Results 31 to 40 of about 1,282 (176)
Nature Methods, 2023 Abstract Pangenome graphs can represent all variation between multiple reference genomes, but current approaches to build them exclude complex sequences or are based upon a single reference. In response, we developed the PanGenome Graph Builder (PGGB), a pipeline for constructing pangenome graphs without bias or exclusion. PGGB uses all-
Erik Garrison +29 more
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Pangenomic genotyping with the marker array
Algorithms for Molecular Biology, 2022 Abstract We present a new method and software tool called rowbowt that applies a pangenome index to the problem of inferring genotypes from short-read sequencing data. The method uses a novel indexing structure called the marker array.
Taher Mun +2 more
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Frontiers in Microbiology, 2023 Terrestrial hydrothermal springs and aquifers are excellent sites to study microbial biogeography because of their high physicochemical heterogeneity across relatively limited geographic regions.
Ömer K. Coskun +8 more
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Mechanisms That Shape Microbial Pangenomes [PDF]
Trends in Microbiology, 2021 Analyses of multiple whole-genome sequences from the same species have revealed that differences in gene content can be substantial, particularly in prokaryotes. Such variation has led to the recognition of pangenomes, the complete set of genes present in a species - consisting of core genes, present in all individuals, and accessory genes whose ...
Domingo-Sananes, MR, McInerney, JO
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mBio, 2018 Diverse bacterial and archaeal lineages drive biogeochemical cycles in the global ocean, but the evolutionary processes that have shaped their genomic properties and physiological capabilities remain obscure.
Eric W. Getz +3 more
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, 2020 This open access book offers the first comprehensive account of the pan-genome concept and its manifold implications. The realization that the genetic repertoire of a biological species always encompasses more than the genome of each individual is one of the earliest examples of big data in biology that opened biology to the unbounded.
Tettelin, Hervé, Medini, Duccio
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Frontiers in Microbiology, 2019 Dimethylsulfide is a volatile organic sulfur compound that provides the largest input of biogenic sulfur from the oceans to the atmosphere, and thence back to land, constituting an important link in the global sulfur cycle.
Eileen Kröber, Hendrik Schäfer
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Estimating Pangenomes with Roary [PDF]
Molecular Biology and Evolution, 2019 Abstract A description of the genetic makeup of a species based on a single genome is often insufficient because it ignores the variability in gene repertoire among multiple strains. The estimation of the pangenome of a species is a solution to this issue as it provides an overview of genes that are shared by all strains and genes that ...
Sitto, Farrah, Battistuzzi, Fabia U
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Frontiers in Microbiology, 2023 Serpentinization reactions produce highly reduced waters that have hyperalkaline pH and that can have high concentrations of H2 and CH4. Putatively autotrophic methanogenic archaea have been identified in the subsurface waters of the Samail Ophiolite ...
Patrick H. Thieringer +3 more
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Evaluating the Mechanism of Cell Death in Melanoma Induced by the Cannabis Extract PHEC-66
CellsResearch suggests the potential of using cannabinoid-derived compounds to function as anticancer agents against melanoma cells. Our recent study highlighted the remarkable in vitro anticancer effects of PHEC-66, an extract from Cannabis sativa, on the ...
Ava Bachari +5 more
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