Lack of Evidence for Cospeciation Between Retroelements and Their Hosts

Some literature is available on cospeciation and on reconstructing the phylogenetic relationships of retroelements, but relatively little consideration has been given to whether there is cospeciation between retroelements and their hosts. Here we address this problem in detail. We conclude that there is no significant evidence for cospeciation between retroelements and their hosts. This conclusion was reached by noting that the branching order of the two phylogenies was no more similar than would be expected by chance. Received: 18 February 1999 / Accepted: 1 October 1999     

Further Evidence for Lack of Gene Expression in the Tetrahymena Micronucleus

Certain galA mutations in the ciliated protozoan Tetrahymena thermophila confer an almost total loss of galactokinase activity in homozygotes. Heterokaryons have been constructed that are homogeneous for the galA1 mutation in the (45n) macronucleus, but which contain a galA⁺ (2n) micronucleus. Soluble cell extracts prepared from these heterokaryons have been assayed for galactokinase activity, using a radiometric assay for the conversion of galactose to galactose-1-phosphate (gal-1-P). No galactokinase activity attributable to the micronuclear genes is observed in such heterokaryons. These results, obtained with the galA1 marker, provide the first direct, quantitative evidence for the lack of micronuclear (germ line) gene expression in Tetrahymena during vegetative growth, and substantiate the predictions of previous phenotypic observations on heterokaryons and autoradiographic studies of micronuclear RNA synthesis. The generality of this conclusion will be established in the future when other enzymically assayable mutations become available for similar studies.     

Lack of Evidence for Vertical Transmission of Campylobacter spp. in Chickens

Campylobacter jejuni is a major cause of bacterial food-borne infection in the industrial world. There is evidence that C. jejuni is present in eggs and hatchery fluff, opening the possibility for vertical transmission from hens to progeny. Poultry operations in Iceland provide an excellent opportunity to study this possibility, since breeding flocks are established solely from eggs imported from grandparent flocks in Sweden. This leaves limited opportunity for grandparents and their progeny to share isolates through horizontal transmission. While Campylobacter was not detected in all grandparent flocks, 13 of the 16 egg import lots consisted of eggs gathered from one or more Campylobacter-positive grandparent flocks. No evidence of Campylobacter was found by PCR in any of the 10 relevant quarantine hatchery fluff samples examined, and no Campylobacter was isolated from the parent birds through 8 weeks, while they were still in quarantine rearing facilities. After the birds were moved to less biosecure rearing facilities, Campylobacter was isolated, and 29 alleles were observed among the 224 isolates studied. While three alleles were found in both Sweden and Iceland, in no case was the same allele found both in a particular grandparent flock and in its progeny. We could find no evidence for vertical transmission of Campylobacter to the approximately 60,000 progeny parent breeders that were hatched from eggs coming from Campylobacter-positive grandparent flocks. If vertical transmission is occurring, it is not a significant source for the contamination of chicken flocks with Campylobacter spp.     

Evidence that Envelope and Thylakoid Membranes from Pea Chloroplasts Lack Glycoproteins

Envelope and thylakoid membranes from pea (Pisum sativum var. Laxton's Progress No. 9) chloroplasts were analyzed for the presence of glycoproteins using two different approaches. First, the sugar composition of delipidated membrane polypeptides was measured directly using gas chromatographic analysis. The virtual absence of sugars suggests that plastid membranes lack glycoproteins. Second, membrane polypeptides separated by sodium dodecyl sulfate gel electrophoresis were tested for reactivity toward three different lectins: Concanavalin A, Ricinus communis agglutinin, and wheat germ agglutinin. In each case, there was no reactivity between any of the lectins and the plastid polypeptides. Microsomal membranes from pea tissues were used as a positive control. Glycoproteins were readily detectable in microsomal membranes using either of the two techniques. From these results it was concluded that pea chloroplast membranes do not contain glycosylated polypeptides.     

