Biology subjects

Ko, A. I.

Publications and source records attributed to Ko, A. I..

4 recordsLinked to original sources

bioRxiv2026

Core-sheath coupling controls flagellar curvature and motility in Leptospira

Spirochete pathogens are among the most invasive bacteria known, causing syphilis, Lyme disease, and leptospirosis. Their tissue penetration depends on periplasmic flagellar filaments that, unlike other bacterial flagella, are encased in a spirochete-specific multi-protein sheath and deform the cell body into motile waves. How these filaments achieve the mechanical properties needed for invasive motility has remained unclear. Here we determine complete atomic structures of the Leptospira endoflagellar filament, revealing an elaborate sheath of 9 to 12 distinct asymmetrically arranged proteins. We show that the flagellin variant forming the filament core determines sheath composition, producing curvatures ranging from [~]3.5 {micro}m-1 to [~]5 {micro}m-1. The lower-curvature architecture, employed by pathogenic Leptospira interrogans, proves essential for motility in viscous environments and during infection. Thus, Leptospira achieves environment-specific motility through modular core-sheath coupling, linking atomic-scale structural plasticity to large-scale changes in swimming behaviour. Conservation of key sheath components suggests this mechanism may extend across spirochetes.

microbiology↗

bioRxiv2025

Comparison of oviposition and adult trapping to monitor wMel introgression for Wolbachia-based vector control

Wolbachia introgression into Aedes aegypti mosquito populations has been shown to be effective in preventing dengue and is being evaluated for WHO prequalification. Monitoring the long-term introgression of Wolbachia (wMel)-positive Aedes aegypti mosquitoes, however, requires labor-intensive and costly BG-Sentinel traps (BG-traps). More affordable alternatives, such as using oviposition traps (ovitraps), have not been fully evaluated. Ae. aegypti eggs and adults were collected from 124 ovitraps and 237 BG-traps, respectively, across 12 clusters in Belo Horizonte, Brazil from March to May 2023 as part of the EVITA Dengue trial. We used a qPCR assay to detect wMel in a sample of L3-L4 stage larvae (up to 29) that were reared from eggs in ovitraps and adults from BG-traps (up to 10 per BG-trap). We used mixed effects models to compare estimates of cluster-level wMel introgression from ovitrap and BG-trap data over time. Among 3,675 larvae reared from ovitraps, wMel prevalence was 0.50 (95% CI: 0.48-0.51). Among 1,244 adult Ae. aegypti tested from BG-traps, wMel prevalence was 0.45 (95% CI: 0.42-0.48). Cluster-level wMel introgression in larvae and adults was highly correlated (Spearmans r = 0.70, p = 6.71e-06). Multivariate analysis found that ovitrap estimates of introgression were associated with BG-trap estimates in the same month when models incorporated the previous months ovitrap wMel-positive count, the proportion of wMel in ovitraps in the current and previous month, and Ae. aegypti abundance. Leveraging this model, predicted wMel introgression from ovitrap data were highly correlated with observed introgression from BG-trap data (rs,counts=0.98, p=1.53e-14; rs,prevalences=0.82, p=0.11e-05) and provided greater precision than crude ovitrap-based estimates. These findings indicate that ovitrap-based monitoring represents a low cost, more efficient approach to evaluating introgression as the Wolbachia-based interventions are scaled up and implemented broadly in high burden regions for dengue and other arboviral diseases. Author SummaryDengue fever is a major global health burden, and one promising way to control it is by releasing Aedes aegypti mosquitoes infected with a bacteria called Wolbachia. This bacteria reduces the mosquitoes ability to spread dengue. However, monitoring the success of Wolbachia in mosquito populations over time requires expensive and labor-intensive traps. Our study explored a more affordable alternative: using oviposition traps (ovitraps), which collect mosquito eggs instead of adults. In Belo Horizonte, Brazil, we compared data from eggs collected in ovitraps with data from standard mosquito traps (BG-traps) that catch adult mosquitoes. By analyzing the mosquitoes for Wolbachia, we found that the egg-based method provided reliable estimates of Wolbachia levels in the mosquito population. These results suggest that ovitraps could be a cost-effective and efficient way to monitor Wolbachias spread. This approach could help improve dengue prevention efforts, making it easier for public health programs to track and expand this control strategy in areas where dengue is a major concern.

ecology↗

bioRxiv2021

Gut microbiome dysbiosis during COVID-19 is associated with increased risk for bacteremia and microbial translocation.

The microbial populations in the gut microbiome have recently been associated with COVID-19 disease severity. However, a causal impact of the gut microbiome on COVID-19 patient health has not been established. Here we provide evidence that gut microbiome dysbiosis is associated with translocation of bacteria into the blood during COVID-19, causing life-threatening secondary infections. Antibiotics and other treatments during COVID-19 can potentially confound microbiome associations. We therefore first demonstrate in a mouse model that SARS-CoV-2 infection can induce gut microbiome dysbiosis, which correlated with alterations to Paneth cells and goblet cells, and markers of barrier permeability. Comparison with stool samples collected from 96 COVID-19 patients at two different clinical sites also revealed substantial gut microbiome dysbiosis, paralleling our observations in the animal model. Specifically, we observed blooms of opportunistic pathogenic bacterial genera known to include antimicrobial-resistant species in hospitalized COVID-19 patients. Analysis of blood culture results testing for secondary microbial bloodstream infections with paired microbiome data obtained from these patients indicates that bacteria may translocate from the gut into the systemic circulation of COVID-19 patients. These results are consistent with a direct role for gut microbiome dysbiosis in enabling dangerous secondary infections during COVID-19.

microbiology↗

bioRxiv2020

Multiscale PHATE Exploration of SARS-CoV-2 Data Reveals Multimodal Signatures of Disease

1The biomedical community is producing increasingly high dimensional datasets, integrated from hundreds of patient samples, which current computational techniques struggle to explore. To uncover biological meaning from these complex datasets, we present an approach called Multiscale PHATE, which learns abstracted biological features from data that can be directly predictive of disease. Built on a continuous coarse graining process called diffusion condensation, Multiscale PHATE creates a tree of data granularities that can be cut at coarse levels for high level summarizations of data, as well as at fine levels for detailed representations on subsets. We apply Multiscale PHATE to study the immune response to COVID-19 in 54 million cells from 168 hospitalized patients. Through our analysis of patient samples, we identify CD16hi CD66blo neutrophil and IFN{gamma}+GranzymeB+ Th17 cell responses enriched in patients who die. Further, we show that population groupings Multiscale PHATE discovers can be directly fed into a classifier to predict disease outcome. We also use Multiscale PHATE-derived features to construct two different manifolds of patients, one from abstracted flow cytometry features and another directly on patient clinical features, both associating immune subsets and clinical markers with outcome.

bioinformatics↗