Recent studies on the heritability of methylation patterns in tumor cells, suggest that tumor heterogeneity and progression can be studied through methylation changes. To elucidate methylation-based evolution trajectories in tumors, we introduce a novel computational framework for methylation phylogeny reconstruction, leveraging single cell bisulfite treated whole genome sequencing data (scBS-seq), additionally incorporating copy number information inferred independently from matched single cell RNA sequencing (scRNA-seq) data, when available. Our framework consists of three components: (i) noise-minimizing site selection, (ii) likelihood-based sequencing error correction, and (iii) pairwise expected distance calculation for cells, all designed to mitigate the effect of noise and uncertainty due to data sparsity commonly observed in scBS-seq data. We validate our approach with the scBS-seq data of multi-regionally sampled colorectal cancer cells, and demonstrate that the cell lineages constructed by our method strongly correlate with original sampling regions. Additionally, we show that the constructed phylogeny can be used to impute missing entries, which, in turn, may help reduce sparsity issues in scBS-seq data sets. Contact: cenk.sahinalp@nih.gov

Industrial control systems control and supervise our most important and critical infrastructures, such as power utilities, clean water plants and nuclear plants, as well as the manufacturing industries at the base of our economy. These systems are currently undergoing a transformation driven by the Industry 4.0 evolution, characterized by increased connectivity and flexibility. Consequently, the cybersecurity threat landscape for industrial control systems is evolving as well. Current strategies used for access control within industrial control systems are relatively rudimentary. It is evident that some of the emerging cybersecurity threats related to Industry 4.0 could be better mitigated using more fine-grained access control policies. In this article we discuss and describe a number of access control strategies that could be used within manufacturing systems. We evaluate the strategies in a simulation experiment, using a number of attack-scenarios. Moreover, a method is outlined for automatic policy-generation based on engineering-data, which is aligned with one of the best performing strategies.

Abstract This paper describes influences of heat input on geometry of GMAW fillet welds of unalloyed steel with thicknesses of 8 mm. Welding current and speed are varied, as parameters influencing heat input, while weld size, reinforcement, penetration, dilution and weld asymmetry are considered as geometry properties. All of them are obtained through measurements on macro-sections. Influence of heat input on geometry is presented through the model based on regression analysis.

This paper presents new records and noteworthy data on the following taxa in SE Europe and adjacent regions: cyanobacteria Anagnostidinema amphibium, mycorrhizal fungus Tricholoma frondosae, stonewort Chara connivens, mosses Dicranum polysetum and Ulota intermedia, and dicots Eclipta prostrata, Paeonia daurica subsp. daurica, Ruta graveolens and Sorbus bosniaca.

Irritable bowel syndrome (IBS) is a functional gut brain gastrointestinal (GI) disorder, typically accompanied by constipation or diarrhea, usually without any organic evidence. The prevalence of IBS is rather high of about 10-15% (10, 1 % according to Rome III and 4, 1% according to Rome IV, Enck P. et al 2016, Sperber A.D. et al 2020, Black C.J. et al 2020) in the working population. Quality of life in patients with IBS is reduced and therefore a major obstacle to the normal physical and social wellbeing. In intensified clinical research worldwide new pathogenic mechanisms of IBS are suggested, including intestinal dysbiois one of the critical contributing factors to onset or further development of IBS. Intestinal microbiome represents a real ecosystem of microorganisms and human GI tract lining cells. The diversity and composition of the GI microbiome may differ significantly inter- and intra-individually, depending on sex, age or physiological conditions (pregnancy, disease, etc). Intestinal microbiome composition frequently changes in association with IBS symptoms, and the purpose of this study was to investigate if there is a clear relationship in microbial composition and relative abundance of microbial taxa in feces of persons diagnosed with IBS. Fecal microbiota profiling was done in a group of nine clinically confirmed IBS patients and 6 corresponding healthy controls, based on species specific 16s RNA gene. No statistically significant differences in Alpha and Beta diversity indices were found.

This paper presents major gaps and challenges for implementing the UN Decade of Ocean Science for Sustainable Development (2021-2030) in the Mediterranean region. The authors make recommendations on the scientific knowledge needs and co-design actions identified during two consultations, part of the Decade preparatory-phase, framing them in the Mediterranean Sea’s unique environmental and socio-economic perspectives. According to the ‘Mediterranean State of the Environment and Development Report 2020’ by the United Nations Environment Programme Mediterranean Action Plan and despite notable progress, the Mediterranean region is not on track to achieve and fully implement the Sustainable Development Goals of Agenda 2030. Key factors are the cumulative effect of multiple human-induced pressures that threaten the ecosystem resources and services in the global change scenario. The basin, identified as a climate change vulnerability hotspot, is exposed to pollution and rising impacts of climate change. This affects mainly the coastal zones, at increasing risk of extreme events and their negative effects of unsustainable management of key economic assets. Transitioning to a sustainable blue economy is the key for the marine environment’s health and the nourishment of future generations. This challenging context, offering the opportunity of enhancing the knowledge to define science-based measures as well as narrowing the gaps between the Northen and Southern shores, calls for a joint (re)action. The paper reviews the state of the art of Mediterranean Sea science knowledge, sets of trends, capacity development needs, specific challenges, and recommendations for each Decade’s societal outcome. In the conclusions, the proposal for a Mediterranean regional programme in the framework of the Ocean Decade is addressed. The core objective relies on integrating and improving the existing ocean-knowledge, Ocean Literacy, and ocean observing capacities building on international cooperation to reach the “Mediterranean Sea that we want”.