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Several Clades (several + clade)
Selected AbstractsClade-specific differences in neurotoxicity of human immunodeficiency virus-1 B and C Tat of human neurons: significance of dicysteine C30C31 motifANNALS OF NEUROLOGY, Issue 3 2008Mamata Mishra MPhil Objective Human immunodeficiency virus-1 (HIV-1) causes mild to severe cognitive impairment and dementia. The transactivator viral protein, Tat, is implicated in neuronal death responsible for neurological deficits. Several clades of HIV-1 are unequally distributed globally, of which HIV-1 B and C together account for the majority of the viral infections. HIV-1,related neurological deficits appear to be most common in clade B, but not clade C prevalent areas. Whether clade-specific differences translate to varied neuropathogenesis is not known, and this uncertainty warrants an immediate investigation into neurotoxicity on human neurons of Tat derived from different viral clades Methods We used human fetal central nervous system progenitor cell,derived astrocytes and neurons to investigate effects of B- and C-Tat on neuronal cell death, chemokine secretion, oxidative stress, and mitochondrial membrane depolarization by direct and indirect damage to human neurons. We used isogenic variants of Tat to gain insights into the role of the dicysteine motif (C30C31) for neurotoxic potential of Tat Results Our results suggest clade-specific functional differences in Tat-induced apoptosis in primary human neurons. This study demonstrates that C-Tat is relatively less neurotoxic compared with B-Tat, probably as a result of alteration in the dicysteine motif within the neurotoxic region of B-Tat Interpretation This study provides important insights into differential neurotoxic properties of B- and C-Tat, and offers a basis for distinct differences in degree of HIV-1,associated neurological deficits observed in patients in India. Additional studies with patient samples are necessary to validate these findings. Ann Neurol 2007 [source] Sound reasons for silence: why do molluscs not communicate acoustically?BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, Issue 3 2010GEERAT J. VERMEIJ Many adaptively beneficial states of form, behaviour and physiology are absent in large parts of the evolutionary tree of life. Although the causes of these absences can never be fully known, insights into the possibilities and limitations of adaptive evolution can be gained by examining the conditions that would be necessary for the forbidden phenotypes to evolve. Here, the case of acoustic communication in molluscs is considered. The production of sound as a warning to predators or as a means to attract mates is widespread among arthropods and vertebrates, both on land and in water, but is unknown among molluscs, even though many derived clades of gastropods and cephalopods are characterized by internal fertilization and by the evolution of long-distance visual and chemical signalling. Many molluscs possess suitable hard parts , shell, operculum and jaws , for producing sound, but most shell-bearing molluscs lack the agility or aggression necessary to cope with high-activity enemies attracted to an acoustic beacon. Their evolutionary background, arising from the generally passive adaptations of molluscs and other animals with low metabolic rates, prevents selection favouring communication by sound, and indeed favours silence. Several clades of shell-bearing gastropods and cephalopods were identified in which sound production has the greatest potential to arise or to be discovered. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 100, 485,493. [source] Evolutionary innovations of squamate reproductive and developmental biology in the family ChamaeleonidaeBIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, Issue 3 2010ROBIN M. ANDREWS The availability of molecular phylogenies has greatly accelerated our understanding of evolutionary innovations in the context of their origin and rate of evolution. Here, we assess the evolution of reproductive mode, developmental rate and body size in a group of squamate reptiles: the chameleons. Oviparity is ancestral and viviparity has evolved at least twice: Bradypodion and members of the Trioceros bitaeniatus clade are viviparous. Viviparous species are medium-sized as a result of convergence from either small-sized ancestors or large-sized ancestors, respectively, but do not differ from oviparous species in clutch size, hatchling size or the trade-off between clutch and hatchling size. Basal chameleons (Brookesia, Rhampholeon and Rieppeleon) are small-sized and have developmental rates comparable with those of other lizards. Derived chameleons (Calumma, Chamaeleo, Trioceros and Furcifer) are mostly large-sized and all have relatively slow developmental rates. Several clades of derived chameleons also exhibit developmental arrest (embryonic diapause or embryonic diapause plus cold torpor) and incubation periods extend to 6,10 months or more. Developmental arrest is associated with dry, highly seasonal climates in which the period favourable for oviposition and hatching is short. Long incubation periods thus ensure that hatching occurs during the favourable season following egg laying. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 100, 656,668. [source] Autopodial skeleton evolution in side-necked turtles (Pleurodira)ACTA ZOOLOGICA, Issue 3 2007Marcelo R. Sánchez-Villagra Abstract Carpal and tarsal anatomy was documented based on the observation of dry skeletons of adult specimens representing 25 species in 15 genera and on data taken from the literature. In addition, histological sections and cleared and double-stained autopodia of recently hatched and juvenile specimens representing seven chelid and pelomedusoid species were studied. There is much more morphological diversity in the manus than in the pes. Variation in autopodial skeletons includes: the astragalus and calcaneum are either separated or fused; fusion of distal carpals 3,4,5 or just 4,5; number of centralia in the carpus; and presence/absence of a pisiform and of an accessory radial element. The widespread and probably basal phalangeal formula for Pleurodira is 2.3.3.3.3. Deviations are Pelomedusa subrufa, exhibiting a reduction to 2.2.2.2.2, Pelusios spp. with one