Biomedical subjects

Todd A Anderson

Publications and source records attributed to Todd A Anderson.

At least 37 records · Page 2Linked to original sources

PubMed2006

Conservation and divergence of plant microRNA genes.

MicroRNA (miRNA) is one class of newly identified, small, non-coding RNAs that play versatile and important roles in post-transcriptional gene regulation. All miRNAs have similar secondary hairpin structures; many of these are evolutionarily conserved. This suggests a powerful approach to predict the existence of new miRNA orthologs or homologs in other species. We developed a comprehensive strategy to identify new miRNA homologs by mining the repository of available ESTs. A total of 481 miRNAs, belonging to 37 miRNA families in 71 different plant species, were identified from more than 6 million EST sequences in plants. The potential targets of the EST-predicted miRNAs were also elucidated from the EST and protein databases, providing additional evidence for the real existence of these miRNAs in the given plant species. Some plant miRNAs were physically clustered together, suggesting that these miRNAs have similar gene expression patterns and are transcribed together as a polycistron, as observed among animal miRNAs. The uracil nucleotide is dominant in the first position of 5' mature miRNAs. Our results indicate that many miRNA families are evolutionarily conserved across all major lineages of plants, including mosses, gymnosperms, monocots and eudicots. Additionally, the number of miRNAs discovered was directly related to the number of available ESTs and not to evolutionary relatedness to Arabidopsis thaliana, indicating that miRNAs are conserved and little phylogenetic signal exists in the presence or absence of these miRNAs. Regulation of gene expression by miRNAs appears to have existed at the earliest stages of plant evolution and has been tightly constrained (functionally) for more than 425 million years.

Base Sequence↗

PubMed2006

Thyroid function and reproductive success in rodents exposed to perchlorate via food and water.

The purpose of the present study was to determine if exposure to perchlorate via food items would have effects on mammals similar to those caused by exposure through drinking water at approximately equivalent doses. Prairie voles (Microtus ochrogaster) and deer mice (Peromyscus maniculatus) were used to assess the potential toxicity of perchlorate-contaminated food items. Voles and mice were divided randomly into three treatment groups--perchlorate-contaminated food (PCF), perchlorate-contaminated water (PCW), and control groups--such that each treatment group contained equal numbers of males and females. Rodents in PCF treatment groups were fed chow formulated with soybean plant matter that had been grown with perchlorate-contaminated irrigation water. Individuals in the control and PCF groups were provided distilled/deionized drinking water, whereas the PCW group received drinking water containing sodium perchlorate. Only slight differences among treatment groups were observed in a variety of endpoints, including reproductive success, tissue perchlorate concentrations, thyroid hormone concentrations, and thyroid histology. However, trends observed in the present study suggest that perchlorate exposure via water may result in slightly greater effects than exposure to perchlorate via food. These data and recent reports of perchlorate in a wide variety of food items indicate that exposure via food intake is an important consideration when examining cumulative risk among humans, livestock, and wildlife.

Animal Feed↗

PubMed2005

Plant microRNA: a small regulatory molecule with big impact.

MicroRNAs (miRNAs) are an abundant new class of non-coding approximately 20-24 nt small RNAs. To date, 872 miRNAs, belonging to 42 families, have been identified in 71 plant species by genetic screening, direct cloning after isolation of small RNAs, computational strategy, and expressed sequence tag (EST) analysis. Many plant miRNAs are evolutionarily conserved from species to species, some from angiosperms to mosses. miRNAs may originate from inverted duplications of target gene sequences in plants. Although miRNA precursors display high variability, their mature sequences display extensive sequence complementarity to their target mRNA sequences. miRNAs play important roles in plant post-transcriptional gene regulation by targeting mRNAs for cleavage or repressing translation. miRNAs are involved in plant development, signal transduction, protein degradation, response to environmental stress and pathogen invasion, and regulate their own biogenesis. miRNAs regulate the expression of many important genes; a majority of these genes are transcriptional factors.

Gene Expression Regulation, Plant↗

PubMed2005

Optimization of operating conditions for the determination of perchlorate in biological samples using preconcentration/preelution ion chromatography.

