Problems with the use of cladistic analysis in palaeoanthropology

Cladistic analysis is a popular method for reconstructing evolutionary relationships on the human lineage. However, it has limitations and hidden assumptions that are often not considered by palaeoanthropologists. Some researchers who are opposed to its use regard cladistics as the preferred method for taxonomic «splitters» and claim it has lead to a revitalisation of typology. Typology remains a part of human evolutionary studies, regardless of the acceptance or use of cladistics. The assumption/preference for «splitting» over «lumping» in cladistics (alpha) taxonomy and the general failure to evaluate (post-hoc) such taxonomies have served to reinforce this assertion.

Researchers have also adopted a number of practices that are logically untenable or introduce considerable error. The evolutionary trend of human encephalisation, apparently isometric with body size, and concurrent reduction in the gut and masticatory apparatus, suggests continuous cladistic characters are biased by problems of body size.

The method suffers a logical weakness, or circularity, leading to bias when characters with multiple states are used. Coding of such characters can only be done using prior criteria, and this is usually done using an existing phylogenetic scheme. Another problem with coding character states is the handling of variation within species. While this form of variation is usually ignored by palaeoanthropologists, when characters are recognised as varying, their treatment as a separate state adds considerable error to cladograms.

The genetic proximity of humans, chimpanzees and gorillas has important implications for cladistic analyses. It is argued that chimpanzees and gorillas should be treated as ingroup taxa and an alternative outgroup such as orangutans should be used, or an (hypothetical) ancestral body plan developed. Making chimpanzees and gorillas ingroup taxa would considerably enhance the biological utility of anthropological cladograms.

All published human cladograms fail to meet standard quality criteria indicating that none of them may be considered reliable. The continuing uncertainty over the number and composition of fossil human species is the largest single source of error for cladistics and human phylogenetic reconstruction.     

Depression and diabetes in India: perspectives and recommendations

Diabet. Med. 29, e308-e311 (2012) ABSTRACT: As diabetes prevalence shifts from affluent to lower-income groups in India, focus on depression in diabetes will become essential. This paper describes four perspectives through which depression and diabetes should be understood in the Indian context. We consider (1) how rapid socio-economic and demographic changes contribute to increased co-occurring diabetes and depression; (2) how social, cultural and economic factors in the Indian context contribute to depression and therefore play an important role in diabetes care; (3) biological and behavioural pathways between depression and diabetes; and (4) the role of health systems in depression, diabetes and their overlap. We conclude with recommendations for future research and policy on this topic in India.     

Epidemiological profile of India: Historical and contemporary perspectives

Knowledge and understanding of the epidemiological profile is an essential pre-requisite to assess and address public health needs in the country and to enable efficient programme planning and management. The need for adequate and accurate health information and data to undertake such an exercise cannot be over-emphasized. The present effort is a modest attempt to critically analyse the epidemiological profile of India from the historical and contemporary perspective. In order to assess the successes achieved as well caution against the daunting challenges awaiting the country, parameters such as disease burden and health status indicators, are increasingly being used. Changes in the population age structure, improvements in the nation’s economic status, altered life-styles of people and duality of disease burden testify to the demographic, development and health transition occurring in the country. Population stabilization, poverty alleviation, life-style modification, surveillance and control of communicable and non-communicable diseases constitute the major challenges demanding urgent attention in the future.     

Problems and perspectives of radiotherapy of non-tumor diseases

The experience of the world leading hospitals confirms the high efficacy and appropriateness of radiation therapy of nontumorous diseases. The authors consider the general principles of the organization of radiotherapeutic service, discuss reasons that have led to a decrease in the use of this method for therapy of nontumorous diseases in this country. They also emphasize the fact that radiation therapy must have its place among therapeutic modalities used for nontumorous diseases.     

Problems and perspectives of the Na-pump reconstitution.

