Genetic Processes (genetic + process)

Distribution by Scientific Domains
Distribution within Life Sciences


Selected Abstracts


Genetic processes in arbuscular mycorrhizal fungi

FEMS MICROBIOLOGY LETTERS, Issue 2 2005
Teresa E. Pawlowska
Abstract Arbuscular mycorrhizal (AM) fungi (Glomeromycota) colonize roots of the majority of land plants and facilitate their mineral nutrient uptake. Consequently, AM fungi play an important role in terrestrial ecosystems and are becoming a component of sustainable land management practices. The absence of sexual reproductive structures in modern Glomeromycota combined with their long evolutionary history suggest that these fungi may represent an ancient asexual lineage of great potential interest to evolutionary biology. However, many aspects of basic AM fungal biology, including genome structure, within-individual genetic variation, and reproductive mode are poorly understood. These knowledge gaps hinder research on the mechanisms of AM fungal interactions with individual plants and plant communities, and utilization of AM fungi in agricultural practices. I present here the current state of research on the reproduction in AM fungi and indicate what new findings can be expected in the future. [source]


Hybrid crossover operators with multiple descendents for real-coded genetic algorithms: Combining neighborhood-based crossover operators

INTERNATIONAL JOURNAL OF INTELLIGENT SYSTEMS, Issue 5 2009
Ana M. Sánchez
Most real-coded genetic algorithm research has focused on developing effective crossover operators, and as a result, many different types of crossover operators have been proposed. Some forms of crossover operators are more suitable to tackle certain problems than others, even at the different stages of the genetic process in the same problem. For this reason, techniques that combine multiple crossovers, called hybrid crossover operators, have been suggested as alternative schemes to the common practice of applying only one crossover model to all the elements in the population. On the other hand, there are operators with multiple offsprings, more than two descendants from two parents, which present a better behavior than the operators with only two descendants, and achieve a good balance between exploration and exploitation. © 2009 Wiley Periodicals, Inc. [source]


New established melanoma cell lines: genetic and biochemical characterization of cell division cycle

JOURNAL OF THE EUROPEAN ACADEMY OF DERMATOLOGY & VENEREOLOGY, Issue 1 2003
A Vozza
ABSTRACT Background Cancer might be envisaged as the result of a genetic process causing the unregulated proliferation of a given cell as well as its inability to undergo differentiation and/or apoptosis. Alterations of genes regulating cell division cycle appear to play a key role in the development of human cancer. Objective On the bases of the above considerations, we decided to establish new cell lines from human melanoma specimens, in order to analyse the molecular alterations in primary preparations of malignant cells. Results The present paper describes two new established cell lines and their genetic and biochemical features. Both the melanoma cell lines show inactivation of the cyclin-dependent kinase inhibitor gene, CDKN2A/p16INK4A, thus demostrating that this alteration occurs in primary human melanomas. No other alterations were observable when we investigated several different cell cycle genes including those encoding cyclins, cyclin-dependent kinases and cyclin-dependent kinase inhibitors. Analyses at protein level by means of immunoblotting confirmed the results obtained at the genetic level. Moreover, the inducibility of a pivotal cyclin-dependent kinase inhibitor gene, namely p21CIP1 gene, was obtained by treating the cells with histone deacetylase inhibitors, namely butyrate and phenylbutyrate. Conclusions Our results suggest a primary role of cyclin-dependent kinase inhibitor genes inactivation in the origin of human melanoma and allow the proposal of new therapeutic strategies based on the transcriptional activation of p21CIP1 gene. [source]


A random evolution related to a Fisher,Wright,Moran model with mutation, recombination and drift

MATHEMATICAL METHODS IN THE APPLIED SCIENCES, Issue 18 2003
Adam Bobrowski
Abstract The paper deals with a model of the genetic process of recombination, one of the basis mechanisms of generating genetic variability. Mathematically, the model can be represented by the so-called random evolution of Griego and Hersch, in which a random switching process selects from among several possible modes of operation of a dynamical system. The model, introduced by Polanska and Kimmel, involves mutations in the form of a time-continuous Markov chain and genetic drift. We demonstrate asymptotic properties of the model under different demographic scenarios for the population in which the process evolves. Copyright © 2003 John Wiley & Sons, Ltd. [source]


