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2017, Nature microbiology
2020 •
Nature genetics
Genomic features of bacterial adaptation to plants2018 •
Plants intimately associate with diverse bacteria. Plant-associated bacteria have ostensibly evolved genes that enable them to adapt to plant environments. However, the identities of such genes are mostly unknown, and their functions are poorly characterized. We sequenced 484 genomes of bacterial isolates from roots of Brassicaceae, poplar, and maize. We then compared 3,837 bacterial genomes to identify thousands of plant-associated gene clusters. Genomes of plant-associated bacteria encode more carbohydrate metabolism functions and fewer mobile elements than related non-plant-associated genomes do. We experimentally validated candidates from two sets of plant-associated genes: one involved in plant colonization, and the other serving in microbe-microbe competition between plant-associated bacteria. We also identified 64 plant-associated protein domains that potentially mimic plant domains; some are shared with plant-associated fungi and oomycetes. This work expands the genome-based...
Frontiers in Cellular and Infection Microbiology
Microbiotyping the Sinonasal Microbiome2010 •
Frontiers in Microbiology
Bioprospecting and Structure of Fungal Endophyte Communities Found in the Brazilian Biomes, Pantanal, and CerradoNature Microbiology
Unique mobile elements and scalable gene flow at the prokaryote–eukaryote boundary revealed by circularized Asgard archaea genomes2022 •
Eukaryotic genomes are known to have garnered innovations from both archaeal and bacterial domains but the sequence of events that led to the complex gene repertoire of eukaryotes is largely unresolved. Here, through the enrichment of hydrothermal vent microorganisms, we recovered two circularized genomes of Heimdallarchaeum species that belong to an Asgard archaea clade phylogenetically closest to eukaryotes. These genomes reveal diverse mobile elements, including an integrative viral genome that bidirectionally replicates in a circular form and aloposons, transposons that encode the 5,000 amino acid-sized proteins Otus and Ephialtes. Heimdallaechaeal mobile elements have garnered various genes from bacteria and bacteriophages, likely playing a role in shuffling functions across domains. The number of archaea- and bacteria-related genes follow strikingly different scaling laws in Asgard archaea, exhibiting a genome size-dependent ratio and a functional division resembling the bacte...
2017 •
Frontiers in Microbiology
Applications of Machine Learning in Human Microbiome Studies: A Review on Feature Selection, Biomarker Identification, Disease Prediction and TreatmentThe number of microbiome-related studies has notably increased the availability of data on human microbiome composition and function. These studies provide the essential material to deeply explore host-microbiome associations and their relation to the development and progression of various complex diseases. Improved data-analytical tools are needed to exploit all information from these biological datasets, taking into account the peculiarities of microbiome data, i.e., compositional, heterogeneous and sparse nature of these datasets. The possibility of predicting host-phenotypes based on taxonomy-informed feature selection to establish an association between microbiome and predict disease states is beneficial for personalized medicine. In this regard, machine learning (ML) provides new insights into the development of models that can be used to predict outputs, such as classification and prediction in microbiology, infer host phenotypes to predict diseases and use microbial communit...
ABSTRACTThe unambiguous application of fungal names is important to communicate scientific findings. Names are critical for (clinical) diagnostics, legal compliance, and regulatory controls, such as biosafety, food security, quarantine regulations, and industrial applications. Consequently, the stability of the taxonomic system and the traceability of nomenclatural changes is crucial for a broad range of users and taxonomists. The unambiguous application of names is assured by the preservation of nomenclatural history and the physical organisms representing a name. Fungi are extremely diverse in terms of ecology, lifestyle, and methods of study. Predominantly unicellular fungi known as yeasts are usually investigated as living cultures. Methods to characterize yeasts include physiological (growth) tests and experiments to induce a sexual morph; both methods require viable cultures. Thus, the preservation and availability of viable reference cultures are important, and cultures repre...
Humans have relied on sourdough starter microbial communities to make leavened bread for thousands of years, but only a small fraction of global sourdough biodiversity has been characterized. Working with a community-scientist network of bread bakers, we determined the microbial diversity of 500 sourdough starters from four continents. In sharp contrast with widespread assumptions, we found little evidence for biogeographic patterns in starter communities. Strong co-occurrence patterns observed in situ and recreated in vitro demonstrate that microbial interactions shape sourdough community structure. Variation in dough rise rates and aromas were largely explained by acetic acid bacteria, a mostly overlooked group of sourdough microbes. Our study reveals the extent of microbial diversity in an ancient fermented food across diverse cultural and geographic backgrounds.
EGOS Colloquium, Lyon 5-7th July 2001.
Beyond and between nihilism and social hope- Stumbling on the edge of a positive postmodernity2001 •
The Mills Archive Trust
The London Millwrights: Masters and Journeymen in the Late 18th and Early 19th Centuries2018 •
2016 •
Journal of Transportation Engineering, Part A: Systems
Goal-Oriented Analysis of Transportation System Performance: A Corridor-Level Study of Georgia’s State Routes2017 •
Journal of Consulting and Clinical Psychology
Positive Association of Child Involvement and Treatment Outcome Within a Manual-Based Cognitive-Behavioral Treatment for Children With Anxiety2004 •
Advances in Difference Equations
Oscillatory Solutions for Second-Order Difference Equations in Hilbert Spaces2007 •
Vision Research
Endogenous attention selection during binocular rivalry at early stages of visual processing2009 •
Frontiers in behavioral neuroscience
Effects of psychotropic agents on extinction of lever-press avoidance in a rat model of anxiety vulnerability2014 •
2021 •
Virtual and Augmented Reality (VR/AR)
Introduction to Virtual and Augmented Reality2022 •
Applied and Environmental Microbiology
Soil Fungal Cellobiohydrolase I Gene ( cbhI ) Composition and Expression in a Loblolly Pine Plantation under Conditions of Elevated Atmospheric CO 2 and Nitrogen Fertilization2012 •
Working paper series
Waiting lists, waiting times and admissions: an empirical analysis at hospital and general practice level2004 •
Acta Histochemica
Functional morphology of pituitary -thyroid and -adrenocortical axes in middle-aged male rats treated with Vitex agnus castus essential oil2016 •
Progress on Chemistry and Application of Chitin and its Derivatives
Effect of Ionic and Covalent Crosslinking of Hydrogel Chitosan Beads on the Adsorption Efficiency of Basic Violet 10 and Basic Green 4 Dyes from Aqueous Solutions2023 •
Cognitive Remediation Journal
EEG biofeedback in patients with schizophrenia: another possibility to influence cognitive deficit?2016 •
Journal of the College of Physicians and Surgeons--Pakistan : JCPSP
Familial homocystinuria2005 •
Research Square (Research Square)
Motivational Determinants of Physical Activity in Disadvantaged Populations with (Pre)Diabetes: A Cross-Cultural Comparison2021 •
Audiology - Communication Research
Análise da qualidade vocal antes e após o uso profissional e social da voz2014 •