The review deals with basic criteria of reconstruction approach to the study of membrane functions of the cell. Possible methods of reconstruction for solution of the problems of active ion transport have been demonstrated on the example of Na, K-ATPase. The alternative ways of the study which open molecular mechanisms of work of a system of active transport of Na+ and K+ ions through the cell membrane have been analyzed.     

Problems and perspectives in studying the biological role of carnosine

In describing carnosine among the constituents of muscle tissue in 1900, V. Gulevitsch opened the question of its real biological role. Investigation of carnosine-related phenomena occurred simultaneously with the study of its metabolic transformation within the cell. It has now been demonstrated that carnosine has the ability to protect cells against oxidative stress as well as to increase their resistance toward functional exhaustion and accumulation of senile features. Mechanisms of such protection are explained in terms of proton buffering, heavy metal chelating, as well as free radical and active sugar molecule scavenging, preventing modification of biomacromolecules and keeping their native functional activity under oxidative stress. Several carnosine derivatives are characterized by different rates of splitting by tissue carnosinase and by different biological efficiencies, thus the biological significance of enzymatic modification of carnosine during its tissue metabolism may be increased resistance of cells operating under unfavorable conditions.     

Problems of techniques in anthropometric studies in India

Anthropometric studies in India have been conducted on a fairly large scale but the lack of uniform techniques has rendered data non-comparable. Here, the magnitude of differences in values on account of differences in techniques under two methods has been demonstrated by measuring the cranial height of 35 skulls in the Department of Anthropology, University of Lucknow, India. The direct method gives as much as 5 mm lower values than the subtraction method. Furthermore, the position of vertex relative to apex is highly variable. Such differences are likely to be more magnified in skulls with plano-occipitals. It is therefore re-emphasized that anthropometrists should employ uniform techniques, and adequately describe them so that the data remains comparable.     

Human embryonic stem cells. Problems and perspectives

Establishment of human embryonic stem cell lines is one the major achievements in the biological science in the XX century and has excited a wide scientific and social response as embryonic stem cells can be regarded in future as unlimited source of transplantation materials for the replacement cell therapy. To date human embryonic cell lines are obtained in more than 20 countries. In our country the embryonic stem cell researches are carried out in the Institute of Cytology RAS and the Institute of Gene Biology RAS. ESC lines are derived from placed in culture inner cell mass of human preimplantation blastocysts used in the in vitro fertilization procedure. Studies with human ESC go in several directions. Much attention is paid to the elaboration of the optimal conditions for ESC cultivation, mainly to the development of cultivation methods excluding animal feeder cells and other components of animal origin. Another direction is a scale analysis of gene expression specific for the embryonic state of the cells and corresponding signaling pathways. Many efforts are concentrated to find conditions for the directed differentiation of ESC into different tissue-specific cells. It has been shown that ESC are able to differentiate in vitro practically into any somatic cells. Some works are initiated to develop methods for the "therapeutic cloning", that is transfer and reactivation of somatic nuclei into enucleated oocytes or embryonic stem cell cytoblasts. Of great importance is human ESC line standardization. However, the standard requirements for the cells projected for research or therapeutic purposes may be different. It has been found that many permanent human ESC lines undergo genetic and epigenetic changes and, therefore, the cell line genetic stability should be periodically verified. The main aim of the review presented is a detailed consideration of the works analyzing the genetic stability of human and mouse ESC lines. Human ESC lines established in our and as well as in other countries couldn't be used so far in clinical practice. It is highly probable that undifferentiated ESC cannot be applied for therapeutic purposes because of the risk of their malignant transformation. Therefore, main efforts should be focused on the production of progenitor and highly differentiated cells suitable for transplantation derived from ESC.     

