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phyloDB: A framework for large-scale phylogenetic analysis of sequence based typing data

SoftwareX
PHYLODB is a modular and extensible framework for large-scale phylogenetic analyses of sequence based typing data, which are essential for understanding epidemics evolution. It relies on the Neo4j graph database for data storage and processing, providing
Bruno Lourenço, Cátia Vaz, Miguel E. Coimbra, Alexandre P. Francisco   +3 more
doaj   +1 more source

Relapsing–Remitting Multiple Sclerosis Is Associated With a Dysbiotic Oral Microbiome

Annals of Clinical and Translational Neurology, EarlyView.
ABSTRACT Objective Multiple sclerosis (MS) is a chronic autoimmune disorder characterized by inflammation, demyelination, and neurological impairment. While the gut microbiota's role in MS is extensively studied, the association between the oral microbiota and MS remains underexplored, particularly in North American cohorts.
Sukirth M. Ganesan, Meeta Yadav, Sudeep Ghimire, Peter C. Lehman, Apurva J. Patel, Sydney Woods, Heena Olalde, Jemmie Hoang, Mishelle Paullus, Catherine Cherwin, Christine Gill, Tracey Cho, Ashutosh K. Mangalam   +12 more
wiley   +1 more source

Natural selection and phylogenetic analysis [PDF]

Proceedings of the National Academy of Sciences, 2009
If Darwin were to survey the entirety of the biological sciences today, he would be pleased to observe how central phylogenies and “tree thinking” are to integrative research (1). Biologists of all stripes now realize that phylogenies are not exotic, but fundamental and routine tools for understanding not only history but mechanism, organization, and ...
openaire   +3 more sources

Consolidate Overview of Ribonucleic Acid Molecular Dynamics: From Molecular Movements to Material Innovations

Advanced Engineering Materials, EarlyView.
Molecular dynamics simulations are advancing the study of ribonucleic acid (RNA) and RNA‐conjugated molecules. These developments include improvements in force fields, long‐timescale dynamics, and coarse‐grained models, addressing limitations and refining methods.
Kanchan Yadav, Iksoo Jang, Jong Bum Lee
wiley   +1 more source

The plastid genome of a spice plants Cinnamomum glanduliferum in Tibet (Lauraceae)

Mitochondrial DNA. Part B. Resources, 2019
Cinnamomum glanduliferum (Wall) Meissn is a commercially important timber tree and wild spice plants of the genus Cinnamomum Trew in the family Lauraceae.
Guanfei Zhao, Jie Yang, Xilong Wang, Yu Song, Rongjie Zhu   +4 more
doaj   +1 more source

Analysis of the genomic homologous recombination in Theilovirus based on complete genomes

Virology Journal, 2011
At present, Theilovirus is considered to comprise four distinct serotypes, including Theiler's murine encephalomyelitis virus, Vilyuisk human encephalomyelitis virus, Thera virus, and Saffold virus.
Yi Maoli, Zhang Xiaodan, Sun Guangming, Shao Shihe, Zhang Wen   +4 more
doaj   +1 more source

Recombinant Proteins: A Molecular Tool to Understand Marine Adhesion and to Advance Biomaterials

Advanced Healthcare Materials, EarlyView.
The production of recombinant proteins represents a fundamental step in the characterisation of marine invertebrate adhesives and in the development of bio‐inspired glues. The association of these proteins with other components such as ions, proteins, polysaccharides, or polymers enables the fabrication of biomaterials for various healthcare ...
Alessandra Whaite, Emilie Duthoo, Mathilde Lefevre, Elise Hennebert, Patrick Flammang   +4 more
wiley   +1 more source

The complete mitochondrial genome of Ilyonectria sp. (Hypocreales: Hypocreomycetidae)

Mitochondrial DNA. Part B. Resources, 2019
In the present study, we presented the complete mitochondrial genome (mitogenome) of Ilyonectria sp. The complete mitogenome of Ilypnectria sp. was composed of circular DNA molecules, with a total length of 34, 584 bp.
Mei Yang, Qiang Li, Cheng Chen, Wenli Huang, Chengyi Liu   +4 more
doaj   +1 more source

Phylogenetic Characterization of the Palyam Serogroup Orbiviruses

Viruses, 2019
The Palyam serogroup orbiviruses are associated with abortion and teratogenesis in cattle and other ruminants. Of the 13 different serotypes that have been identified, the full genome sequence of only one, Kasba, has been published.
Karen Ebersohn, Peter Coetzee, Louwrens P. Snyman, Robert Swanepoel, Estelle H. Venter   +4 more
doaj   +1 more source

Smart Sampling Capsule for Capture and Detection of Enteric Pathogens in the Small Intestine

Advanced Materials Technologies, EarlyView.
An ingestible smart sampling capsule for capturing asymptomatic enteric pathogens at their primary sites of interaction within the small intestine. This capability enables non‐invasive detection of early pathogen colonization within the gut environment prior to fecal shedding, providing a robust approach for pathogen surveillance and microbiome studies.
Akshay Krishnakumar, Devendra Sarnaik, Nicholas L. F. Gallina, Robyn R. McCain, Christa Crain, Arun K. Bhunia, Rahim Rahimi   +6 more
wiley   +1 more source