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Biomedical subjects

R Lal

Publications and source records attributed to R Lal.

At least 19 recordsLinked to original sources

Time response and stability of porous silicon capacitive immunosensors.

The time response of affinity sensors made with nanostructured materials is a topic of considerable interest, since affinity sensors made with nanostructured materials provide greater sensitivities than corresponding planar crystalline devices but at the cost of stability and drift. We present a study of the time response of capacitive immunosensors made using porous silicon and ultrathin room temperature anodic oxide. It was found that sensor drift can be substantial but can be reduced by subjecting the capacitive immunosensor in buffer to an anodic bias that is larger than the bias at which sensor capacitance is measured. By measuring sensor response before the addition of the analyte and using it for baseline correction after addition of the analyte, the effect of nonspecific sensor drift can be further reduced. We observed that after the addition of the analyte to the porous silicon immunocapacitor, there is a fast decrease in capacitance (order of tens of seconds) followed by a slow increase (order of tens of minutes), which models well as a sum of exponents with a fast exponential decay followed by a slow exponential rise. Possible processes that can give rise to such a response are perturbations of the double layer for the fast decay and column resistance switching for the slow rise.

Biosensing Techniques↗

Genetic alterations of the BRI2 gene: familial British and Danish dementias.

Classic arguments sustaining the importance of amyloid in the pathogenesis of dementia are usually centered on amyloid beta (Abeta) and its role in neuronal loss characteristic of Alzheimer disease, the most common form of human cerebral amyloidosis. Two non-Abeta cerebral amyloidoses, familial British and Danish dementias, share many aspects of Alzheimer disease, including the presence of neurofibrillary tangles, parenchymal pre-amyloid and amyloid deposits, cerebral amyloid angiopathy, and a widespread inflammatory response. Both early-onset conditions are linked to specific mutations in the BRI2 gene, causing the generation of longer-than-normal protein products and the release of 2 de novo created peptides ABri and ADan, the main components of amyloid fibrils in these inherited dementias. Although the molecular mechanisms and signal transduction pathways elicited by the amyloid deposits and their relation to cognitive impairment remain to be clarified, new evidence indicates that, independent of the differences in their primary structures, Abeta, ABri, and ADan subunits are able to form morphologically compatible ion-channel-like structures and elicit single ion-channel currents in reconstituted lipid membranes. These findings reaffirm the notion that non-Abeta amyloidosis constitute suitable alternative models to study the role of amyloid deposition in the mechanism of neuronal cell death.

Adaptor Proteins, Signal Transducing↗

World crop residues production and implications of its use as a biofuel.

Reducing and off-setting anthropogenic emissions of CO(2) and other greenhouse gases (GHGs) are important strategies of mitigating the greenhouse effect. Thus, the need for developing carbon (C) neutral and renewable sources of energy is more than ever before. Use of crop residue as a possible source of feedstock for bioenergy production must be critically and objectively assessed because of its positive impact on soil C sequestration, soil quality maintenance and ecosystem functions. The amount of crop residue produced in the US is estimated at 367x10(6) Mg/year for 9 cereal crops, 450x10(6) Mg/year for 14 cereals and legumes, and 488x10(6) Mg/year for 21 crops. The amount of crop residue produced in the world is estimated at 2802x10(6) Mg/year for cereal crops, 3107x10(6) Mg/year for 17 cereals and legumes, and 3758x10(6) Mg/year for 27 food crops. The fuel value of the total annual residue produced is estimated at 1.5x10(15) kcal, about 1 billion barrels (bbl) of diesel equivalent, or about 8 quads for the US; and 11.3x10(15) kcal, about 7.5 billion bbl of diesel or 60 quads for the world. However, even a partial removal (30-40%) of crop residue from land can exacerbate soil erosion hazard, deplete the SOC pool, accentuate emission of CO(2) and other GHGs from soil to the atmosphere, and exacerbate the risks of global climate change. Therefore, establishing bioenergy plantations of site-specific species with potential of producing 10-15 Mg biomass/year is an option that needs to be considered. This option will require 40-60 million hectares of land in the US and about 250 million hectares worldwide to establish bioenergy plantations.