TIME TO THE MOST RECENT COMMON ANCESTOR AND DIVERGENCE TIMES OF POPULATIONS OF COMMON CHAFFINCHES (FRINGILLA COELEBS) IN EUROPE AND NORTH AFRICA: INSIGHTS INTO PLEISTOCENE REFUGIA AND CURRENT LEVELS OF MIGRATION

EVOLUTION, Issue 1 2002
Cortland K. Griswold
Abstract We analyzed sequences from a 275-bp hypervariable region in the 5, end of the mitochondrial DNA control region in 190 common chaffinches (Fringilla coelebs) from 19 populations in Europe and North Africa, including new samples from Greece and Morocco. Coalescent techniques were applied to estimate the time to the most recent common ancestor (TMRCA) and divergence times of these populations. The first objective of this study was to infer the locations of refugia where chaffinches survived the last glacial episode, and this was achieved by estimating the TMRCA of populations in regions surrounding the Mediterranean that were unglaciated in the late Pleistocene. Although extant populations in Iberia, Corsica, Greece, and North Africa harbor haplotypes that are basal in a phylogenetic tree, this information alone cannot be used to infer that these localities served as refugia, because it is impossible to infer the ages of populations and their divergence times without also considering the population genetic processes of mutation, migration, and drift. Provided we assume the TMRCAs of populations are a reasonable estimate of a population's age, coalescent-based methods place resident populations in Iberia, Corsica, Greece, and North Africa during the time of the last glacial maximum, suggesting these regions served as refugia for the common chaffinch. The second objective was to determine when populations began diverging from each other and to use this as a baseline to estimate current levels of gene flow. Divergence time estimates suggest that European populations began diverging about 60,000 years before present. The relatively recent divergence of populations in North Africa, Italy, and Iberia may explain why classic migration estimates based on equilibrium assumptions are high for these populations. We compare these estimates with nonequilibrium-based estimates and show that the nonequilibrium estimates are consistently lower than the equilibrium estimates. [source]


Evolution and development of the primate limb skeleton

EVOLUTIONARY ANTHROPOLOGY, Issue 3 2002
Chi-Hua Chiu
Abstract The order Primates is composed of many closely related lineages, each having a relatively well established phylogeny supported by both the fossil record and molecular data.1 Primate evolution is characterized by a series of adaptive radiations beginning early in the Cenozoic era. Studies of these radiations have uncovered two major trends. One is that substantial amounts of morphological diversity have been produced over short periods of evolutionary time.2 The other is that consistent and repeated patterns (variational tendencies3) are detected. Taxa within clades, such as the strepsirrhines of Madagascar and the platyrrhines of the Neotropics, have diversified in body size, substrate preference, and diet.2, 4,6 The diversification of adaptive strategies within such clades is accompanied by repeated patterns of change in cheiridial proportions7, 8 (Fig. 1) and tooth-cusp morphology.9 There are obvious adaptive, natural-selection based explanations for these patterns. The hands and feet are in direct contact with a substrate, so their form would be expected to reflect substrate preference, whereas tooth shape is related directly to the functional demands of masticating foods having different mechanical properties. What remains unclear, however, is the role of developmental and genetic processes that underlie the evolutionary diversity of the primate body plan. Are variational tendencies a signature of constraints in developmental pathways? What is the genetic basis for similar morphological transformations among closely related species? These are a sampling of the types of questions we believe can be addressed by future research integrating evidence from paleontology, comparative morphology, and developmental genetics. [source]