Evidence for Hydraulic Vulnerability Segmentation and Lack of Xylem Refilling under Tension

The vascular system of grapevine (Vitis spp.) has been reported as being highly vulnerable, even though grapevine regularly experiences seasonal drought. Consequently, stomata would remain open below water potentials that would generate a high loss of stem hydraulic conductivity via xylem embolism. This situation would necessitate daily cycles of embolism repair to restore hydraulic function. However, a more parsimonious explanation is that some hydraulic techniques are prone to artifacts in species with long vessels, leading to the overestimation of vulnerability. The aim of this study was to provide an unbiased assessment of (1) the vulnerability to drought-induced embolism in perennial and annual organs and (2) the ability to refill embolized vessels in two Vitis species X-ray micro-computed tomography observations of intact plants indicated that both Vitis vinifera and Vitis riparia were relatively vulnerable, with the pressure inducing 50% loss of stem hydraulic conductivity = −1.7 and −1.3 MPa, respectively. In V. vinifera, both the stem and petiole had similar sigmoidal vulnerability curves but differed in pressure inducing 50% loss of hydraulic conductivity (−1.7 and −1 MPa for stem and petiole, respectively). Refilling was not observed as long as bulk xylem pressure remained negative (e.g. at the apical part of the plants; −0.11 ± 0.02 MPa) and change in percentage loss of conductivity was 0.02% ± 0.01%. However, positive xylem pressure was observed at the basal part of the plant (0.04 ± 0.01 MPa), leading to a recovery of conductance (change in percentage loss of conductivity = −0.24% ± 0.12%). Our findings provide evidence that grapevine is unable to repair embolized xylem vessels under negative pressure, but its hydraulic vulnerability segmentation provides significant protection of the perennial stem.The plant hydraulic system is located at the interface between soil water and the atmosphere. Evaporative demand from the atmosphere generates a tension within a continuous xylem water column, pulling water from the soil, through roots, stems, petioles, and leaves (Dixon, 1896). Under drought conditions, the overall resistance to water flow through the soil-plant continuum increases. Increased resistance to water flow results from changes in the resistance at multiple specific locations along the flow pathway: in the soil, at the soil-root interface, and in the roots, the main plant axis (i.e. stems and branches), the petioles, and the leaves. Two primary mechanisms controlling the resistance are stomatal closure (leaf-to-air water flow) and the loss of xylem hydraulic conductivity (soil-to-leaf water flow; Cochard et al., 2002). Stomatal closure is closely related to decreasing plant water status (Brodribb and Holbrook, 2003) and is often considered to be a protective mechanism against the loss of xylem hydraulic conductivity (Tyree and Sperry, 1988; Jones and Sutherland, 1991). Loss of xylem hydraulic conductivity occurs when the water potential of xylem sap reaches levels negative enough to disrupt the metastability of the water column, potentially resulting in embolism.Generally, high resistance to embolism is observed in species distributed in dry environments, whereas highly vulnerable species are distributed in wet environments (Maherali et al., 2004; Choat et al., 2012). Although grapevine (Vitis spp.) is widely cultivated, including in regions where it is frequently exposed to water deficit during the growing season (Lovisolo et al., 2010), recent studies have produced contrasting estimates of its resistance to embolism. Grapevine has been described as either vulnerable (Zufferey et al., 2011; Jacobsen and Pratt, 2012) or relatively resistant (Choat et al., 2010; Brodersen et al., 2013). In Vitis spp., and Vitis vinifera especially, stomatal closure is typically observed for midday leaf water potentials less than −1.5 MPa (Schultz, 2003). Thus, according to some studies, significant losses in xylem hydraulic conductivity should be observed before stomatal closure (Ψ₅₀ > −1 MPa; Jacobsen and Pratt, 2012; Jacobsen et al., 2015), implying that embolism would be commonplace.The risk of hydraulic dysfunction is mitigated along the hydraulic pathway by hydraulic segmentation (i.e. more distal organs such as leaves and petioles will be at greater risk to embolism than more basal organs such as the trunk; Tyree and Zimmermann 2002; Choat et al., 2005). This could promote hydraulic safety in larger, perennial organs, which represent a greater investment of resources