Biology subjects

Budde, H.

Publications and source records attributed to Budde, H..

7 recordsLinked to original sources

bioRxiv2026

Micro-Cm: restrictase-free microbiome-wide chromosome conformation profiling

Mobile genetic elements like plasmids, viruses and transposons can considerably augment the genomic repertoire of individual bacterial members of a complex multi-species microbiome and influence community dynamics. As linking a mobile element to its bacterial host based on metagenome sequencing alone proves challenging, such assays have been augmented with high-throughput chromosome conformation capture (Hi-C). However, the efficacy of Hi-C metagenomics is constrained by the protocol limitations and a lack of ground-truth reference datasets. In order to overcome these limitations, we present Micro-C metagenomics (Micro-Cm) - an adaptation of a superior, restrictase-free Micro-C technique for processing microbiome samples and mapping plasmid-host associations. We validated the developed experimental protocol and bioinformatic workflow on a simulated, defined consortium of diverse gut bacterial species and applied them to a long-read human gut microbiome sample. The proportion of valid reads in the synthetic community was an order of magnitude higher than that observed in multiple Hi-C metagenomic studies. For both samples, we obtained high-quality contact maps, which in the case of the synthetic community revealed fine-scale chromosome interactions. Moreover, successful recovery of plasmid-host interactions in the simulated community validated the method, which we then applied to the real stool sample. Our plasmid-host association analysis in a complex bacterial community successfully identified bacterial hosts for most of the identified complete plasmids. Our results show that Micro-Cm method improves profiling of complex microbiomes, exploration of mobile genetic element dynamics and community-wide, detailed investigation of chromosomal conformation patterns.

microbiology↗

bioRxiv2024

Effect of high-intensity anaerobic exercise on electrocortical activity in athletes and non-athletes

AimThe present study aims to verify the information processing in athletes through electroencephalography, analyze cortical areas responsible for cognitive functions related to attentional processing of visual stimuli, and investigate motor activitys influence on cognitive aspects. Material and MethodsThe sample consisted of 29 subjects, divided into an experimental group (n = 13 modern pentathlon athletes) and a control group (n = 16 non-athletes). We collected the electrocortical activity before and after the Wingate Anaerobic Test. During the electrophysiological measures, the volunteers performed a saccadic eye movement paradigm. They also performed cognitive tasks, resting heart rate, and anthropometric measurements. ResultsA mixed ANOVA was applied to analyze the statistical differences between groups (athletes and control) and moments (before and after exercise) for F3, F4, P3, and P4 electrodes during rest one and task (pre-stimulus GO). There was an interaction for the group vs. moment factors in F3 [F = 17,129; p = 0,000; {eta}{superscript 2} = 0.512], F4 [F = 22,774; p = 0,000; {eta}{superscript 2} = 0.510], P3 [F = 11,429; p = 0,001; {eta}{superscript 2} = 0.405], and P4 electrodes [F = 18,651; p = 0,000; {eta}{superscript 2} = 0.379]. We found the main effect for group factors in the frontal and parietal electrodes of the right hemisphere (F4 and P4) and a main effect of the moment factor on the frontal (F3 and F4) and parietal (P3 and P4) electrodes. There was an interaction between the group vs. moment factors for the reaction time. The groups were different in Peak Power (Watts/kg), Average Power (Watts/kg), Fatigue Index (%), and Maximum Power (ms). ConclusionsWe identified chronic effects of exercise training on the cortical activity of modern pentathlon athletes, read-through differences in absolute alpha power, and acute effects of a high-intensity exercise session for athletes and non-athletes for electrocortical and behavioral responses.

neuroscience↗

bioRxiv2024

Attention and working memory investigated through the P300 component in children practicing Karate at different stages of biological maturation

AimTo investigate attention and working memory, comparing children practice Karate and non-Karate practitioners at different stages of biological maturation through the amplitude and latency of the P300 component during the execution of a Go/No-Go paradigm. Material and MethodsThe P300 was analyzed for Fz, Cz, and Pz electrodes in 80 participants separated in two groups: an Karate practitioners group comprising Karate practitioners and comprising non-Karate practitioners. Each group was further subdivided according to the biological maturation range defined by Peak Height Velocity. In addition, the participants performed a Go/No-Go paradigm to measure amplitude and latency. ResultsThe EEG analysis showed Ffr electrodes Pz and Cz, an interaction was found between group and Peak Height Velocity for the amplitude variable (respectively: F = 45.858; d = 0.38; p < 0.001 / F = 10.411; d = 0.17; p = 0.004). For the Fz electrode, a main effect was found between group and Peak Height Velocity (respectively: F = 40.330; d = 0.34; p = 0.010 / F = 36.730; d = 0.30; p = 0.012) for the variable amplitude and latency. main effect between group and Peak Height Velocity (respectively: F = 7.719; d = 0.14; p = 0.012 / F = 38.370; d = 0.31; p = 0.010). ConclusionsIn general, it is possible to conclude that participants in the Karate practitioners group exhibited electrocortical measures corresponding to greater efficiency in decision-making and attention processes, motor planning, working memory, attention allocation, motor execution, and greater attentional engagement. It was also demonstrated that, despite the children being at very close chronological ages, their biological maturation differed.

neuroscience↗

bioRxiv2024

The Effects of Acute Coordinative vs. Acute Endurance Exercise on the Cortisol Concentration