Perchlorate originates as a contaminant in the environment from the use of salts in the manufacture of solid rocket fuels and munitions. Monitoring potential perchlorate contamination in the environment is of interest, however, very few analytical methods have been developed for perchlorate determination in biological samples. Analysis of complex samples by ion chromatography is complicated by matrix components that can interfere with perchlorate determination. However, a recently developed preconcentration/preelution (PC/PE) ion chromatography method has demonstrated the capability to analyze certain complex samples such as high salinity water, milk, and hydroponic fertilizers. The ability of this method to reduce sample background and lower detection limits in ion chromatography for various biological samples was evaluated in this study. The PC/PE method was applicable to the analysis of kidneys, livers, zebrafish, quail eggs, lettuce, and urine. Optimal operating conditions were determined for each matrix. Ranges of optimal wash volumes were shorter when 15 mM NaOH prewash solutions were used compared with 10mM and good recovery was achieved for most matrices with an injection period > or =60s. Prewash solution concentration did not appear to significantly affect matrix background. The PC/PE method was capable of reducing sample background when compared to EPA Method 314.0, which resulted in detection limits, with the exception of zebrafish and urine, that were two-fold lower than those achieved with EPA Method 314.0.

Animals↗

PubMed2005

Uptake and elimination of perchlorate in eastern mosquitofish.

The purpose of this study was to investigate the uptake and elimination of perchlorate in eastern mosquitofish (Gambusia holbrooki). Fish were exposed to 0.1-1000 mg/l sodium perchlorate for 12h, 1, 2, 5, 10, and 30 days, and perchlorate was determined in whole body extracts. Perchlorate was not detected in mosquitofish exposed to the low concentrations of perchlorate (0, 0.1, and 1mg/l sodium perchlorate), regardless of the exposure time, whereas it was detected when fish were exposed to 10, 100, and 1000 mg/l. The tissue concentrations were approximately 10 times less than that in the water. There was no difference in the uptake of perchlorate depending upon the exposure time, however, a difference in perchlorate uptake depending upon the concentration of the exposure dose (P<0.001) was observed. Uptake (K(u)) and elimination (K(e)) rate constants were 0.09 l/mg day and 0.70 day(-1), respectively. The half-life (T1/2) of perchlorate was 0.99 day. Thus, it appears that perchlorate is rapidly taken up and eliminated in eastern mosquitofish. These results are critical and may be used to develop models of fate, effects, and transport of perchlorate in natural systems, as well as to assess ecological risk in affected ecosystems.

Animals↗

PubMed2005

Evaluating the bioavailability of explosive metabolites, hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX) and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX), in soils using passive sampling devices.

The uptake kinetics of two major RDX (hexahydro-1,3,5-trinitro-1,3,5-triazacyclohexane) metabolites, hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX) and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX), into passive sampling devices (PSDs), and the ability of PSDs to serve as surrogates for evaluating bioavailability of MNX and TNX were investigated in laboratory sand and two soil types. The results indicate that MNX and TNX absorption into PSDs was best fitted with a polynomial curve model: y = ax2 + bx + c (y: amount of MNX or TNX absorbed into PSD; x: incubation time of PSDs in soil), with an excellent correlation coefficient (>0.95) for each type of soil amended with 10 mg/kg MNX or TNX. TNX was more readily absorbed by PSDs than MNX. Soil conditions, especially organic matter content, affected MNX and TNX uptake into PSDs. A relatively good correlation between MNX and TNX uptake into PSDs and uptake into earthworms was obtained in two types of natural soils (a silt loam soil from Nebraska and a sandy loam soil from Texas) and laboratory sand. A linear relationship between PSD uptake and earthworm uptake was observed. The correlation coefficients (r2) were > or = 0.82 for all test soils spiked with MNX or TNX. Organic matter content is one soil factor that affected the ratio of MNX or TNX uptake into earthworms versus uptake into PSDs. These data indicate that C18 PSDs may be used as a surrogate for soil organisms such as earthworms and provide a simple and easy chemical test for assessing the bioavailability of contaminants in soils.