for the plant. Hydraulic segmentation may occur in two ways. During transpiration, the xylem pressure will always be more negative in more distal parts of the pathway (leaves and petioles). All else being equal, this translates to a greater probability of embolism in distal organs. However, organs also may differ in their vulnerability to embolism, compensating or exacerbating the effects of differences in xylem pressure along the pathway. If leaves or petioles were more vulnerable to embolism than branches and the trunk, then they would be far more likely to suffer embolism during periods of water stress. This would allow petioles, leaves (Nolf et al., 2015), or even young branches (Rood et al., 2000) to become embolized without significant impacts on the trunk and larger branches. In grapevine, petioles have been described as extremely sensitive to cavitation (Ψ₅₀ of approximately −1 MPa; Zufferey et al., 2011). However, the hydraulic methods employed in those previous studies have been shown to be prone to artifacts (Wheeler et al., 2013; Torres-Ruiz et al., 2015), necessitating the use of a noninvasive assessment of drought-induced embolism.High-resolution computed tomography (HRCT) produces three-dimensional images of xylem tissue in situ, allowing for a noninvasive assessment of embolism resistance. This technique has provided robust results in various plant species with contrasting xylem anatomy (Charra-Vaskou et al., 2012, 2016; Dalla-Salda et al., 2014; Torres-Ruiz et al., 2014; Cochard et al., 2015; Knipfer et al., 2015; Bouche et al., 2016). Synchrotron-based tomography facilities allow the visualization of intact plants, offering a noninvasive, in vivo estimation of the loss of hydraulic conductivity within the xylem (Choat et al., 2016). Moreover, the quality of the x-ray beam in the synchrotron facilities provides high resolution and signal-to-noise ratio, making image analysis simple and accurate.If grapevine were as vulnerable to xylem embolism as suggested in some studies, refilling of embolized vessels would be expected to occur on a frequent (daily) basis in order to maintain hydraulic continuity (Sperry et al., 1994; Cochard et al., 2001; Hacke and Sperry, 2003; Charrier et al., 2013). Various refilling mechanisms have been proposed to date, including positive root/stem pressure and refilling while the xylem is under negative pressure via water droplet growth (Salleo et al., 1996; Brodersen et al., 2010; Knipfer et al., 2016). Positive pressure in the xylem sap can be related to mineral nutrition and soil temperature in autumn or spring (Ewers et al., 2001) and to soluble carbohydrate transport into the vessel lumen during winter (Améglio et al., 2001; Charrier et al., 2013). Refilling under negative pressure is based on the hypothesis that embolized vessels are isolated from surrounding functional vessels, permitting positive pressures to develop and the embolism to dissolve (Salleo et al., 1996; Tyree et al., 1999). This process has been related to the chemistry of conduit walls (Holbrook and Zwieniecki, 1999), the geometry of interconduit bordered pits (Zwieniecki and Holbrook, 2000), and phloem unloading (Nardini et al., 2011). While refilling via positive pressure has been described frequently (Sperry et al., 1987, 1994; Hacke and Sauter 1996; Cochard et al., 2001; Améglio et al., 2004; Cobb et al., 2007), refilling under negative pressure remains controversial (Cochard et al., 2013, 2015). In grapevine particularly, imaging techniques have provided evidence of refilling in embolized vessels (Brodersen et al., 2010), but uncertainties remain regarding the xylem water potential measurement at the position of the scan.The goal of this study was to provide a noninvasive assessment of (1) the vulnerability to drought-induced embolism in two widespread grapevine species in perennial (V. vinifera and Vitis riparia) and annual (V. vinifera) organs and (2) the ability to refill embolized vessels under positive or negative pressure (V. vinifera). This approach would indicate whether embolism formation and repair are likely to occur on a daily basis and/or if hydraulic segmentation could protect perennial organs from drought stress. Stems and petioles from intact V. vinifera ‘Cabernet Sauvignon’ and V. riparia plants were scanned using Synchrotron-based HRCT, characterizing their vulnerability to embolism and quantifying their ability to refill at different positions along the plant axis (base and apex) in relation to bulk xylem pressure. These data were integrated with other noninvasive techniques assessing leaf hydraulics and transpiration.     