Agriculture↗

Good clinical response of breast cancers to neoadjuvant chemoendocrine therapy is associated with improved overall survival.

BACKGROUND: We present extended follow-up from a prospective randomised trial evaluating the role of neoadjuvant chemoendocrine therapy in the treatment of operable breast cancer. PATIENTS AND METHODS: 309 women were randomised to primary surgery followed by eight cycles of adjuvant mitoxantrone, methotrexate with tamoxifen (2MT) or 2MT with mitomycin-C (3MT) versus the same regimen for four cycles before followed by four cycles after surgery. For this analysis the median follow-up of patients was 112 months. RESULTS: After 10 years follow-up there is still no statistically significant difference in disease-free survival (DFS) (71% versus 71%) or overall survival (OS) (63% versus 70%) when comparing adjuvant versus neoadjuvant treatment, respectively. Of 144 evaluable patients in the neoadjuvant arm, 74 achieved a good clinical response and 70 patients achieved a poor clinical response. Good responders had a superior DFS (80% versus 64%, P=0.01) and OS (77% versus 63%, P=0.03) compared to poor responders. CONCLUSIONS: At 10 years, neoadjuvant and adjuvant treatment continue to have equivalent OS and DFS. Good clinical response to neoadjuvant chemotherapy is associated with superior DFS and OS. This supports the use of clinical response of primary breast cancer to neoadjuvant therapy as a surrogate marker of survival benefit.

Adult↗

Soil carbon sequestration impacts on global climate change and food security.

The carbon sink capacity of the world's agricultural and degraded soils is 50 to 66% of the historic carbon loss of 42 to 78 gigatons of carbon. The rate of soil organic carbon sequestration with adoption of recommended technologies depends on soil texture and structure, rainfall, temperature, farming system, and soil management. Strategies to increase the soil carbon pool include soil restoration and woodland regeneration, no-till farming, cover crops, nutrient management, manuring and sludge application, improved grazing, water conservation and harvesting, efficient irrigation, agroforestry practices, and growing energy crops on spare lands. An increase of 1 ton of soil carbon pool of degraded cropland soils may increase crop yield by 20 to 40 kilograms per hectare (kg/ha) for wheat, 10 to 20 kg/ha for maize, and 0.5 to 1 kg/ha for cowpeas. As well as enhancing food security, carbon sequestration has the potential to offset fossil fuel emissions by 0.4 to 1.2 gigatons of carbon per year, or 5 to 15% of the global fossil-fuel emissions.

Agriculture↗

Improving the yield and quality of DNA isolated from white-rot fungi.

A new simple method used to eliminate polysaccharides that cause problems during DNA isolation was established for 6 different white-rot fungi using 1% hexadecyltrimethylammonium bromide (CTAB) as wash buffer and followed by centrifugation. Variation in the DNA yield and quality was ascertained using precipitating agents, detergents and cell-wall-hydrolyzing chitinase. Considerable amount of exopolysaccharides from fungal biomass was removed with the use of 1% CTAB wash buffer followed by centrifugation. The DNA varied in terms of yield and quality. For the DNA extraction use of 2% SDS in extraction buffer worked best for Pycnoporus cinnabarinus, Cyathus bulleri, Cyathus striatus and Cyathus stercoreus, while 2% CTAB worked best for Phanerochaete chrysosporium and Pleurotus ostreatus. Elimination of phenol and use of absolute ethanol for precipitating DNA resulted in good yield and quality of DNA. This DNA was amenable to restriction endonuclease digestion.

Basidiomycota↗

Modeling soil organic matter dynamics as affected by soil water erosion.

