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Todd, J.

Publications and source records attributed to Todd, J..

12 recordsLinked to original sources

Non-enzymatic assimilation of organosulfur compounds at the interface of geochemistry and biochemistry

Dimethyl sulfide (DMS) and dimethyl sulfoxide (DMSO) have important microbial-driven roles in global nutrient cycling, chemotaxis and/or climate regulation. Microbial DMSO and DMS assimilation were thought to require their enzymatic reduction to methanethiol. However, reactive oxygen species were recently shown to mediate methane production from DMS and DMSO. Here, we show that this oxidative mechanism can sustain microbial growth without the need for enzymes to directly reduce DMS or oxidize DMSO. Both, light and heat were effective geochemical drivers of this mechanism that yielded methanesulfonic acid and sulfite, and which mimicked the stepwise oxidation of DMSO by monooxygenases that only enzymatically enhance this oxidation reaction. Furthermore, we demonstrated intracellular DMSO degradation, in which sulfur and the simultaneously released carbon were both utilized by microbes. This study emphasizes that metabolic pathways are not necessarily enzyme-driven, with putatively ancient, non-enzymatic reaction networks taking place at a transition between geochemistry and biochemistry.

biochemistry↗

Morphometrical asymmetries and tractography of speech-relevant cortex in relation to language lateralisation and rapid temporal processing

Differences in the functional roles of the left and right cortices for speech-related processes have been known since the findings of Broca [1] and Wernicke [2]. Nearly 100 years later anatomical asymmetries of speech-related cortex was emphasised as a potential substrate to such functional lateralisations [3]. Exploration of associations of anatomical asymmetries and functional lateralisations in speech has since continued, with developing technologies and theoretical insights mutually affording increasingly refined understandings. The present study is another such continuance; we outline and report associations of neuroanatomical (morphometrical) and connective (diffusion tractography) measures of speech-related cortex with differences of participant speech lateralisation and rapid temporal acuity (a hypothesised general auditory ability that contributes to superior speech processing). Review and support of developments in methodological approaches to morphometry and tractography to are also provided. Overall, our study affirms complex and selectively overlapping relationships of anatomy and connectivity (especially in the planum temporale) with behavioural language lateralisation and the processing of rapid temporal acoustics. Implications, limitations, and recommendations are discussed.

neuroscience↗

Predicting direct and indirect non-target impacts of biocontrol agents using machine-learning approaches

Biological pest control (i.e. biocontrol) agents can have direct and indirect non-target impacts, and predicting these effects (especially indirect impacts) remains a central challenge in biocontrol risk assessment. The analysis of ecological networks offers a promising approach to understanding the community-wide impacts of biocontrol agents (via direct and indirect interactions). Independently, species traits and phylogenies have been shown to successfully predict species interactions and network structure (alleviating the need to collect quantitative interaction data), but whether these approaches can be combined to predict indirect impacts of natural enemies remains untested. Whether predictions of interactions (i.e. direct effects) can be made equally well for generalists vs. specialists and across different habitat types is also untested for consumer-prey interactions, though previous work on mutualist networks suggests that interactions among generalists may be more difficult to predict. Here, we used two machine learning techniques (random forest and k-nearest neighbour; KNN) to test whether we could accurately predict empirically-observed quantitative host-parasitoid networks using trait, abundance, and phylogenetic information. Then, we tested whether the accuracy of machine-learning-predicted interactions depended on the generality of the interacting partners or on the source (habitat type) of the training data. Finally, we used these predicted networks to generate predictions of indirect effects via shared natural enemies (i.e. apparent competition), and tested these predictions against empirically observed indirect effects between hosts. We found that random-forest models predicted host-parasitoid pairwise interactions (which could be used to predict attack of non-target host species) more successfully than KNN, and this predictive ability depended on the generality of the interacting partners, but not the source (habitat type) of data used to train the models. Further, although our machine-learning informed methods could significantly predict indirect effects, the explanatory power for both direct and indirect interactions was reasonably low. Combining machine-learning and network approaches provides a starting point for reducing risk in biocontrol.