Alkanes↗

PubMed2005

Use of pressurized liquid extraction (PLE)/gas chromatography-electron capture detection (GC-ECD) for the determination of biodegradation intermediates of hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) in soils.

A rapid, sensitive, and reproducible method was developed for quantitative determination of hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) and its biodegradation intermediates, hexahydro-1-nitroso-3,5-dinitro-1,3,5-triazine (MNX), hexahydro-1,3-dinitroso-5-nitro-1,3,5-triazine (DNX), and hexahydro-1,3,5-trinitroso-1,3,5-triazine (TNX) in soils. RDX, MNX, DNX, or TNX was extracted from soil by pressurized liquid extraction (PLE), followed by cleanup using florisil. Instrumental analysis was performed using gas chromatography with electron capture detection (GC-ECD), which was highly sensitive to the parent explosive and its metabolites. The method detection limits (MDLs) were 0.243, 0.095, 0.138, and 0.057 ng/g for RDX, MNX, DNX, and TNX, respectively. The method gave high recovery (98-102%), good precision (0.22-5.14%), and reproducibility, and proved to be suitable for real world sample analysis.

Acetonitriles↗

PubMed2005

Effects of perchlorate on earthworm (Eisenia fetida) survival and reproductive success.

The effects of perchlorate on earthworm, Eisenia fetida, survival and reproductive success were evaluated using three types of tests: dermal contact (filter paper), sand, and artificial soil. All studies utilized a range of perchlorate concentrations in order to simulate levels that are likely to occur in the environment under different scenarios (typical soil levels vs. spill levels). The OECD filter paper contact test involved exposing earthworms to the test compound on moist filter paper for 14 days to evaluate earthworm survival under a worst-case dermal exposure scenario. A similar test involved exposing the earthworms to perchlorate-contaminated sand, where earthworm survival decreased as concentration of perchlorate increased, with no worms surviving 14 days at the highest treatment concentrations (>2000 microg/g). However, the perchlorate concentrations that affected the survival of E. fetida are likely to occur only under extreme conditions (e.g. spills). The effect of perchlorate on the reproductive success (cocoon production) of E. fetida over a 4-week test period in artificial soil and a 3-week test period in sand was also examined. Production of cocoons was observed in soil containing up to 100 microg/g perchlorate, with no production in the uppermost treatment groups (1000 microg/g). Cocoon production was highest in the control group, although overall cocoon production appeared to be low. In contrast to the acute toxicity tests, perchlorate did affect earthworm reproduction at environmentally relevant soil concentrations. In addition, preliminary data suggest that cocoons produced under perchlorate contamination did not hatch as well as cocoons produced in control soil despite incubation of both sets of cocoons in clean soil or sand.

Animals↗

PubMed2005

The origin of naturally occurring perchlorate: the role of atmospheric processes.

Perchlorate, an iodide uptake inhibitor, is increasingly being detected in new places and new matrices. Perchlorate contamination has been attributed largelyto the manufacture and use of ammonium perchlorate (the oxidizer in solid fuel rockets) and/or the earlier use of Chilean nitrate as fertilizer (approximately 0.1% perchlorate). However, there are regions such as the southern high plains (Texas Panhandle) where there is no clear historical or current evidence of the extensive presence of rocket fuel or Chilean fertilizer sources. The occurrence of easily measurable concentrations of perchlorate in such places is difficult to understand. In the southern high plains groundwater, perchlorate is better correlated with iodate, known to be of atmospheric origin, compared to any other species. We show that perchlorate is readily formed by a variety of simulated atmospheric processes. For example, it is formed from chloride aerosol by electrical discharge and by exposing aqueous chloride to high concentrations of ozone. We report that perchlorate is present in many rain and snow samples. This strongly suggests that some perchlorate is formed in the atmosphere and a natural perchlorate background of atmospheric origin should exist.

Atmosphere↗

PubMed2005

Perchlorate accumulation in forage and edible vegetation.