Soil organic carbon (SOC) stock is an important component of the global carbon (C) cycle, which has the potential to influence global climate. In this paper we presented an overview of soil organic matter (SOM) models in the context of soil erosion and discussed basic processes driving erosion-induced SOC loss. Although the mechanism of this loss is poorly understood, erosion influences SOC in two ways: redistribution of C within the watershed or ecosystem, and loss of C to the atmosphere. Erosion disperses soil, altering its microbiological activity as well as water, air and nutrient regimes. This, along with sediment enrichment, has an impact on greenhouse gas emission from soil. For most of agricultural settings, field studies suggest that cultivation along with soil erosion are the primary reasons for SOC loss. Tracing the fate of eroded C is a challenging task. Modeling is the approach taken most often. In this paper we discuss approaches used in various SOC models to assess erosion-induced C loss from soil in agricultural ecosystems. An example with Century model applied to meadow and corn-soybean rotation under chisel-till demonstrated the model's ability to respond well to different erosion scenarios. It was estimated that at soil loss rate of 10 t ha(-1) year(-1) (value often considered a threshold for maintaining productivity) 19% of the total SOC loss would be attributed to erosion after 90 years of cultivation.

Agriculture↗

Carbon emission from farm operations.

This manuscript is a synthesis of the available information on energy use in farm operations, and its conversion into carbon equivalent (CE). A principal advantage of expressing energy use in terms of carbon (C) emission as kg CE lies in its direct relation to the rate of enrichment of atmospheric concentration of CO2. Synthesis of the data shows that estimates of emissions in kg CE/ha are 2-20 for different tillage operations, 1-1.4 for spraying chemicals, 2-4 for drilling or seeding and 6-12 for combine harvesting. Similarly, estimates of C emissions in kg CE/kg for different fertilizer nutrients are 0.9-1.8 for N, 0.1-0.3 for P2O5, 0.1-0.2 for K20 and 0.03-0.23 for lime. Estimates of C emission in kg CE/kg of active ingredient (a.i.) of different pesticides are 6.3 for herbicides, 5.1 for insecticides and 3.9 for fungicides. Irrigation, lifting water from deep wells and using sprinkling systems, emits 129+/-98 kg CE for applying 25 cm of water and 258+/-195 for 50 cm of water. Emission for different tillage methods are 35.3 kg CE/ha for conventional till, 7.9 kg CE/ha for chisel till or minimum till, and 5.8 kg CE/ha for no-till method of seedbed preparation. In view of the high C costs of major inputs, sustainable management of agricultural ecosystems implies that an output/input ratio, expressed either as gross or net output of C, must be >1 and has an increasing trend over time.

Agriculture↗

Elasticity and adhesion force mapping reveals real-time clustering of growth factor receptors and associated changes in local cellular rheological properties.

Cell surface macromolecules such as receptors and ion channels serve as the interface link between the cytoplasm and the extracellular region. Their density, distribution, and clustering are key spatial features influencing effective and proper physical and biochemical cellular responses to many regulatory signals. In this study, the effect of plasma-membrane receptor clustering on local cell mechanics was obtained from maps of interaction forces between antibody-conjugated atomic force microscope tips and a specific receptor, a vascular endothelial growth factor (VEGF) receptor. The technique allows simultaneous measurement of the real-time motion of specific macromolecules and their effect on local rheological properties like elasticity. The clustering was stimulated by online additions of VEGF, or antibody against VEGF receptors. VEGF receptors are found to concentrate toward the cell boundaries and cluster rapidly after the online additions commence. Elasticity of regions under the clusters is found to change remarkably, with order-of-magnitude stiffness reductions and fluidity increases. The local stiffness reductions are nearly proportional to receptor density and, being concentrated near the cell edges, provide a mechanism for cell growth and angiogenesis.

Animals↗

Soil erosion and the global carbon budget.