phalanx less in digit I and for one species in digit V as well, and Acanthochelys pallidipectoris with an additional phalanx in the fourth finger. Six discrete characters itemizing some of the morphological variation observed were plotted on a composite pleurodire phylogeny, revealing not only homoplastic patterns but also the utility of some characters in supporting the monophyly of several clades. The pisiform is the last carpal element to ossify in Chelus fimbriatus. We hypothesize that the so-called fifth hooked metatarsal represents the fusion of distal tarsal 5 with metatarsal V. The accessory radial element that was occasionally present in the turtles examined may represent an atavism of the otherwise lost radiale of turtles. [source] Molecular characterization of sulfate-reducing bacteria in a New England salt marshENVIRONMENTAL MICROBIOLOGY, Issue 8 2005Michele Bahr Summary Sulfate reduction, mediated by sulfate-reducing bacteria (SRB), is the dominant remineralization pathway in sediments of New England salt marshes. High sulfate reduction rates are associated with the rhizosphere of Spartina alterniflora when plants elongate aboveground. The growth process concurrently produces significant amounts of new rhizome material belowground and the plants leak dissolved organic compounds. This study investigated the diversity of SRB in a salt marsh over an annual growth cycle of S. alterniflora by exploring the diversity of a functional gene, dissimilatory sulfite reductase (dsrAB). Because the dsrAB gene is a key gene in the anaerobic sulfate-respiration pathway, it allows the identification of microorganisms responsible for sulfate reduction. Conserved dsrAB primers in polymerase chain reaction (PCR) generated full-length dsrAB amplicons for cloning and DNA sequence analysis. Nearly 80% of 380 clone sequences were similar to genes from Desulfosarcina and Desulfobacterium species within Desulfobacteraceae. This reinforces the hypothesis that complete oxidizers with high substrate versatility dominate the marsh. However, the phylotypes formed several clades that were distinct from cultured representatives, indicating a greater diversity of SRB than previously appreciated. Several dsrAB sequences were related to homologues from Gram-positive, thermophilic and non-thermophilic Desulfotomaculum species. One dsrAB lineage formed a sister group to cultured members of the delta-proteobacterial group Syntrophobacteraceae. A deeply branching dsrAB lineage was not affiliated with genes from any cultured SRB. The sequence data from this study will allow for the design of probes or primers that can quantitatively assess the diverse range of sulfate reducers present in the environment. [source] Older species: a rejuvenation on coral reefs?JOURNAL OF BIOGEOGRAPHY, Issue 4 2004John C. Briggs Abstract Aim To discuss the theory that the present high species diversity and apomorphic character of the coral reef ecosystem is because of the historic accumulation of basal species from marginal habitats. Location The Indo-West Pacific Ocean. Methods The examination of biogeographical patterns from the standpoint of paleontology, phylogeny, genetics, and empirical data. Results Fossil patterns from several clades indicate a gradient of increasing average generic age that extends outward from the high diversity reefs. Successful species that give rise to new species, genera, and families apparently originate from high diversity locations. The tropics have been a major source of evolutionary novelty, not simply a refuge that has accumulated diversity. Many plesiomorphic clades, that once dominated the shallow tropics, are now limited to the deep sea and other safe places. Recent research on several tropical fish families indicates that more apomorphic species inhabit the high diversity reefs. Genetic studies suggest that a decrease in genetic variation extends from the diversity centre toward the outer reaches of the Indo-West Pacific. Empirical data show that it is extremely difficult for species from low diversity areas to invade places of higher diversity. Main conclusions There is no convincing evidence to indicate that basal species from marginal habitats have been able to accumulate on the coral reefs. Once such species have been displaced from a high diversity environment, there is apparently no return. The evolutionary innovations that contribute to the origination of new phyletic lines take place under conditions of high diversity and maximum competition. [source] Phylogeography of spiny mice (genus Acomys, Rodentia: Muridae) from the south-western margin of the Sahara with taxonomic implicationsBIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, Issue 1 2009VIOLAINE NICOLAS The present study aims to depict the overall pattern of Acomys history in south-western Sahara. We tested the specific predictions that: (1) several mitochondrial clades can be identified and that they coincide with the described species; (2) successive phases of desert expansion and contraction during the last 3 Myr have resulted in several phases of demographic expansion and population fragmentation in Acomys; and (3) isolation-by-distance occurs. The extent of phylogeographic patterns and molecular genetic diversity (cytochrome b gene and D-loop) were addressed in a survey of 90 individuals of Acomys from 38 localities. Our phylogeographical analyses show a strong genetic structure within western Saharan Acomys, with several phylogroups displaying non-overlapping geographic distributions. Restricted gene flow with isolation-by-distance was recorded and a signal of population expansion was detected within several clades. We suggest that during arid or semi-arid paleoclimatic periods, when large sandy areas were present, Acomys was restricted to rocky massifs, whereas, in more humid periods, when savannah and/or steppe habitat prevailed, this species was able to disperse and to survive outside rocky areas because food resources were abundant. Based on a comprehensive sampling and the use of an integrative approach (i.e. combining cytogenetic, molecular and morphological data), we firmly propose that Acomys airensis should be considered as a junior synonym of Acomys chudeaui. © 2009 The Linnean Society of London, Biological Journal of the Linnean Society, 2009, 98, 29,46. [source] | ||||||||||