ecology↗

Faster model updating in autism during early sensory processing

BackgroundRecent theories of autism propose that a core deficit in autism would be a less context-sensitive weighting of prediction errors. There is also first support for this hypothesis on an early sensory level. However, an open question is whether this decreased context-sensitivity is caused by faster updating of ones model of the world (i.e. higher weighting of new information), proposed by predictive coding theories, or slower model updating. Here, we differentiated between these two hypotheses by investigating how first impressions shape the mismatch negativity (MMN), reflecting early sensory prediction error processing. MethodsAn autism and matched control group (both n=27) were compared on the multi-timescale MMN paradigm, in which tones were presented that were either standard (frequently occurring) or deviant (rare), and these roles reversed every block. A well-replicated observation is that the initial model (i.e. the standard and deviant sound in the first block) influences MMN amplitudes in later blocks. If autism is characterized by faster model updating, we hypothesized that their MMN amplitudes would be less influenced by the initial context. ResultsWe found that MMN responses in the autism group did not differ between the initial deviant and initial standard sounds as they did in the control group. ConclusionsThese results show that individuals with autism are less influenced by initial contexts, confirming that autism is characterized by faster updating of sensory models, as proposed by predictive coding accounts of autism.

neuroscience↗

Noise-Dampening Ear-Protectors improve performance on the heartbeat tracking task, but do not necessarily enhance interoception.

Previous research utilising a between-subjects design has indicated that the use of noise-dampening ear-protectors might enhance interoceptive accuracy (IAcc). In the present study, we further examined this effect using a repeated-measures, within-participants design, and investigated potential mechanisms that might explain the effect. 50 participants completed the heartbeat tracking task (HTT) with and without the use of industrial ear-protectors, in a counter-balanced order. Participants were asked to count the number of heartbeats occurring in five discrete time intervals of 25, 35, 45, 55 and 95 seconds, without feeling for a manual pulse. HTT scores were significantly higher when ear-protectors were worn, and the improvement in performance was greatest for participants with lower baseline IAcc. The ear-protectors were associated with significantly increased self-reported heartbeat audibility, task-related confidence and concentration, and decreased levels of distractibility. Heartbeat audibility was also correlated with HTT performance when the ear-protectors were worn. Because the use of industrial ear defenders resulted in increased heartbeat audibility, this manipulation should not be used to assess causal hypotheses related to changes in IAcc. However, it may serve as a simple, non-invasive manipulation to assess the effects of externalised interoceptive signals. HighlightsO_LIEar-protectors elicit an improvement in performance on the heartbeat tracking task C_LIO_LIThis improvement is greatest for participants with lower baseline accuracy C_LIO_LIThe improvement is associated with the auditory perception of the heartbeat C_LIO_LIPrior use of ear-protectors did not result in later enhanced performance on the control condition without ear-protectors. C_LI

neuroscience↗

Hierarchical learning of statistical regularities over multiple timescales of sound sequence processing: A dynamic causal modelling study