BackgroundPhysical exercise interventions can cause neuroendocrine activation, which in turn increases salivary cortisol concentrations. Until now there have been no studies comparing endurance and coordinative exercise. ObjectiveThe purpose of this study was to examine the effects of these different interventions with an intraindividual comparison. Methods61 students between 18 and 30 years of age were included and first completed a coordinative exercise and one week later an endurance exercise of the same intensity and length which was self-set on the first day, with a maximum heart rate of 64 - 76% (HRmax) over a period of 15 min. To measure changes in the hypothalamic-pituitary-adrenal axis (HPA-axis) activity, saliva samples were collected before (t1) and after exercise (t2 and t3). ResultsBaseline values of cortisol (t0) did not differ significantly between coordinative and endurance exercise, t(55) = .233, p = .816. Post hoc tests revealed that the cortisol values of the second coordinative vs. endurance time point, t(55) = 2.097, p = .040, d = .741, and third coordinative vs. endurance time point, t(55) = 3.004, p = .004, d = .735, differed significantly with large effect sizes. ConclusionThe results show for the first time that coordinative exercise produced a higher cortisol release than endurance exercise of the same intensity and duration. Interventions such as coordinative exercise require higher cognitive components resulting in stronger cortisol release than endurance exercise. Thus, the type of acute exercise is a psychophysiological factor in determining the neuroendocrine stress response. Key pointsCortisol is an important catabolic hormone when it comes to overtraining or burnout in an athlete. Our results show for the first time that acute coordinative exercise produces a higher cortisol release than endurance exercise of the same intensity and duration.

physiology↗

bioRxiv2024

The IFIH1-A946T risk variant promotes diabetes in a sex-dependent manner

Type 1 diabetes (T1D) is an autoimmune disease in which pancreatic islet {beta}-cells are attacked by the immune system, resulting in insulin deficiency and hyperglycemia. One of the top non-synonymous single-nucleotide polymorphisms (SNP) associated with T1D is in the interferon-induced helicase C domain-containing protein 1 (IFIH1), which encodes an anti-viral cytosolic RNA sensor. This SNP results in an alanine to threonine substitution at amino acid 946 (IFIH1A946T) and confers an increased risk for several autoimmune diseases, including T1D. We hypothesized that the IFIH1A946T risk variant, (IFIH1R) would promote T1D pathogenesis by stimulating type I interferon (IFN I) signaling leading to immune cell alterations. To test this, we developed Ifih1R knock-in mice on the non-obese diabetic (NOD) mouse background, a spontaneous T1D model. Our results revealed a modest increase in diabetes incidence and insulitis in Ifih1R compared to non-risk Ifih1 (Ifih1NR) mice and a significant acceleration of diabetes onset in Ifih1R females. Ifih1R mice exhibited a significantly enhanced interferon stimulated gene (ISG) signature compared to Ifih1NR, indicative of increased IFN I signaling. Ifih1R mice exhibited an increased frequency of plasma cells as well as tissue-dependent changes in the frequency and activation of CD8+ T cells. Our results indicate that IFIH1R may contribute to T1D pathogenesis by altering the frequency and activation of immune cells. These findings advance our knowledge on the connection between the rs1990760 variant and T1D. Further, these data are the first to demonstrate effects of Ifih1R in NOD mice, which will be important to consider for the development of therapeutics for T1D.

immunology↗

bioRxiv2023

Paleocene origin of a streamlined digestive symbiosis in leaf beetles

Timing the acquisition of a beneficial microbe relative to the evolutionary history of its host can shed light on the adaptive impact of a partnership. Here, we investigated the onset and molecular evolution of an obligate symbiosis between Cassidinae leaf beetles and Candidatus Stammera capleta, a {gamma}-proteobacterium. Residing extracellularly within foregut symbiotic organs, Stammera upgrades the digestive physiology of its host by supplementing plant cell wall-degrading enzymes. We observe that Stammera is a shared symbiont across tortoise and hispine beetles that collectively comprise the Cassidinae subfamily, despite differences in their folivorous habits. In contrast to its transcriptional profile during vertical transmission, Stammera elevates the expression of genes encoding digestive enzymes while in the foregut symbiotic organs, matching the nutritional requirements of its host. Symbiont acquisition during the Paleocene ([~]62 Mya) did not coincide with the origin of Cassidinae beetles, despite the widespread distribution of Stammera across the subfamily. Early-diverging lineages lack the symbiont and the specialized organs that house it. Reconstructing the ancestral state of host-beneficial factors revealed that Stammera encoded three digestive enzymes at the onset of symbiosis, including polygalacturonase - a pectinase that is universally shared. While non-symbiotic cassidines encode polygalacturonase endogenously, their repertoire of plant cell wall-degrading enzymes is more limited compared to symbiotic beetles supplemented with digestive enzymes from Stammera. Highlighting the potential impact of a symbiotic condition and an upgraded metabolic potential, Stammera-harboring beetles exploit a greater variety of plants and are more speciose compared to non-symbiotic members of the Cassidinae.

evolutionary biology↗

bioRxiv2023

Decrease in reaction time for volleyball athletes during saccadic eye movement task: An associative analysis with evoked potentials

AimThe current study investigated the differences to event-related potential and reaction time under two groups (athletes vs. non-athletes). Material and MethodsThe P300 was analyzed for Fz, Cz and Pz electrodes in thirty-one healthy volunteers divided into two groups (volleyball athletes and non-athletes). In addition, the participants performed a saccadic eye movement task to measure reaction time. ResultsThe EEG analysis showed that the athletes in comparison to the no-athletes has differences of the P300 in the frontal area (p=0.021). In relation to reaction time, the results show lower reaction time for athletes (p=0.001). ConclusionsThe volleyball athletes may present a greater allocation of attention during the execution of the inhibition task, since they have a lower reaction time for responses when compared to non-athletes.

neuroscience↗