The accumulation of perchlorate in vegetation is becoming a concern, with increasing numbers of sites reporting the presence of perchlorate in groundwater and surface water. This study investigated potential perchlorate uptake and distribution by a variety of forage and edible crops in both the laboratory and the field. Perchlorate concentrations in soybean leaves grown in the greenhouse were significantly higher than perchlorate concentrations in soybean seeds and pods. Perchlorate concentrations in alfalfa grown in sand were significantly lower than those in alfalfa grown in soil. The concentration of perchlorate in tomato was lower in the fruit than the leaves. Commercially grown wheat and alfalfa samples all contained perchlorate, 0.72-8.6 mg/kg of fresh weight (FW) in the wheat stems, 0.71-4.4 mg/kg of FW in the wheat heads, and 2.9 mg/kg of FW in alfalfa. All field garden samples tested (including cucumber, cantaloupe, and tomato) that were irrigated with perchlorate-tainted water contained perchlorate at various concentrations ranging from 0.040 to 1.65 mg/kg of FW. Bioconcentration factors (BCF), ratios of plant fresh weight concentrations to estimated or measured groundwater concentrations [(microg/kg of FW)/microg/L], were all in the same order of magnitude ranging from 215 +/- 126 for wheat stems to 233 +/- 264 for wheat heads and to 380 +/- 89 for alfalfa. BCF for garden fruit samples were much lower (0.5-20). Results from this study highlight the potential for perchlorate exposure by routes other than drinking water.

Animal Feed↗

PubMed2005

Monitoring perchlorate exposure and thyroid hormone status among raccoons inhabiting a perchlorate-contaminated site.

Perchlorate is a water soluble anion that is readily accumulated in vegetation. It inhibits uptake of iodide into thyroid gland tissue, thereby reducing production of thyroid hormones. Potential raccoon food items including berries, fish, and vegetation collected at a contaminated site contained quantifiable concentrations of perchlorate as determined by ion chromatography. Therefore, we monitored resident raccoons for exposure to perchlorate by examining plasma perchlorate and thyroid hormone concentrations. Resulting analytical data failed to demonstrate perchlorate exposure among raccoons that likely consumed food items collected along perchlorate-contaminated water bodies. There were no correlations between triiodothyronine or thyroxine and thyroid stimulating hormone concentrations, but triiodothyronine concentrations in raccoon plasma were significantly higher in 2000 than in 2001 (p = 0.0081). These data suggest that natural attenuation and remedial efforts initiated in January of 2001 may have reduced perchlorate exposure among raccoons inhabiting this site from 2000 to 2001. Temporal, spatial, and analytical factors limited our ability to quantify exposure among raccoons, however, our data do not indicate that raccoons currently inhabiting this site are at risk for significant exposure to perchlorate and subsequent effects.

Animals↗

PubMed2005

Temporal and spatial variation of perchlorate in streambed sediments: results from in-situ dialysis samplers.

The fate of perchlorate (ClO4-) in streambed sediments is becoming a concern due to the increasing number of groundwater and surface water contamination sites in the United States. Dialysis samplers were deployed at three sites over a period of 1 year to determine the vertical distribution of ClO4- in sediment pore water. Results indicated that the spatial and temporal ClO4- penetration into sediments could be affected by numerous factors, such as temperature, microbial degradation, ClO4- surface water concentration, and sediment physico-geological properties. In general, maximum ClO4- penetration into sediments at the studied sites was 30 cm below the sediment-water surface. The vertical sequential depletion of electron acceptors in sediments suggested that microbial reduction was responsible for ClO4- depletion in stream sediments. Biodegradation of ClO4- occurred over a seasonally variable active depth zone of 1-10 cm. Results implied that there was a rapid natural attenuation potential of perchlorate in saturated near-surface sediments.

Dialysis↗

PubMed2005

Identification and characterization of new plant microRNAs using EST analysis.