The nervous system is endowed with predictive capabilities, updating neural activity to reflect recent stimulus statistics in a manner which optimises processing of expected future states. This process has previously been formulated within a predictive coding framework, where sensory input is either \"explained away\" by accurate top-down predictions, or leads to a salient prediction error which triggers an update to the existing prediction when inaccurate. However, exactly how the brain optimises predictive processes in the stochastic and multi-faceted real-world environment remains unclear. Auditory evoked potentials have proven a useful measure of monitoring unsupervised learning of patterning in sound sequences through modulations of the mismatch negativity component which is associated with \"change detection\" and widely used as a proxy for indexing learnt regularities. Here we used dynamic causal modelling to analyse scalp-recorded auditory evoked potentials collected during presentation of sound sequences consisting of multiple, nested regularities and extend on previous observations of pattern learning restricted to the scalp level or based on single-outcome events. Patterns included the regular characteristics of the two tones presented, consistency in their relative probabilities as either common standard (p = .875) or rare deviant (p = .125), and the regular rate at which these tone probabilities alternated. Significant changes in connectivity reflecting a drop in the precision of prediction errors based on learnt patterns were observed at three points in the sound sequence, corresponding to the three hierarchical levels of nested regularities: (1) when an unexpected \"deviant\" sound was encountered; (2) when the probabilities of the two tonal states altered; and (3) when there was a change in rate at which probabilities in tonal state changed. These observations provide further evidence of simultaneous pattern learning over multiple timescales, reflected through changes in neural activity below the scalp.\n\nAuthor summaryOur physical environment is comprised of regularities which give structure to our world. This consistency provides the basis for experiential learning, where we can increasingly master our interactions with our surroundings based on prior experience. This type of learning also guides how we sense and perceive the world. The sensory system is known to reduce responses to regular and predictable patterns of input, and conserve neural resources for processing input which is new and unexpected. Temporal pattern learning is particularly important for auditory processing, in disentangling overlapping sound streams and deciphering the information value of sound. For example, understanding human language requires an exquisite sensitivity to the rhythm and tempo of speech sounds. Here we elucidate the sensitivity of the auditory system to concurrent temporal patterning during a sound sequence consisting of nested patterns over three timescales. We used dynamic causal modelling to demonstrate that the auditory system monitors short, intermediate and longer-timescale patterns in sound simultaneously. We also show that these timescales are each represented by distinct connections between different brain areas. These findings support complex interactions between different areas of the brain as responsible for the ability to learn sophisticated patterns in sound even without conscious attention.

neuroscience↗

Preliminary evidence for altered interoceptive processing in smokers.

BackgroundNeuroimaging evidence suggests that interoceptive processing might be altered in nicotine addiction, however this has not yet been confirmed with behavioral measures. Therefore, we investigated the perception of internal bodily states in smokers (49) and people who had never smoked (n=51), by measuring interoceptive sensitivity (IS) and interoceptive awareness (IA). MethodsIS was measured with a heartbeat tracking task and a heartbeat discrimination task. Performance on the heartbeat tracking task may be influenced by one's ability to estimate an elapsed time interval so this was controlled by a time-estimation (TE) task. IA was measured using two sub-scales from the Multidimensional Assessment of Interoceptive Awareness (MAIA). Participants in the addiction group completed the Revised Fagerstrom Test for Nicotine Dependence (FTND-R) to measure addiction severity. ResultsIndependent-samples t-tests revealed that non-smokers performed significantly better than smokers on the heartbeat tracking task (p = 0.007, d = 0.22). There were no group differences observed for the remaining variables. Furthermore, none of the variables predicted addiction severity. ConclusionsThis is the first demonstration of behavioral differences in interoception in participants with nicotine addiction. When considered in the context of previous research, these findings support the hypothesis that interoceptive processing may be disturbed in addiction. These data also support the hypothesis that behavioral and self-report measures of interoception assess two separate constructs.

physiology↗

Genome-wide association study of multiple yield components in a diversity panel of polyploid sugarcane (Saccharum spp.)

Sugarcane (Saccharum spp.) is an important economic crop, contributes up to 80% of sugar and approximately 60% bio-fuel globally. To meet the increased demand for sugar and bio-fuel supplies, it is critical to breed sugarcane cultivars with robust performance in yield components. Therefore, dissection of causal DNA sequence variants is of great importance by providing genetic resources and fundamental information for crop improvement. In this study, we evaluated and analyzed nine yield components in a sugarcane diversity panel consisting of 308 accessions primarily selected from the \"world collection of sugarcane and related grasses\". By genotyping the diversity panel using target enrichment sequencing, we identified a large number of sequence variants. Genome-wide association study between the markers and traits were conducted with dosages and gene actions taken into consideration. In total, 217 non-redundant markers and 225 candidate genes were identified to be significantly associated with the yield components, which can serve as a comprehensive genetic resource database for future gene identification, characterization, and selection for sugarcane improvement. We further investigated runs of homozygosity (ROH) in the sugarcane diversity panel. We characterized 282 ROHs, and found that the occurrence of ROH in the genome were non-random and probably under selection. ROHs were associated with total weight and dry weight, and high ROHs resulted in decrease of the two traits. This study approved that genomic inbreeding has led to negative impacts on sugarcane yield.