Soil erosion is the most widespread form of soil degradation. Land area globally affected by erosion is 1094 million ha (Mha) by water erosion, of which 751 Mha is severely affected, and 549 Mha by wind erosion, of which 296 Mha is severely affected. Whereas the effects of erosion on productivity and non-point source pollution are widely recognized, those on the C dynamics and attendant emission of greenhouse gases (GHGs) are not. Despite its global significance, erosion-induced carbon (C) emission into the atmosphere remains misunderstood and an unquantified component of the global carbon budget. Soil erosion is a four-stage process involving detachment, breakdown, transport/redistribution and deposition of sediments. The soil organic carbon (SOC) pool is influenced during all four stages. Being a selective process, erosion preferentially removes the light organic fraction of a low density of <1.8 Mg/m(3). A combination of mineralization and C export by erosion causes a severe depletion of the SOC pool on eroded compared with uneroded or slightly eroded soils. In addition, the SOC redistributed over the landscape or deposited in depressional sites may be prone to mineralization because of breakdown of aggregates leading to exposure of hitherto encapsulated C to microbial processes among other reasons. Depending on the delivery ratio or the fraction of the sediment delivered to the river system, gross erosion by water may be 75 billion Mg, of which 15-20 billion Mg are transported by the rivers into the aquatic ecosystems and eventually into the ocean. The amount of total C displaced by erosion on the earth, assuming a delivery ratio of 10% and SOC content of 2-3%, may be 4.0-6.0 Pg/year. With 20% emission due to mineralization of the displaced C, erosion-induced emission may be 0.8-1.2 Pg C/year on the earth. Thus, soil erosion has a strong impact on the global C cycle and this component must be considered while assessing the global C budget. Adoption of conservation-effective measures may reduce the risks of C emission and sequester C in soil and biota.

Carbon↗

Ethidium bromide stimulated hyper laccase production from bird's nest fungus Cyathus bulleri.

AIMS: Effect of ethidium bromide, a DNA intercalating agent, on laccase production from Cyathus bulleri was studied. METHODS AND RESULTS: The bird's nest fungus, Cyathus bulleri was grown on 2% (w/v) malt extract agar (MEA) supplemented with 1.5 microg ml(-1) of the phenanthridine dye ethidium bromide (EtBr) for 7 d and when grown subsequently in malt extract broth (MEB), produced a 4.2-fold increase in laccase production as compared to the untreated fungus. The fungal cultures following a single EtBr treatment, when regrown on MEA devoid of EtBr, produced a sixfold increase in laccase in MEB. However, on subsequent culturing on MEA in the absence of EtBr, only a 2.5-fold increase in laccase production could be maintained. In another attempt, the initial EtBr-treated cultures, when subjected to a second EtBr treatment (1.5 microg ml(-1)) on MEA for 7 d, produced a 1.4-fold increase in laccase production in MEB. CONCLUSIONS: The white-rot fungus Cyathus bulleri, when treated with EtBr at a concentration of 1.5 microg ml(-1) and regrown on MEA devoid of EtBr, produced a sixfold increase in laccase production in MEB. SIGNIFICANCE AND THE IMPACT OF THE STUDY: The variable form of C. bulleri capable of hyper laccase production can improve the economic feasibility of environmentally benign processes involving use of fungal laccases in cosmetics (including hair dyes), food and beverages, clinical diagnostics, pulp and paper industry, industrial effluent treatment, animal biotechnology and biotransformations.

Animals↗

Soil carbon dynamics in cropland and rangeland.

Most soils in the Midwestern USA have lost 30 to 50% of their original pool, or 25 to 40 Mg C/ha, upon conversion from natural to agricultural ecosystems. About 60 to 70% of the C thus depleted can be resequestered through adoption of recommended soil and crop management practices. These practices include conversion from plow till to no till, frequent use of winter cover crops in the rotation cycle, elimination of summer fallow, integrated nutrient management along with liberal use of biosolids and biological nitrogen fixation, precision farming to minimize losses and enhance fertilizer use efficiency, and use of improved varieties with ability to produce large root biomass with high content of lignin and suberin. The gross rate of soil organic carbon (SOC) sequestration ranges from 500 to 800 kg/ha/year in cold and humid regions and 100 to 300 kg/ha/year in dry and warm regions. The rate of SOC sequestration can be measured with procedures that are cost effective and credible at soil pedon level, landscape level, regional or national scale. In addition to SOC, there is also a large potential to sequester soil inorganic carbon (SIC) in arid and semi-arid regions. Soil C sequestration has numerous ancillary benefits. It is truly a win-win situation: extremely cost-effective, and a bridge to the future until alternative energy options take effect.