The geological consequences of evolution

GEOBIOLOGY, Issue 1 2003
Andrew H. Knoll
ABSTRACT Geobiologists seek to understand the role of organisms in the Earth system. By extension, one can ask how evolutionary innovations and, more generally, the population genetic processes that mediate evolution have influenced the Earth's surface through time. The example of oxygenic photosynthesis and the redox history of atmospheres and oceans illustrates the complex relationship between evolution and environmental change. Biological innovations determine the dimensions of biological participation in the Earth system, but by themselves they seldom generate lasting environmental change. More commonly, environments change when physical drivers exceed the limited environmental buffering capacity conferred by population genetics and nutritional codependence. Environmental change, in turn, feeds back on biology, creating new opportunities for evolutionary innovation. [source]


Contrasting responses of migration strategies in two European thrushes to climate change

GLOBAL CHANGE BIOLOGY, Issue 1 2007
PHILIPPE RIVALAN
Abstract Migration is a widespread strategy that enables animals to escape harsh winter conditions. It has been well documented that migration phenology in birds is changing in response to recent climate warming in the northern hemisphere. Despite the existence of large temporal and geographical scale ringing data on birds in Europe, changes in migration strategies in relation to climate warming have not been well studied, mainly because of a lack of appropriate statistical methods. In this paper, we develop a method that enables us to investigate temporal changes in migration strategies from recoveries of dead ringed birds. We estimated migration probability as the ratio between recovery probabilities of conspecific birds originating from different countries but potentially wintering in the same country. We applied this method to two European thrushes: the entirely migrant redwing Turdus iliacus, and the partially migrant blackbird T. merula. We tested for an immediate and a 1-year lagged relationship between our migration probability and climatic covariates (i.e. mean winter temperature in France and the North Atlantic Oscillation). Using ringing-recovery data collected in Finland, Germany, Switzerland and France from 1970 to 1999, we detected contrasting responses in these two species, likely related to their different migratory behaviours. Both species showed a decline in the probability for northern and eastern birds to winter in France. The entirely migratory redwing exhibited a year-to-year plastic response to climate, whereas the decline in the partially migrant blackbird was smooth, suggesting underlying genetic processes. The proposed method, thus, allows us to identify useful indicators of climatic impacts on migration strategies, as well as highlighting differences between closely related species. [source]


Syndrome-causing mutations of the BLM gene in persons in the Bloom's Syndrome Registry,,

HUMAN MUTATION, Issue 8 2007
James German
Abstract Bloom syndrome (BS) is caused by homozygous or compound heterozygous mutations in the RecQ DNA helicase gene BLM. Since the molecular isolation of BLM, characterization of BS-causing mutations has been carried out systematically using samples stored in the Bloom's Syndrome Registry. In a survey of 134 persons with BS from the Registry, 64 different mutations were identified in 125 of them, 54 that cause premature protein-translation termination and 10 missense mutations. In 102 of the 125 persons in whom at least one BLM mutation was identified, the mutation was recurrent, that is, it was shared by two or more persons with BS; 19 of the 64 different mutations were recurrent. Ethnic affiliations of the persons who carry recurrent mutations indicate that the majority of such persons inherit their BLM mutation identical-by-descent from a recent common ancestor, a founder. The presence of widespread founder mutations in persons with BS points to population genetic processes that repeatedly and pervasively generate mutations that recur in unrelated persons. Hum Mutat 28(8), 743,753, 2007. Published 2007 Wiley-Liss, Inc. [source]