Human embryonic stem cells: Problems and perspectives

Generation of human embryonic stem cell lines is one of the most important achievements in biological science in the 20th century. It has excited a wide scientific and social response, as embryonic stem cells (ESC) may, in the future, be regarded as an unlimited source of transplantation materials for replacement cell therapy. ESC lines are derived, cultured, inner cell mass from human blastocysts is used in the in vitro fertilization procedure. To date, human embryonic cell lines have been obtained in more than 20 countries. In our country, embryonic stem cell research is carried out in the Institute of Cytology, Russian Academy of Sciences and the Institute of Gene Biology, Russian Academy of Sciences. Studies with human ESC go in several directions. Much attention is paid to finding the most optimal conditions for ESC cultivation, mainly to the development of cultivation techniques excluding animal feeder cells and other components of animal origin. Another direction is a large-scale analysis of gene expression specific to the embryonic state of cells and the corresponding signaling pathways. Great efforts are being focused on the directed differentiation of ESC into various tissue-specific cells. It has been shown that in vitro ESC are able to differentiate into virtually any somatic cells. Works are in progress to develop methods for “therapeutic cloning,” i.e. the transfer of somatic nuclei into enucleated oocytes or embryonic stem cell cytoblasts and their reactivation. Of great importance is the standardization of the human ESC lines. However, standard requirements for cells utilized for research or therapeutic purposes may be different. It has been found that many permanent human ESC lines underwent genetic and epigenetic variations. Therefore, the cell line genetic stability should be periodically verified. The main purpose of the review is to provide a detailed consideration of research on the genetic stability of human and mouse ESC lines. Human ESC lines established both in our country and others could not thus far be used in clinical practice. It is highly probable that undifferentiated ESCs cannot be applied for therapeutic purposes, as there is a risk of their malignant transformation. Therefore, main efforts should be focused on the production ESC progenitor and highly differentiated cells suitable for transplantation.     

Preimplantation genetic diagnosis by blastocentesis: Problems and perspectives

The discovery of cell-free DNA in blastocoele fluid opens new perspectives for the development of preimplantation genetic diagnosis of human chromosomal and genetic diseases. In this review we analyzed the results of the first studies, which made it possible to evaluate the effectiveness of the application of a new source of biological material and showed a high degree of agreement between the results of molecular karyotyping with cell-free DNA and blastocyst cells. The results suggest the possibility of developing a noninvasive method of preimplantation genetic diagnosis, which may open a new round of progress in the field of assisted reproductive technologies and the genetics of early stages of human ontogenesis.     

Total synthesis of artificial zinc-finger proteins: Problems and perspectives

The total synthesis of a peptide segment corresponding to the DNA-binding segment of Sp1 (positions 532-623) using a native chemical ligation approach is described. The folding of the synthetic segment in the presence of Zn(II) gave a zinc-coordinated protein. The dissociation constant (K(D)) for the DNA binding of the resulting protein, determined by a gel mobility shift assay, was 130 nM, almost nine times higher than that of the genetically prepared protein. However, methylation interference assay showed an identical sequence specificity of both proteins in DNA recognition. The chemical ligation method to connect the respective zinc-finger units was also accomplished. Successive ligation between a cysteine-containing peptide segment and a chloroacetylated peptide segment gave an artificial three-finger protein, which corresponds to the above DNA-binding segment of Sp1. However, this protein failed to bind DNA, even at 1.25 mM. Assessment of their folding structure based on the absorption spectra of their Co(II) complexes showed that the linker design to connect the respective finger units is critical for the proper folding of the proteins as well as the occurrence of the DNA-binding function.     

Forty years on and still going strong: the use of hominin-cercopithecid comparisons in palaeoanthropology

Hominin-cercopithecid comparisons have been used in palaeoanthropology for over forty years. Fossil cercopithecids can be used as a 'control group' to contextualize the adaptations and evolutionary trends of hominins. Observations made on modern cercopithecids can also be applied to questions about human evolution. This article reviews the history of hominin-cercopithecid comparisons, assesses the strengths and weaknesses of cercopithecids as comparators in studies of human evolution, and uses cercopithecid models to explore hominin inter-specific dynamics. Cercopithecids appear to be excellent ecological referents, but may be less good when considering the cognitive abilities and cultural adaptations of hominins. Comparison of cercopithecid and hominin adaptations at Koobi Fora in East Africa indicates that, whereas the cercopithecids were largely grass- or leaf-eating, the hominins occupied a generalist niche, apparently excluding other primate generalist-frugivores. If any of the hominin species at Koobi Fora were sympatric, analogies with modern cercopithecids suggest that inter-specific contact cannot be discounted and may even have been beneficial.     

