Histories of molecules: Reconciling the past

Molecular data and methods have become centrally important to evolutionary analysis, largely because they have enabled global phylogenetic reconstructions of the relationships between organisms in the tree of life. Often, however, molecular stories conflict dramatically with morphology-based histories of lineages. The evolutionary origin of animal groups provides one such case. In other instances, different molecular analyses have so far proved irreconcilable. The ancient and major divergence of eukaryotes from prokaryotic ancestors is an example of this sort of problem. Efforts to overcome these conflicts highlight the role models play in phylogenetic reconstruction. One crucial model is the molecular clock; another is that of ‘simple-to-complex’ modification. I will examine animal and eukaryote evolution against a backdrop of increasing methodological sophistication in molecular phylogeny, and conclude with some reflections on the nature of historical science in the molecular era of phylogeny.     

Not every drought is bad: quantifying reproductive effort in the harlequin frog Atelopus laetissimus (Anura: Bufonidae)

Atelopus laetissimus is an endemic and threatened harlequin frog from the high mountain forests of Sierra Nevada de Santa Marta, Colombia. Knowledge of its reproductive biology is essential for understanding the intraspecific interactions that can help the conservation of Atelopus species. We quantified the energy, measured in body weight, invested by males and females of A. laetissimus for reproduction, and how this energetic investment is related to the survival of individuals and rainfall conditions in habitats during two years (2014 and 2015). Our results show plasticity in terms of reproductive phenology linked to rainfall with short- and long-duration breeding strategies. The first year of this study, 2014, had a precipitation level in accordance with the annual averages at the area. During this time frogs exhibit a short breeding period. Contrary to 2014, 2015 was a year with little precipitation, below the annual averages, which probably facilitated the females’ quick spawning in the creeks and a consequent reduction in the duration of amplexus and low breeding efforts by males. This, in turn, was related to a long breeding period that favors the survival and reproduction of males during the entire year. In 2014 we found a decrease of 25% to 30% body weight of potentially reproductive males, which may be attributed to a prolonged duration of amplectant events.     

Synthesis of the 3D porous carbon-manganese oxide (3D-C@MnO) nanocomposite and its supercapacitor behavior study

A 3D porous carbon-manganese oxide ([email protected]) nanocomposite is successfully synthesized via a thermal plasma deposition method. The chemical bonds and compositions, phase structures, surface morphologies, etc. of as-obtained [email protected] nanocomposite were characterized by the various equipment, such as X-ray diffractometer, X-ray photoelectron spectroscopy, and electron microscopes. The electrochemical performances of the [email protected] nanocomposite electrode showed a specific capacitance of 780 F g^?1 at a current density of 2 A g^?1 and a capacitance retention rate of 99% after 5000 charge-discharge cycles at a high current density of 10 A g^?1. These excellent capacitive performances may be attributed to the encapsulation of MnO nanoparticles by porous carbon sheets in the [email protected] MnO nanocomposite structure. It is believed that the carbon-encapsulated MnO nanoparticles can be protected from a volume deformation during the charge adsorption/desorption cycle and can be electrically improved by the encapsulated carbon sheets, resulting in better overall capacitive performance. In addition, this study also demonstrates the practical applicability by assembling a supercapacitor using the as-obtained [email protected] nanocomposite to glow a light emitting diode.     

Duncan F. Gregory,William Walton and the development of British algebra: ‘algebraical geometry’, ‘geometrical algebra’, abstraction

This paper provides a detailed account of the period of the complex history of British algebra and geometry between the publication of George Peacock's Treatise on Algebra in 1830 and William Rowan Hamilton's paper on quaternions of 1843. During these years, Duncan Farquharson Gregory and William Walton published several contributions on ‘algebraical geometry’ and ‘geometrical algebra’ in the Cambridge Mathematical Journal. These contributions enabled them not only to generalize Peacock's symbolical algebra on the basis of geometrical considerations, but also to initiate the attempts to question the status of Euclidean space as the arbiter of valid geometrical interpretations. At the same time, Gregory and Walton were bound by the limits of symbolical algebra that they themselves made explicit; their work was not and could not be the ‘abstract algebra’ and ‘abstract geometry’ of figures such as Hamilton and Cayley. The central argument of the paper is that an understanding of the contributions to ‘algebraical geometry’ and ‘geometrical algebra’ of the second generation of ‘scientific’ symbolical algebraists is essential for a satisfactory explanation of the radical transition from symbolical to abstract algebra that took place in British mathematics in the 1830s–1840s.     

The role of key residues in structure, function, and stability of cytochrome-c

Cytochrome-c (cyt-c), a multi-functional protein, plays a significant role in the electron transport chain, and thus is indispensable in the energy-production process. Besides being an important component in apoptosis, it detoxifies reactive oxygen species. Two hundred and eighty-five complete amino acid sequences of cyt-c from different species are known. Sequence analysis suggests that the number of amino acid residues in most mitochondrial cyts-c is in the range 104?±?10, and amino acid residues at only few positions are highly conserved throughout evolution. These highly conserved residues are Cys14, Cys17, His18, Gly29, Pro30, Gly41, Asn52, Trp59, Tyr67, Leu68, Pro71, Pro76, Thr78, Met80, and Phe82. These are also known as “key residues”, which contribute significantly to the structure, function, folding, and stability of cyt-c. The three-dimensional structure of cyt-c from ten eukaryotic species have been determined using X-ray diffraction studies. Structure analysis suggests that the tertiary structure of cyt-c is almost preserved along the evolutionary scale. Furthermore, residues of N/C-terminal helices Gly6, Phe10, Leu94, and Tyr97 interact with each other in a specific manner, forming an evolutionary conserved interface. To understand the role of evolutionary conserved residues on structure, stability, and function, numerous studies have been performed in which these residues were substituted with different amino acids. In these studies, structure deals with the effect of mutation on secondary and tertiary structure measured by spectroscopic techniques; stability deals with the effect of mutation on T _m (midpoint of heat denaturation), ?G _D (Gibbs free energy change on denaturation) and folding; and function deals with the effect of mutation on electron transport, apoptosis, cell growth, and protein expression. In this review, we have compiled all these studies at one place. This compilation will be useful to biochemists and biophysicists interested in understanding the importance of conservation of certain residues throughout the evolution in preserving the structure, function, and stability in proteins.     

Enhanced performance of nano-sized SiC reinforced Al metal matrix nanocomposites synthesized through microwave sintering and hot extrusion techniques

In the present study, nano-sized SiC (0, 0.3, 0.5, 1.0 and 1.5 vol%) reinforced aluminum (Al) metal matrix composites were fabricated by microwave sintering and hot extrusion techniques. The structural (XRD, SEM), mechanical (nanoindentation, compression, tensile) and thermal properties (co-efficient of thermal expansion- CTE) of the developed Al-SiC nanocomposites were studied. The SEM/EDS mapping images show a homogeneous distribution of SiC nanoparticles into the Al matrix. A significant increase in the strength (compressive and tensile) of the Al-SiC nanocomposites with the addition of SiC content is observed. However, it is noticed that the ductility of Al-SiC nanocomposites decreases with increasing volume fraction of SiC. The thermal analysis indicates that CTE of Al-SiC nanocomposites decreases with the progressive addition of hard SiC nanoparticles. Overall, hot extruded Al 1.5 vol% SiC nanocomposites exhibited the best mechanical and thermal performance as compared to the other developed Al-SiC nanocomposites.