genomics↗

Frequent Monitoring of C-peptide Levels in Newly Diagnosed Type 1 Subjects Using Dried Blood Spots Collected at Home

ObjectiveTo evaluate a novel approach to measure {beta}-cell function by frequent testing of C-peptide concentrations in dried blood spots (DBS)\n\nPatientsThirty-two children, aged 7-17 years, recently diagnosed with type 1 diabetes.\n\nDesignMixed-meal-tolerance-test (MMTT) within 6 and again 12 months after diagnosis with paired venous and DBS C-peptide sampling at 0 and 90 minutes. Weekly DBS C-peptide before and after standardized breakfasts collected at home.\n\nResultsDBS and plasma C-peptide levels (n=115) correlated strongly (r=0{middle dot}91; p<0.001). The Bland-Altman plot indicated good agreement. The median number of home-collected DBS cards per participant was 24 over a median of 6.9 months. Repeated DBS C-peptide levels varied considerably within and between subjects. Adjustment for corresponding home glucose measurements reduced the variance permitting accurate description of changes over time. The correlation of the C-peptide slope over time assessed by repeated home DBS versus area under the curve during the two MMTTs was r=0{middle dot}73; p<0.001. Mixed models showed that a 1-month increase of diabetes duration was associated with 17 pmol/l decline in fasting DBS C-peptide, whereas increases of 1 mmol/l in glucose, 1 year older age-at-diagnosis and 100 pmol/l higher baseline plasma C-peptide were associated with 18, 17 and 61 pmol/l higher fasting DBS C-peptide levels, respectively. In addition, glucose responsiveness decreased with longer diabetes duration.\n\nConclusionOur approach permitted frequent assessment of C-peptide, making it feasible to monitor {beta}-cell function at home. Evaluation of changes in the slope of C-peptide using this method may permit short-term evaluation of promising interventions.

biochemistry↗

The plasma biomarker soluble SIGLEC-1 is associated with the type I interferon transcriptional signature, ethnic background and renal disease in systemic lupus erythematosus

The molecular heterogeneity of autoimmune and inflammatory diseases has been one of the main obstacles to the development of safe and specific therapeutic options. Here we have evaluated the diagnostic and clinical value of a robust, inexpensive, immunoassay detecting the circulating soluble form of the monocyte-specific surface receptor sialic acid binding Ig-like lectin 1 (sSIGLEC-1).\n\nWe developed an immunoassay to measure sSIGLEC-1 in small volumes of plasma/serum from systemic lupus erythematosus (SLE) patients and healthy donors. Plasma concentrations of sSIGLEC-1 strongly correlated with expression of SIGLEC-1 on the surface of blood monocytes and with type I interferon (IFN)-regulated gene (IRG) expression in SLE patients. In addition, we identified marked ancestry-related differences in sSIGLEC-1 concentrations in SLE patients, with patients of non-European ancestry showing higher levels compared to patients of European ancestry. Higher sSIGLEC-1 concentrations were associated with lower serum complement component 3 and increased frequency of renal complications in European patients, but not with the SLEDAI clinical score.\n\nOur sSIGLEC-1 immunoassay provides a specific and easily-assayed marker for monocyte-macrophage activation, and interferonopathy in SLE and other diseases. Further studies can extend its clinical associations and its potential use to stratify patients and as a secondary endpoint in trials.

immunology↗

A rare IL2RA haplotype identifies SNP rs61839660 as causal for autoimmunity

IL2RA is associated with multiple autoimmune diseases including type 1 diabetes (T1D). Higher expression of IL2RA mRNA and its protein product CD25 in T lymphocytes is associated with a T1D-protective haplotype. Here we show that a rare variation of this haplotype that loses the protective allele at a single SNP, rs61839660, reduces IL2RA expression and T1D protection, identifying it as the causal factor in disease.

genetics↗