elaborated without any reference to a falsifiable phylogeny, and were consequently highly speculative. Similarly, phylogenetic relationships between ensiferan clades have not hitherto been studied using modern standard methodology, and the sole cladistic analysis by Gwynne in 1995 was methodologically flawed. No sound hypothesis therefore currently exists for ensiferan phylogeny, which precludes historical analysis of their communication modalities. In the present paper, the phylogeny is established on the basis of morpho‐anatomical characters and used to analyse the evolution of acoustic communication in this clade by mapping the characters related to auditory and stridulatory structures onto the resultant trees. Cladistic analyses resulted in two equi‐parsimonious cladograms (length 154, C 64, CI 58, RI 61) with the following topologies: (1) [(Grylloidea–Gryllotalpidae) (Rhaphidophoridae (Schizodactylidae (Gryllacrididae ((Stenopelmatidae–Cooloola) (Anostostomatidae (Prophalangopsis (Cyphoderris (Tettigoniidae–Lezina))))))))] (2) [(Grylloidea–Gryllotalpidae)(Rhaphidophoridae (Schizodactylidae (Gryllacrididae–Cooloola–(Stenopelmatidae (Anostostomatidae (Prophalangopsis (Cyphoderris (Tettigoniidae–Lezina))))))))]. According to these topologies, Ensifera were ancestrally devoid of acoustic and hearing systems. An acoustic (tegminal or femoro‐abdominal) apparatus appeared a number of times independently with convergent structures. Similarly, tibial tympana developed several times independently. Moreover, four hypotheses (each according to a definite pattern of character transformation) can be proposed to explain the evolution of acoustic communication in the different ensiferan clades and relate it to a definite communicatory context. These hypotheses do not apply equally to ensiferan subclades. Grylloidea and Gryllotalpoidea could have experienced convergently a direct development of an intraspecific acoustic communication. Acoustic communication in Tettigoniidea has evolved more ambiguously, and may either have resulted from a direct evolution analogous to that having occurred in Gryllidea, or have developed in a completely different behavioural context. Future studies of acoustic communication in the different ensiferan clades will have to take into account the fact that the involved structures most often are not homologous and that their evolution may not have taken place in similar conditions. Different hypotheses of acoustic communication evolution may apply to different clades, and there may be no single explanation for acoustic communication in Ensifera.     

Standard energetics of phyllostomid bats: the inadequacies of phylogenetic-contrast analyses

The basal rates of metabolism (BMR) of bats belonging to the family Phyllostomidae are re-examined after an earlier correlation with food habits was rejected because it did not take phylogeny into consideration. This rejection was based on an erroneous attribution of food habits and on an analytical method, phylogenetic contrasts, that ignores interactions that occur among character states and preferentially attributes responsibility for character states to phylogeny. The re-examination made here was based on analysis of covariance, which makes no a priori assumptions on the relative impact of factors that influence character states and permits factor interactions to be identified. A resulting model, based on variation in body mass, food habits, occurrence with respect to elevation, and residence on islands or continents, accounts for 99.4% of the variation in the BMR of 30 species of phyllostomids. Basal rate is also correlated with subfamily, but only if food habits are excluded because they are correlated with subfamily affiliation, as is residence on islands and continents, two examples of factor interaction. The preference to assign the effects of food habits and island residence on basal rate to subfamily affiliation (and phylogeny) is not justified. The concept that quantitative physiological characters can be transmitted via phylogeny without regard to the habits of animals and the characteristics of their environments cannot be defended. Phylogeny is the historical context in which the evolution of character states occurs, not the 'cause' of their evolution.     

The origins of larval forms: what the data indicate,and what they don't

What is a larva, if it is not what survives of an ancestor's adult, compressed into a transient pre‐reproductive phase, as suggested by Haeckel's largely disreputed model of evolution by recapitulation? A recently published article hypothesizes that larva and adult of holometabolous insects are developmental expressions of two different genomes coexisting in the same animal as a result of an ancient hybridization event between an onychophoran and a primitive insect with eventless post‐embryonic development. More likely, however, larvae originated from late embryonic or early post‐embryonic stages of ancestors with direct development. Evolutionary novelties would thus be intercalary rather than terminal, with respect to the ancestor's ontogenetic schedule. This scenario, supported by current research on holometabolous insects and marine invertebrates with complex life cycles, offers a serious alternative to the traditional scenario (‘what is early in ontogeny is also early in phylogeny’) underlying the current perception of the evolution of genetic regulatory networks.     