Seventy-five previously known plant microRNAs (miRNAs) were classified into 14 families according to their gene sequence identity. A total of 18,694 plant expressed sequence tags (EST) were found in the GenBank EST databases by comparing all previously known Arabidopsis miRNAs to Genbank plant EST databases with BLAST algorithms. After removing the EST sequences with high numbers (more than 2) of mismatched nucleotides, a total of 812 EST contigs were identified. After predicting and scoring the RNA secondary structure of the 812 EST sequences using mFold software, 338 new potential miRNAs were identified in 60 plant species. miRNAs are widespread. Some microRNAs may highly conserve in the plant kingdom, and they may have the same ancestor in very early evolution. There is no nucleotide substitution in most miRNAs among many plant species. Some of the new identified potential miRNAs may be induced and regulated by environmental biotic and abiotic stresses. Some may be preferentially expressed in specific tissues, and are regulated by developmental switching. These findings suggest that EST analysis is a good alternative strategy for identifying new miRNA candidates, their targets, and other genes. A large number of miRNAs exist in different plant species and play important roles in plant developmental switching and plant responses to environmental abiotic and biotic stresses as well as signal transduction. Environmental stresses and developmental switching may be the signals for synthesis and regulation of miRNAs in plants. A model for miRNA induction and expression, and gene regulation by miRNA is hypothesized.

Base Sequence↗

PubMed2005

Measuring gene flow in the cultivation of transgenic cotton (Gossypium hirsutum L.).

Transgenic Bt cotton NewCott 33B and transgenic tfd A cotton TFD were chosen to evaluate pollen dispersal frequency and distance of transgenic cotton (Gossypium hirsutum L.) in the Huanghe Valley Cotton-producing Zone, China. The objective was to evaluate the efficacy of biosafety procedures used to reduce pollen movement. A field test plot of transgenic cotton (6 x 6 m) was planted in the middle of a nontransgenic field measuring 210 x 210 m. The results indicated that the pollen of Bt cotton or tfd A cotton could be dispersed into the environment. Out-crossing was highest within the central test plot where progeny from nontransgenic plants, immediately adjacent to transgenic plants, had resistant plant progeny at frequencies up to 10.48%. Dispersal frequency decreased significantly and exponentially as dispersal distance increased. The flow frequency and distance of tfd A and Bt genes were similar, but the pollen-mediated gene flow of tfd A cotton was higher and further to the transgenic block than that of Bt cotton (chi2 = 11.712, 1 degree of freedom, p < 0.001). For the tfd A gene, out-crossing ranged from 10.13% at 1 m to 0.04% at 50 m from the transgenic plants. For the Bt gene, out-crossing ranged from 8.16% at 1 m to 0.08% at 20 m from the transgenic plants. These data were fit to a power curve model: y = 10.1321x-1.4133 with a correlation coefficient of 0.999, and y = 8.0031x-1.483 with a correlation coefficient of 0.998, respectively. In this experiment, the farthest distance of pollen dispersal from transgenic cotton was 50 m. These results indicate that a 60-m buffer zone would serve to limit dispersal of transgenic pollen from small-scale field tests.

Agriculture↗

PubMed2005

Organochlorine pesticides and mercury in cottonmouths (Agkistrodon piscivorus) from northeastern Texas, USA.

Despite their ecological importance and global decline, snakes remain poorly studied in ecotoxicology. In this study, we examined organochlorine (OC) pesticide and mercury accumulation in cottonmouths (Agkistrodon piscivorus) living on a contaminated site in northeastern Texas (USA). Mercury and p,p'-dichlorodiphenyldichloroethylene (p,p'-DDE) were detected in all snakes examined. Other OCs, including p,p'-dichlorodiphenyltrichloroethane (p,p'-DDT), methoxychlor, aldrin, and heptachlor, also were detected, but less frequently. Concentrations of p,p'-DDE were higher in fat than in liver, while mercury concentrations were highest in liver, followed by kidney and tail clips. One animal contained the highest mercury concentration yet reported for a snake (8,610 ng/g). Mercury concentrations in liver and kidney were higher in males than females, while no intersex differences in p,p'-DDE concentrations were observed. Concentrations of p,p'-DDE in fat were correlated positively with body size in male cottonmouths but not females, suggesting a slower rate of accumulation in females. Body size strongly predicted mercury concentrations in liver, kidney, and tail clips of both sexes. Tail clips were strong predictors of mercury in liver and kidney in males but not females, suggesting possible sex-dependent differences in mercury toxicokinetics. Both long-term field studies and controlled laboratory investigations are needed to adequately assess the response of cottonmouths to chronic contaminant exposure.

