Search
Results
-
Methanotrophic Methanoperedens archaea host diverse and interacting extrachromosomal elements
(2023)bioRxivMethane emissions that contribute to climate change can be mitigated by anaerobic methane-oxidizing archaea such as Methanoperedens. Some Methanoperedens have huge extrachromosomal genetic elements (ECEs) called Borgs that may modulate their activity, yet the broader diversity of Methanoperedens ECEs is little studied. Here, we report small enigmatic linear ECEs, circular viruses and unclassified ECEs, that we predict replicate within ...Working Paper -
Borg extrachromosomal elements of methane-oxidizing archaea have conserved and expressed genetic repertoires
(2023)bioRxivBorgs are huge extrachromosomal elements (ECE) of anaerobic methane-consuming “Candidatus Methanoperedens” archaea. Here, we used nanopore sequencing to validate published complete genomes curated from short reads and to reconstruct new genomes. 13 complete and four near-complete linear genomes share 40 genes that define a largely syntenous genome backbone. We use these conserved genes to identify new Borgs from peatland soil and to ...Working Paper -
Children’s Reciprocity and Relationship Formation with a Robot Across Age
(2022)OSF PreprintsReciprocity, responding to another one’s actions with similar actions, is central to the formation and maintenance of relationships. Reciprocity and relationship formation change with children’s development and are key aspects in human-robot interaction. So far, it is unclear how children reciprocate and build a relationship with a social robot and how reciprocity to social robots develops with age. In the current preregistered study, we ...Working Paper -
That Depends – Assessing User Perceptions of Authentication Schemes across Contexts of Use
(2022)arXivChoosing authentication schemes for a specific purpose is challenging for service providers, developers, and researchers. Previous ratings of technical and objective aspects showed that available schemes all have strengths and limitations. Yet, the security of authentication also relies on user perceptions which affect acceptance and user behaviour and can deviate from technical aspects. To shine light on the issue and support researchers, ...Working Paper -
Optimal index insurance and basis risk decomposition: an application to Kenya
(2021)arXivIndex insurance is a promising tool to reduce the risk faced by farmers, but high basis risk, which arises from imperfect correlation between the index and individual farm yields, has limited its adoption to date. Basis risk arises from two fundamental sources: the intrinsic heterogeneity within an insurance zone (zonal risk), and the lack of predictive accuracy of the index (design risk). Whereas previous work has focused almost exclusively ...Working Paper -
A scalable and continuous access to pure cyclic polymers enabled by quarantined heterogeneous catalysts
(2021)ChemRxivCyclic polymers are topologically interesting and envisioned as a lubricant material. However, scalable synthesis of pure cyclic polymers remains elusive. The most straightforward way is to recycle a used catalyst for the synthesis of cyclic polymers. Unfortunately, it is demanding because of the catalysts vulnerability and inseparability from polymers, which depreciates the practicality of the process. Here, we develop a continuous process ...Working Paper -
Digital control of c-di-GMP in E. coli balances population-wide developmental transitions and phage sensitivity
(2021)bioRxivNucleotide-based signaling molecules (NSMs) are widespread in bacteria and eukaryotes, where they control important physiological and behavioral processes. In bacteria, NSM-based regulatory networks are highly complex, entailing large numbers of enzymes involved in the synthesis and degradation of active signaling molecules. How the converging input from multiple enzymes is transformed into robust and unambiguous cellular responses has ...Working Paper -
Long-term incubation of lake water enables genomic sampling of consortia involving Planctomycetes and Candidate Phyla Radiation bacteria
(2021)bioRxivMicrobial communities in lakes can profoundly impact biogeochemical processes through their individual activities and collective interactions. However, the complexity of these communities poses challenges, particularly for studying rare members. Laboratory enrichments can select for subsystems of interacting organisms and enable genome recovery for enriched populations. Here, a reactor inoculated with water from Lake Fargette, France, and ...Working Paper -
The Chloroflexi supergroup is metabolically diverse and representatives have novel genes for non-photosynthesis based CO2 fixation
(2021)bioRxivThe Chloroflexi superphylum have been investigated primarily from the perspective of reductive dehalogenation of toxic compounds, anaerobic photosynthesis and wastewater treatment, but remain relatively little studied compared to their close relatives within the larger Terrabacteria group, including Cyanobacteria, Actinobacteria, and Firmicutes. Here, we conducted a detailed phylogenetic analysis of the phylum Chloroflexota, the ...Working Paper -
Pan-Cancer landscape of protein activities identifies drivers of signalling dysregulation and patient survival
(2021)bioRxivGenetic alterations in cancer cells trigger oncogenic transformation, a process largely mediated by the dysregulation of kinase and transcription factor (TF) activities. While the mutational profiles of thousands of tumours has been extensively characterized, the measurements of protein activities has been technically limited until recently. We compiled public data of matched genomics and (phospho)proteomics measurements for 1,110 tumours ...Working Paper