Lack of Evidence for 3/4 Scaling of Metabolism in Terrestrial Plants

Scaling, as the translation of information across spatial, temporal, and organizational scales, is essential to predictions and understanding in all sciences and has become a central issue in ecology. A large body of theoretical and empirical evidence concerning allometric scaling in terrestrial individual plants and plant communities has been constructed around the fractal volume-filling theory of West, Brown, and Enquist (the WBE model). One of the most thought-provoking findings has been that the metabolic rates of plants, like those of animals, scale with their size as a 3/4 power law. The earliest, single most-important study cited in support of the application of the WBE model to terrestrial plants claims that whole-plant resource use in terrestrial plants scales as the 3/4 power of total mass, as predicted by the WBE model.However, in the present study we show that empirical data actually do not support such a claim. More recent studies cited as evidence for 3/4 scaling also suffer from several statistical and data-related problems. Using a forest biomass dataset including 1 266 plots of 17 main forest types across China, we explored the scaling exponents between tree productivity and tree mass and found no universal value across forest stands. We conclude that there is not sufficient evidence to support the existence of a single constant scaling exponent for the metabolism-biomass relationship for terrestrial plants.     

Lack of Evidence for 3/4 Scaling of Metabolism in Terrestrial Plants

Scaling, as the translation of information across spatial, temporal, and organizational scales, is essential to predictions and understanding in all sciences and has become a central issue in ecology. A large body of theoretical and empirical evidence concerning allometric scaling in terrestrial individual plants and plant communities has been constructed around the fractal volume-filling theory of West, Brown, and Enquist （the WBE model）. One of the most thought-provoking findings has been that the metabolic rates of plants, like those of animals, scale with their size as a 3/4 power law. The earliest, single most-important study cited in support of the application of the WBE model to terrestrial plants claims that whole-plant resource use in terrestrial plants scales as the 3/4 power of total mass, as predicted by the WBE model. However, in the present study we show that empirical data actually do not support such a claim. More recent studies cited as evidence for 3/4 scaling also suffer from several statistical and data-related problems. Using a forest biomass dataset including 1 266 plots of 17 main forest types across China, we explored the scaling exponents between tree productivity and tree mass and found no universal value across forest stands. We conclude that there is not sufficient evidence to support the existence of a single constant scaling exponent for the metabolism-biomass relationship for terrestrial plants.     

Lack of Evidence for Sign Epistasis Between Beneficial Mutations in an RNA Bacteriophage

In previous work (Betancourt, Genetics 181:1535, 2009), I propagated three large laboratory populations of an RNA phage (MS2) as they adapted to a controlled laboratory environment. These populations were large enough so that evolution might be expected to be mostly repeatable, but they nevertheless fixed different suites of mutations over the course of the experiment. Here, I investigate one possible explanation for these results: epistasis, in which the effect of a mutation depends on its genetic background, may have prevented populations with different initial substitutions from fixing the same set of subsequent mutations. I show that two mutations that previously occurred in different genetic backgrounds are beneficial on either background. This result suggests that sign epistasis-in which a mutation is beneficial on one background, but deleterious on another-is not the cause of different evolutionary trajectories observed in the Betancourt (2009) experiment. However, they can be explained by either magnitude epistasis-in which mutations have stronger or weaker beneficial effects depending on the background-or by the simultaneous fixation of multiple beneficial mutations. Surprisingly, the large populations of the previous experiment showed less parallel evolution than the small populations of this experiment, which lends support to the fixation of multiple beneficial mutations contributing to the patterns seen in both experiments.     

Further Evidence of Lack of Pheromonal Inhibition among Queens of the Ant Leptothorax acervorum

Queens in some species of ant with several queens per colony are believed to inhibit one another's fecundity pheromonally. This paper describes a repeat of an experimental test of this idea in the multiple-queen ant Leptothorax acervorum. The three most fecund queens from a field-collected colony were housed together in an experimental nest. This was then filmed for 10 h per day over 36 consecutive days (i.e. for 360 h in total). Over the first 12 d, all queens were present in the colony. For the middle 12 d, the two most fecund queens were removed, but were returned for the final 12 d. The queen that was observed throughout the experiment failed to show a rise in fecundity when the other queens were removed. Instead, her egg-laying rate fell, although this drop was not significant. These results confirm previous findings that short-term, strong pheromonal inhibition of fecundity does not occur among L. acervorum queens. The phenomena of pheromonal inhibition in other species may be a result of workers treating queens differentially in response to rapid, short-term changes in the numbers of queens and eggs. If so, the results presented here could stem from the relative infrequency of such changes in L. acervorum.     