Adipose Tissue↗

PubMed2005

Patterns of genotoxicity and contaminant exposure: evidence of genomic instability in the marsh frogs (Rana ridibunda) of Sumgayit, Azerbaijan.

The wetlands of Sumgayit in the Azerbaijan Republic contain complex mixtures of contaminants, including polycyclic aromatic hydrocarbons (PAHs), mercury, organochlorine pesticides, and polychlorinated biphenyls. Marsh frogs (Rana ridibunda) were collected from several contaminated wetlands within the city as well as from two reference sites outside the city. Sediment samples revealed heterogeneous patterns of PAH and mercury concentrations throughout Sumgayit, with the highest levels occurring east of the Sumgayit River, within the industrial zone. Flow cytometry and micronucleus assay revealed elevated estimates of genetic damage in frogs from the wetlands east of the Sumgayit River compared to frogs from the reference sites. Flow cytometric data showed a significant correlation with sediment mercury concentrations, whereas population micronucleus frequencies were significantly correlated with high-molecular-weight PAHs.

Animals↗

PubMed2005

Novel biomarkers of perchlorate exposure in zebrafish.

Perchlorate inhibits iodide uptake by thyroid follicles and lowers thyroid hormone production. Although several effects of perchlorate on the thyroid system have been reported, the utility of these pathologies as markers of environmental perchlorate exposures has not been adequately assessed. The present study examined time-course and concentration-dependent effects of perchlorate on thyroid follicle hypertrophy, colloid depletion, and angiogenesis; alterations in whole-body thyroxine (T4) levels; and somatic growth and condition factor of subadult and adult zebrafish. Changes in the intensity of the colloidal T4 ring previously observed in zebrafish also were examined immunohistochemically. Three-month-old zebrafish were exposed to ammonium perchlorate at measured perchlorate concentrations of 0, 11, 90, 1,131, and 11,480 ppb for 12 weeks and allowed to recover in clean water for 12 weeks. At two weeks of exposure, the lowest-observed-effective concentrations (LOECs) of perchlorate that induced angiogenesis and depressed the intensity of colloidal T4 ring were 90 and 1,131 ppb, respectively; other parameters were not affected (whole-body T4 was not determined at this time). At 12 weeks of exposure, LOECs for colloid depletion, hypertrophy, angiogenesis, and colloidal T4 ring were 11,480, 1,131, 90, and 11 ppb, respectively. All changes were reversible, but residual effects on angiogenesis and colloidal T4 ring intensity were still present after 12 weeks of recovery (LOEC, 11,480 ppb). Whole-body T4 concentration, body growth (length and weight), and condition factor were not affected by perchlorate. The sensitivity and longevity of changes in colloidal T4 ring intensity and angiogenesis suggest their usefulness as novel markers of perchlorate exposure. The 12-week LOEC for colloidal T4 ring is the lowest reported for any perchlorate biomarker in aquatic vertebrates.

Angiogenesis Inducing Agents↗

PubMed2004

A study on perchlorate exposure and absorption in beef cattle.

Perchlorate exposure and potential effects were evaluated in large mammals by monitoring heifer calves placed on a site with access to streamwater fed by a perchlorate-contaminated groundwater spring ( approximately 25 ng/mL). Blood was collected from the two calves on the site (and two control calves from an uncontaminated site) approximately every 2 weeks for analysis of perchlorate residues and thyroid hormones. During the 14 week study, perchlorate was detected (detection limit = 13.7 ng/mL) in blood plasma twice (15 ng/mL and 22 ng/mL) in one of the heifer calves drinking perchlorate-contaminated water on consecutive sampling periods 4 and 6 weeks after the beginning of perchlorate exposure. Constant exposure to 25 ppb perchlorate in drinking water had no effect on circulating thyroid hormones (T(3) and T(4)) in the heifer calves.

Absorption↗