The evolutionary importance of behavioural development: the ontogeny and phylogeny of bird song

It has been proposed that ontogeny may be an important constraint on the evolution of morphological traits. In this paper, ontogeny is discussed as a possible constraint on behavioural evolution. A literature review of the development of song in oscine birds (Passeriformes; Passeres) shows that song development follows von Baer's law; that is, that development proceeds from early, generally distributed stages to later, specialized stages. Song ontogeny is found to parallel phylogeny in a lineage of sparrows (Emberizidae; Emberizinae). Possible cases of paedomorphosis (slowing down or truncation of development) in bird song are discussed, specifically in the family Mimidae and in the reed warbler, Acrocephalus palustris (Muscicapidae; Sylviinae). Finally, the implications of developmental constraints for the study of the adaptive significance of behaviour are discussed.     

Evolution of post-weaning skull ontogeny in New World opossums (Didelphidae)

Quantification of mammalian skull development has received much attention in the recent literature. Previous results in different lineages have shown an effect of historical legacy on patterns of skull growth. In marsupials, the skull of adults exhibits high variation across species, principally along a size axis. The development keys of the marsupial skull are fundamental to understanding the evolution of skull function in this clade. Its generally well-resolved phylogeny makes the group ideal for studying macroevolution of skull ontogeny. Here, we tested the hypothesis that ontogenetic similarity is correlated with phylogeny in New World marsupials, so that developmental patterns are expected to be conserved from ancestral opossums. We concatenated our previously published ontogenetic cranial data from several opossum species with new ontogenetic sequences and constructed an allometric space on the basis of a set of comparable cranial linear measurements. In this ontogenetic space, we determined the degree of correspondence of developmental patterns and the phylogeny of the group. In addition, we mapped ontogenetic trajectories onto the opossum phylogeny, treating the trajectories as composite, continuously varying characters. Didelphids differed widely in the magnitude of skull allometry across species. Splanchnocranial components exhibited all possible patterns of inter-specific variation, whereas mandibular variables were predominantly allometrically “positive” and neurocranial components were predominantly allometrically “negative.” The distribution of species in allometric space reflected the compounded effect of phylogeny and size variation characteristic of didelphids. The terminal morphology of related species differed in shape, so their ontogenetic trajectories deviated with respect to that of reconstructed common ancestors in varying degree. Phylogeny was the main factor structuring the allometric space of New World marsupials. Didelphids inherited an ancestral constellation of allometry coefficients without change and retained much of it throughout their lineage history. Conserved allometric values on the nodes splitting placental outgroups and marsupials suggest a developmental basis common to all therians.     

Paedomorphosis as an Evolutionary Driving Force: Insights from Deep-Sea Brittle Stars

Heterochronic development has been proposed to have played an important role in the evolution of echinoderms. In the class Ophiuroidea, paedomorphosis (retention of juvenile characters into adulthood) has been documented in the families Ophiuridae and Ophiolepididae but not been investigated on a broader taxonomic scale. Historical errors, confusing juvenile stages with paedomorphic species, show the difficulties in correctly identifying the effects of heterochrony on development and evolution. This study presents a detailed analysis of 40 species with morphologies showing various degrees of juvenile appearance in late ontogeny. They are compared to a range of early ontogenetic stages from paedomorphic and non-paedomorphic species. Both quantitative and qualitative measurements are taken and analysed. The results suggest that strongly paedomorphic species are usually larger than other species at comparable developmental stage. The findings support recent notions of polyphyletic origin of the families Ophiuridae and Ophiolepididae. The importance of paedomorphosis and its correct recognition for the practice of taxonomy and phylogeny are emphasized.     

Correlations of Life Form,Pollination Mode and Sexual System in Aquatic Angiosperms

Aquatic plants are phylogenetically well dispersed across the angiosperms. Reproductive and other life-history traits of aquatic angiosperms are closely associated with specific growth forms. Hydrophilous pollination exhibits notable examples of convergent evolution in angiosperm reproductive structures, and hydrophiles exhibit great diversity in sexual system. In this study, we reconstructed ancestral characters of aquatic lineages based on the phylogeny of aquatic angiosperms. Our aim is to find the correlations of life form, pollination mode and sexual system in aquatic angiosperms. Hydrophily is the adaptive evolution of completely submersed angiosperms to aquatic habitats. Hydroautogamy and maleflower-ephydrophily are the transitional stages from anemophily and entomophily to hydrophily. True hydrophily occurs in 18 submersed angiosperm genera, which is associated with an unusually high incidence of unisexual flowers. All marine angiosperms are submersed, hydrophilous species. This study would help us understand the evolution of hydrophilous pollination and its correlations with life form and sexual system.