Lack of Evidence for Encystment in the Parasitic Amoeba Hydramoeba hydroxena (Entz)

SYNOPSIS. It is known that hydras infected with H. hydroxena commonly disintegrate and release scores of amoebae. Spherical resting bodies found among the free amoebae have been described as cysts and it has been suggested that they give rise to amoebulae. Using Hydra pseudoligactis as the host, a study was made of the history of the free amoebae and of the structure, nature, and fate of the so-called cysts. All such amoebae transformed into spherical bodies that resembled cysts, even to the presence of an external membrane. These bodies invariably disintegrated after 2–3 days and they never produced amoebulae. They were called pseudocysts. The external membrane proved to be a layer of gelated cytoplasm. Unlike a true cyst membrane, it dissolved in KOH and it underwent solation when the pseudocyst disintegrated. It is concluded that the pseudocysts are actually weakened, starved, moribund amoebae. At present there is no evidence that H. hydroxena is capable of producing true cysts; its transmission from host to host appears to be solely by means of the amoeboid trophozoite.     

Evidence of the Lack of a Limiting Structure in the Fruiting Body of the Myxococcaceae

Photomicrography by a water-immersion lens system, of the fruiting bodies of Myxococcus fulvus and Chondrococcus cirrhosus , and by phase-contrast, of submerged fruiting bodies in the former, shows no wall, capsule or other limiting structure in either case.     

Lack of Evidence for mtDNA as a Biomarker of Innate Immune Activation in HIV Infection

Many human immunodeficiency virus (HIV) infected individuals suffer from persistent immune activation. Chronic inflammation and immune dysregulation have been associated with an increased risk of age-related diseases even among patients on highly active antiretroviral therapy. The factors leading to immune activation are complex, but have been hypothesized to include persistent viral replication with cellular death as well as microbial translocation across the gastrointestinal tract. Both processes may trigger innate immune responses since many native molecules released from dying cells are similar in structure to pathogen associated molecular patterns. These damage associated molecular patterns include mitochondrial DNA and formylated peptides. We hypothesized that circulating mitochondrial nucleic acid could serve as a biomarker for HIV-associated cell death and drive innate immune activation in infected individuals. We developed a quantitative polymerase chain reaction assay for plasma mitochondrial DNA and validated it on normal blood donors. We then measured mitochondrial DNA levels in acute and chronic HIV infection. While the assay proved to be accurate with a robust dynamic range, we did not find a significant association between HIV disease status and circulating mitochondrial DNA. We did, however, observe a negative correlation between age and plasma mitochondrial DNA levels in individuals with well-controlled HIV.     

Lack of Evidence for a Major Gene in the Mendelian Transmission of BMI in Chinese

Objectives: To determine the heritability of BMI and to examine the mode of inheritance of BMI variation in Chinese. Research Methods and Procedures: Familial correlation and complex segregation analyses for BMI were undertaken in a Chinese sample composed of 392 nuclear families, with 1190 total individuals. Results: A moderate heritability was found for BMI (h² = 0.419 ‐ 0.492). The obtained results do not support a major gene for BMI in our samples. BMI may be inherited in a complex and non‐Mendelian manner in Chinese. Discussion: The findings of this study suggest that identification of specific genes for BMI in Chinese, at least within the same data set, is a serious challenge because of the lack of evidence of a major gene for BMI in our Chinese sample.     

A Systematic Literature Search on Psychological First Aid: Lack of Evidence to Develop Guidelines

Background

Providing psychological first aid (PFA) is generally considered to be an important element in preliminary care of disaster victims. Using the best available scientific basis for courses and educational materials, the Belgian Red Cross-Flanders wants to ensure that its volunteers are trained in the best way possible.

Objective

To identify effective PFA practices, by systematically reviewing the evidence in existing guidelines, systematic reviews and individual studies.

Methods

Systematic literature searches in five bibliographic databases (MEDLINE, PsycINFO, The Cochrane Library, PILOTS and G-I-N) were conducted from inception to July 2013.

Results

Five practice guidelines were included which were found to vary in the development process (AGREE II score 20–53%) and evidence base used. None of them provides solid evidence concerning the effectiveness of PFA practices. Additionally, two systematic reviews of PFA were found, both noting a lack of studies on PFA. A complementary search for individual studies, using a more sensitive search strategy, identified 11 237 references of which 102 were included for further full-text examination, none of which ultimately provides solid evidence concerning the effectiveness of PFA practices.