Agriculture↗

Scorpion bite and multiple cerebral infarcts.

Multiple cerebral infarcts, bilateral optic neuropathy with limb ischemia, following scorpion bite is documented. Vasospasm and autonomic storm due to envenomation is a plausible explanation for this symptom complex.

Adolescent↗

Imaging molecular structure and physiological function of gap junctions and hemijunctions by multimodal atomic force microscopy.

Gap junctions are specialized plasma membrane structures that join neighboring cells via specialized intercellular ion channels (hemichannels) and provide a direct pathway for cell-cell communication. They presumably mediate regulation of growth, transmission of developmental signals, coordination of muscle contraction, and maintenance of metabolic homeostasis. Hemichannels are also present in the non-junctional regions of the cell plasma membrane and they provide a direct pathway for communication between the cytoplasm and the extracellular region. Recent studies suggest that gap junctional communication is much more complex than previously anticipated, in terms of both its structure as well as its activity. While the mechanism of gap junction activity is being studied extensively, their quaternary structure, assembly, and conformational changes underlying gating of their activity as well as their physiological role are poorly understood because, due to their complex structure, these junctions are less amenable to existing techniques for high-resolution three-dimensional structure-function analyses. Atomic Force Microscopy (AFM) images molecular structure of biological specimens in an aqueous environment, allows on-line perturbations, and can be coupled with electrophysiological, biochemical, and other microscopic techniques. The present review examines the potential of AFM application for the study of the molecular structure of hydrated, native gap junctions and hemijunctions as well as their physiological functions. Special attention is paid to new, complementary, or provocative findings from AFM studies of both vertebrate and invertebrate gap junctions and hemijunctions.

Animals↗

Comparison of new patients with Bence-Jones, IgG and IgA myeloma receiving sequential therapy: the need to regard these immunologic subtypes as separate disease entities with specific prognostic criteria.

Of the 61 newly diagnosed patients with Bence-Jones (BJ) myeloma presenting to our centre between May 1986 and December 1997, 53 received sequential therapy (ST) comprising infusional chemotherapy (IC) followed by high-dose therapy and autotransplantation with interferon-alpha2b maintenance. The outcome was compared with 153 IgG and 39 IgA similarly treated myeloma patients. Response to IC and high-dose was comparable between the three subtypes but a significantly higher proportion of patients with BJ myeloma failed to receive high-dose compared to IgG (P = 0.003) and IgA (P = 0.04) myeloma. Median overall survival (OS) of patients with BJ myeloma (2.8 years) and event-free survival (EFS, 1.2 years) was significantly shorter than for patients with IgG myeloma (4.5 years, P = 0.03 and 2.1 years, P = 0.03, respectively). However, among those patients who achieved complete remission there was no difference in OS and EFS between IgG and BJ myeloma. In distinction to IgG myeloma where age and beta2M were significant, Cox analysis on presentation features identified performance status and urine total protein as having significant impact on OS. We conclude that achieving CR is an important treatment aim in patients with BJ myeloma, conferring a similar outlook on survival as in patients with the IgG subtype, and there is a need to consider different subtype-specific staging systems when evaluating the results of published or ongoing therapeutic trials.

Adult↗

Micromechanical and structural properties of a pennate diatom investigated by atomic force microscopy.