Landscape patterns of indicator plants for soil acidity in the Bavarian Alps

JOURNAL OF BIOGEOGRAPHY, Issue 10 2003
Sebastian Schmidtlein
Abstract Aim, Electronic distribution atlases and lists of ecological indicator values are becoming important tools in plant geography. In this contribution, we combine a geographical and an ecological data bank, and map out patterns of indicator value spectra (instead of single or average values) across a physiographically complex landscape. For our study, we select indicators of soil pH and carbonate content as key environmental factors that strongly affect overall plant diversity patterns in the temperate zone. Our goal is to relate the distribution and diversity of plant groups that are indicators of soil pH and carbonate content to environmental controls at the landscape-scale, and thus contribute to a causal understanding of species pools. Location, We studied the Bavarian Alps, which represent the German portion of the Northern Alps. Methods, Based on the existing floristic survey, we calculated relative frequencies of nine classes of indicator plants for soil pH and carbonate content in grid cells. The resulting attribute matrix (cells by indicator class frequencies) was subjected to principal components analysis and to k-means clustering. Results were compared and mapped out in the grid array of the whole region, resulting in continuous and discrete representations of species pool structure. We used a geographical information system to derive physiographical landscape properties from a geological map and a digital elevation model, and analysed their statistical relationship with the shapes of indicator spectra. Results and Main conclusions, Averages of indicator values for soil pH and carbonate content follow the geological structure quite closely. Surprisingly, the diversity of indicator plant groups does not appear to be a function of geological or topographic heterogeneity. Rather, it seems to be related to areas of high elevation with uniform geology. The effect is a matter of additional acidophytes in high mountain areas and, in the high calcareous Alps, extreme calciphytes, while species with intermediate requirements are rarer than usual. For explanation, we suggest two facts: (1) a frequent lack of mature soils at high elevations and (2) particularities in soil genetic processes occurring under the harsh climatic conditions of high mountains. [source]


The burgeoning field of statistical phylogeography

JOURNAL OF EVOLUTIONARY BIOLOGY, Issue 1 2004
L. L. Knowles
Abstract In the newly emerging field of statistical phylogeography, consideration of the stochastic nature of genetic processes and explicit reference to theoretical expectations under various models has dramatically transformed how historical processes are studied. Rather than being restricted to ad hoc explanations for observed patterns of genetic variation, assessments about the underlying evolutionary processes are now based on statistical tests of various hypotheses, as well as estimates of the parameters specified by the models. A wide range of demographical and biogeographical processes can be accommodated by these new analytical approaches, providing biologically more realistic models. Because of these advances, statistical phylogeography can provide unprecedented insights about a species' history, including decisive information about the factors that shape patterns of genetic variation, species distributions, and speciation. However, to improve our understanding of such processes, a critical examination and appreciation of the inherent difficulties of historical inference and challenges specific to testing phylogeographical hypotheses are essential. As the field of statistical phylogeography continues to take shape many difficulties have been resolved. Nonetheless, careful attention to the complexities of testing historical hypotheses and further theoretical developments are essential to improving the accuracy of our conclusions about a species' history. [source]


Abscisic Acid-mediated Epigenetic Processes in Plant Development and Stress Responses

JOURNAL OF INTEGRATIVE PLANT BIOLOGY, Issue 10 2008
Viswanathan Chinnusamy
Abstract Abscisic acid (ABA) regulates diverse plant processes, growth and development under non-stress conditions and plays a pivotal role in abiotic stress tolerance. Although ABA-regulated genetic processes are well known, recent discoveries reveal that epigenetic processes are an integral part of ABA-regulated processes. Epigenetic mechanisms, namely, histone modifications and cytosine DNA methylation-induced modification of genome give rise to epigenomes, which add diversity and complexity to the genome of organisms. Histone monoubiquitination appears to regulate ABA levels in developing seeds through histone H2B monoubiquitination. ABA and H2B ubiquitination dependent chromatin remodeling regulate seed dormancy. Transcription factor networks necessary for seed maturation are repressed by histone deacetylases (HDACs)-dependent and PICKLE chromatin remodeling complexes (CRCs), whereas ABA induces the expression of these genes directly or through repression of HDACs. Abiotic stress-induced ABA regulates stomatal response and stress-responsive gene expression through HDACs and HOS15-dependent histone deacetylation, as well as through the ATP-dependent SWITCH/SUCROSE NONFERMENTING CRC. ABA also probably regulates the abiotic stress response through DNA methylation and short interfering RNA pathways. Further studies on ABA-regulated epigenome will be of immense use to understand the plant development, stress adaptation and stress memory. [source]


Effects of population succession on demographic and genetic processes: predictions and tests in the daylily Hemerocallis thunbergii (Liliaceae)