Conclusion

The scientific literature on psychological first aid available to date, does not provide any evidence about the effectiveness of PFA interventions. Currently it is impossible to make evidence-based guidelines about which practices in psychosocial support are most effective to help disaster and trauma victims.     

Lack of Evidence for a Marked Endogenous Component Determining Food Intake in Humans During Forced Desynchrony

In an attempt to investigate the relative importance of endogenous and exogenous factors in determining food intake, 14 healthy subjects were studied while living in an Isolation Unit (where external time cues were absent) for eighteen 28 h “days” (equal to 21 solar days). The subjects were free to spend their waking time as they chose, and they had a free choice of what they ate and when they ate it. The only restrictions were that no naps were allowed in the “daytime,” that some time was required to perform a variety of tests at regular intervals throughout the 18.67 h waking periods, and that any food preparation had to be performed by the subjects themselves. Core (rectal) temperature and activity were monitored throughout, and the subjects answered a questionnaire on their eating habits at 3 h intervals during the waking periods. The questionnaire investigated reasons for eating or not eating a meal during the previous 3 h and, if a meal had been eaten, its type, the factors influencing that choice, and the subjects’ subjective responses (hunger before, enjoyment during, and satiety after) to it. The results were analyzed (two-way ANOVA) in terms of both the imposed day length (the exogenous component) and the free-running period of the temperature rhythm (the endogenous component). Results indicated that by far the main reason for eating/not eating was hunger/lack of hunger rather than factors such as food availability and time-pressure. There were statistically significant effects of time within the imposed waking periods upon the type of meal eaten—“breakfast” tending to be a snack, “lunch” a small hot meal, and the “evening meal” a large hot meal. Hot meals (whether small or large) were associated with more hunger before the meal, more enjoyment of the meal, and a greater degree of satiety afterward than were cold meals. These effects suggest that the individuals adjusted their eating habits to fit in with the imposed wake times. By contrast, the effect of circadian phase upon food intake, the type of meal eaten, and subjective responses to the meal was much weaker, and either statistically nonsignificant (P > 0.10) or only marginally so (0.10 > P > 0.05). For example, a large hot meal was chosen as readily for an “evening meal,” and subjective responses to it were the same, at whatever circadian phase it was eaten. We conclude that food intake during forced desynchronization is dominated by the waking schedule rather than by circadian influences; some of the implications of these findings when eating habits and the metabolism of food are concerned, particularly in night workers, are considered briefly.     

Lack of Serologic Evidence to Link IgA Nephropathy with Celiac Disease or Immune Reactivity to Gluten

IgA nephropathy is the most common form of primary glomerulonephritis worldwide. Mucosal infections and food antigens, including wheat gluten, have been proposed as potential contributing environmental factors. Increased immune reactivity to gluten and/or association with celiac disease, an autoimmune disorder triggered by ingestion of gluten, have been reported in IgA nephropathy. However, studies are inconsistent about this association. We aimed to evaluate the proposed link between IgA nephropathy and celiac disease or immune reactivity to gluten by conducting a comprehensive analysis of associated serologic markers in cohorts of well-characterized patients and controls. Study participants included patients with biopsy-proven IgA nephropathy (n = 99), unaffected controls of similar age, gender, and race (n = 96), and patients with biopsy-proven celiac disease (n = 30). All serum specimens were tested for IgG and IgA antibodies to native gliadin and deamidated gliadin, as well as IgA antibody to transglutaminase 2 (TG2). Anti-TG2 antibody-positive nephropathy patients and unaffected controls were subsequently tested for IgA anti-endomysial antibody and genotyped for celiac disease-associated HLA-DQ2 and -DQ8 alleles. In comparison to unaffected controls, there was not a statistically significant increase in IgA or IgG antibody reactivity to gliadin in individuals with IgA nephropathy. In addition, the levels of celiac disease-specific serologic markers, i.e., antibodies to deamidated gliadin and TG2, did not differ between IgA nephropathy patients and unaffected controls. Results of the additional anti-endomysial antibody testing and HLA genotyping were corroborative. The data from this case-control study do not reveal any evidence to suggest a significant role for celiac disease or immune reactivity to gluten in IgA nephropathy.