Genes,ageing and longevity in humans: Problems,advantages and perspectives

Many epidemiological data indicate the presence of a strong familial component of longevity that is largely determined by genetics, and a number of possible associations between longevity and allelic variants of genes have been described. A breakthrough strategy to get insight into the genetics of longevity is the study of centenarians, the best example of successful ageing. We review the main results regarding nuclear genes as well as the mitochondrial genome, focusing on the investigations performed on Italian centenarians, compared to those from other countries. These studies produced interesting results on many putative “longevity genes”. Nevertheless, many discrepancies are reported, likely due to the population-specific interactions between gene pools and environment. New approaches, including large-scale studies using high-throughput techniques, are urgently needed to overcome the limits of traditional association studies performed on a limited number of polymorphisms in order to make substantial progress to disentangle the genetics of a trait as complex as human longevity.     

The evolution and cultural transmission of percussive technology: integrating evidence from palaeoanthropology and primatology

We bring together the quite different kinds of evidence available from palaeoanthropology and primatology to better understand the origins of Plio-Pleistocene percussive technology. Accumulated palaeoanthropological discoveries now document the Oldowan Complex as the dominant stone tool making culture between 2.6–1.4 Ma, the earlier part of this contemporaneous with pre-Homo hominins. The principal types of artefacts and other remains from 20 Early Stone Age (Oldowan and earliest Acheulean) localities in Africa and elsewhere are reviewed and described. To better understand the ancestral behavioural foundations of this early lithic culture, we examine a range of recent findings from primatology. In particular, we attempt to identify key shared characteristics of Homo and Pan that support inferences about the preparedness of our common ancestor for the innovation of stone tool culture. Findings of particular relevance include: (i) the discovery of an expanding repertoire of percussive and other tool use based on directed use of force among wild chimpanzees, implicating capacities that include significant innovatory potential and appreciation of relevant causal factors; (ii) evidence of material cultural diversity among wild chimpanzees, indicating a readiness to acquire and transmit tool use innovations; and (iii) experimental studies of social learning in chimpanzees and bonobos that now encompass the acquisition of nut cracking through observation of skilled use of hammers and anvils by conspecifics, the diffusion within and between groups of alternative styles of tool use, and the adoption of free-hand stone-to-stone percussion to create useful flakes for cutting to gain access to food resources. We use the distributions of the inferred cultural traits in the wild to assess how diffusion relates to geographic distances, and find that shared traits drop by 50% from the approximately eight characteristic of close neighbours over a distance of approximately 700 km. This pattern is used to explore the implications of analogous processes operating in relation to Early Stone Age sites.     

Calvarial shape variation among Middle Pleistocene hominins: An application of surface scanning in palaeoanthropology

The increasing availability of 3D data and tools offers new analytical perspectives in palaeoanthropology, such as the quantitative testing of opposing phylogenetic scenarios. Using optical surface scan data and geometric morphometric techniques, this study explores calvarial shape variation in the “Middle Pleistocene muddle”. The morphological variability between H. erectus on the one hand and H. sapiens/neanderthalensis on the other has long remained obscure: opposing views have attributed the known specimens to any of the three species and possibly one or two more. A large number of landmarks and semilandmarks was extracted from the braincase and the face, in order to quantify the calvarial shape differences among species and key fossils. The results are incompatible with the hypothesis that H. rhodesiensis is the exclusive ancestor of H. sapiens, and offer only weak support for an exclusively European ancestor of Neandertals.