MOLECULAR ECOLOGY, Issue 13 2007
MI YOON CHUNG
Abstract Spatial genetic structure within plant populations is influenced by variation in demographic processes through space and time, including a population's successional status. To determine how demographic structure and fine-scale genetic structure (FSGS) change with stages in a population's successional history, we studied Hemerocallis thunbergii (Liliaceae), a nocturnal flowering and hawkmoth-pollinated herbaceous perennial with rapid population turnover dynamics. We examined nine populations assigned to three successive stages of population succession: expansion, maturation, and senescence. We developed stage-specific expectations for within-population demographic and genetic structure, and then for each population quantified the spatial aggregation of individuals and genotypes using spatial autocorrelation methods (nonaccumulative O-ring and kinship statistics, respectively), and at the landscape level measured inbreeding and genetic structure using Wright's F -statistics. Analyses using the O-ring statistic revealed significant aggregation of individuals at short spatial scales in expanding and senescing populations, in particular, which may reflect restricted seed dispersal around maternal individuals combined with relatively low local population densities at these stages. Significant FSGS was found for three of four expanding, no mature, and only one senescing population, a pattern generally consistent with expectations of successional processes. Although allozyme genetic diversity was high within populations (mean %P = 78.9 and HE = 0.281), landscape-level differentiation among sites was also high (FST = 0.166) and all populations exhibited a significant deficit of heterozygotes relative to Hardy,Weinberg expectations (range F = 0.201,0.424, mean FIS = 0.321). Within populations, F was not correlated with the degree of FSGS, thus suggesting inbreeding due primarily to selfing as opposed to mating among close relatives in spatially structured populations. Our results demonstrate considerable variation in the spatial distribution of individuals and patterns and magnitude of FSGS in H. thunbergii populations across the landscape. This variation is generally consistent with succession-stage-specific differences in ecological processes operating within these populations. [source]


Demystifying Online Genetic Databases

NURSING & HEALTH SCIENCES, Issue 2 2006
Carolyn Driscoll
There has been an explosion of genetic information and keeping current can be difficult. Traditional methods for obtaining information may be obsolete. Many sources for genetic information are now found on the internet although they may be confusing to navigate and interpret. The purpose of this presentation is to outline commonly used genetic databases, and demonstrate how they may be accessed and used to interpret genetic data. The mission of the National Center for Biotechnology Information (NCBI), a resource for molecular biology information, is to develop new information technologies to support understanding of molecular and genetic processes related to health and disease. NCBI services include PubMed, Nucleotide, and the BLAST algorithm for sequence comparison. In this presentation, several genetic databases will be explored. Each database will be defined, the available genetic information described, database access demonstrated, and website information displayed. This presentation will provide education related to several genetic databases as a means of facilitating and promoting access to this information by a larger audience of nurses and health care providers involved with genetic health care. [source]


Uniparental disomy and human disease: An overview,

AMERICAN JOURNAL OF MEDICAL GENETICS, Issue 3 2010
Kazuki Yamazawa
Abstract Uniparental disomy (UPD) refers to the situation in which both homologues of a chromosomal region/segment have originated from only one parent. This can involve the entire chromosome or only a small segment. As a consequence of UPD, or uniparental duplication/deficiency of part of a chromosome, there are two types of developmental risk: aberrant dosage of genes regulated by genomic imprinting and homozygosity of a recessive mutation. UPD models generated by reciprocal and Robertsonian translocation heterozygote intercrosses have been a powerful tool to investigate genomic imprinting in mice, whereas novel UPD patients such as those with cystic fibrosis and Prader,Willi syndrome, triggered the clarification of recessive diseases and genomic imprinting disorders in human. Newly developed genomic technologies as well as conventional microsatellite marker methods have been contributing to the functional and mechanistic investigation of UPD, leading to not only the acquisition of clinically valuable information, but also the further clarification of diverse genetic processes and disease pathogenesis. © 2010 Wiley-Liss, Inc. [source]