The mechanisms behind natural nanofabrication of highly structured silicas are increasingly being investigated. We have explored the use of a standard Nanoscope III Multimode atomic force microscope (AFM) to study the silica shell of diatoms. The delicate structures of the shell surface of the diatom Navicula pelliculosa (Bréb.) Hilse were imaged and the shell's micromechanical properties were measured semi-quantitatively with a resolution down to approximately 10 nm. The technique to measure elasticity and hardness with the AFM was demonstrated to be useable even on these hard glass-like surfaces. Different experimental configurations and evaluation methods were tested. They gave a consistent result of the shell micromechanical properties. The first results showed that the diatom shell's overall hardness and elasticity was similar to that of known silicas. However, regions with different mechanical properties were distinguished. The elastic modulus varied from 7 to 20 GPa, from 20 to 100 GPa and from 30 to hundreds of GPa depending on the location. In general, the hardness measurements showed similar spatial differences. The hardness values ranged from 1 to 12 GPa but one specific part of the shell was even harder. Hence, certain localized regions of the shell were significantly harder or more elastic. These regions coincide with known characteristic features and mechanisms appearing at the different stages of the shell's growth. These results show that this method serves as a complementary tool in the study of silica biomineralization, and can detect eventual crystalline phases.

Diatoms↗

Cloning and partial characterization of the putative rifamycin biosynthetic gene cluster from the actinomycete Amycolatopsis mediterranei DSM 46095.

The actinomycete Amycolatopsis mediterranei produces the commercially and medically important polyketide antibiotic rifamycin, which is widely used against mycobacterial infections. The rifamycin biosynthetic (rif) gene cluster has been isolated, cloned and characterized from A. mediterranei S699 and A. mediterranei LBGA 3136. However, there are several other strains of A. mediterranei which also produce rifamycins. In order to detect the variability in the rif gene cluster among these strains, several strains were screened by PCR amplification using oligonucleotide primers based on the published DNA sequence of the rif gene cluster and by using dEBS II (second component of deoxy-erythronolide biosynthase gene) as a gene probe. Out of eight strains of A. mediterranei selected for the study, seven of them showed the expected amplification of the DNA fragments whereas the amplified DNA pattern was different in strain A. mediterranei DSM 46095. This strain also showed striking differences in the banding pattern obtained after hybridization of its genomic DNA against the dEBS II probe. Initial cloning and characterization of the 4-kb DNA fragment from the strain DSM 46095, representing a part of the putative rifamycin biosynthetic cluster, revealed nearly 10% and 8% differences in the DNA and amino acid sequence, respectively, as compared to that of A. mediterranei S699 and A. mediterranei LBGA 3136. The entire rif gene cluster was later cloned on two cosmids from A. mediterranei DSM 46095. Based on the partial sequence analysis of the cluster and sequence comparison with the published sequence, it was deduced that among eight strains of A. mediterranei, only A. mediterranei DSM 46095 carries a novel rifamycin biosynthetic gene cluster.

Actinomycetales↗

Enzymes and operons mediating xenobiotic degradation in bacteria.

Aromatic hydrocarbons constitute a major group of environmental pollutants. Bioremediation appears to be the only viable alternative for large-scale decontamination. A number of bacteria have been identified that can degrade a variety of xenobiotics. Extensive studies of the enzymes and genes involved in degradation of aromatic hydrocarbons have revealed that the degradative enzymes could be broadly grouped into two major categories, peripheral and ring-cleavage enzymes. The peripheral enzymes are the ones that catabolize the pollutants initially to a metabolite that is further degraded. A majority of peripheral enzymes are oxygenases that hydroxylate the aromatic compounds, rendering them susceptible to the enzymes of ring-cleavage pathway. The genes of ring-cleavage enzymes have been shown to be highly conserved between different bacterial species. Presently, a number of constraints limit the use of available strains for efficient bioremediation. This review describes the enzymes and genes involved in xenobiotic degradation and underscores the importance of understanding the expression and regulation of genes encoding peripheral enzymes and their intelligent manipulation using recombinant DNA technology for efficient degradation of aromatic compounds.

Bacteria↗