AIMC Topic: Phylogeny
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Towards better prediction of Mycobacterium tuberculosis lineages from MIRU-VNTR data.
Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases
Jun 28, 2018
The determination of lineages from strain-based molecular genotyping information is an important problem in tuberculosis. Mycobacterial interspersed repetitive unit-variable number tandem repeat (MIRU-VNTR) typing is a commonly used molecular genotyp...
Machine learning identifies signatures of host adaptation in the bacterial pathogen Salmonella enterica.
PLoS genetics
May 8, 2018
Emerging pathogens are a major threat to public health, however understanding how pathogens adapt to new niches remains a challenge. New methods are urgently required to provide functional insights into pathogens from the massive genomic data sets no...
Prevalence and genotypes of Giardia lamblia from stray dogs and cats in Guangdong, China.
Veterinary parasitology, regional studies and reports
Apr 3, 2018
Giardia lamblia is a worldwide zoonotic intestinal parasite that infects humans and a wide range of mammals including dogs and cats, causing giardiasis with diarrhea. To investigate the infection and distribution of G. lamblia genotypes from stray do...
Phylogenetic convolutional neural networks in metagenomics.
BMC bioinformatics
Mar 8, 2018
BACKGROUND: Convolutional Neural Networks can be effectively used only when data are endowed with an intrinsic concept of neighbourhood in the input space, as is the case of pixels in images. We introduce here Ph-CNN, a novel deep learning architectu...
Molecular identification and in vitro antifungal susceptibility of Scedosporium complex isolates from high-human-activity sites in Mexico.
Mycologia
Mar 1, 2018
The genus Scedosporium is a complex of ubiquitous moulds associated with a wide spectrum of clinical entities, with high mortality principally in immunocompromised hosts. Ecology of these microorganisms has been studied performing isolations from env...
PlaNC-TE: a comprehensive knowledgebase of non-coding RNAs and transposable elements in plants.
Database : the journal of biological databases and curation
Jan 1, 2018
Transposable elements (TEs) play an essential role in the genetic variability of eukaryotic species. In plants, they may comprise up to 90% of the total genome. Non-coding RNAs (ncRNAs) are known to control gene expression and regulation. Although th...
Abundance and Species Diversity of Fungi in Rivers with Various Contaminations.
Current microbiology
Dec 30, 2017
The main objective of this work was to determine the abundance and species diversity of fungi in the waters of selected rivers of Central Europe, NE Poland (Augustów Lakeland), differing in size, physical and chemical properties, and streamflow rate....
The first two mitochondrial genomes from Taeniopterygidae (Insecta: Plecoptera): Structural features and phylogenetic implications.
International journal of biological macromolecules
Dec 29, 2017
The complete mitochondrial genomes (mitogenomes) of Taeniopteryx ugola and Doddsia occidentalis (Plecoptera: Taeniopterygidae) were firstly sequenced from the family Taeniopterygidae. The 15,353-bp long mitogenome of T. ugola and the 16,020-bp long m...
Species composition of and fumonisin production by the Fusarium fujikuroi species complex isolated from Korean cereals.
International journal of food microbiology
Dec 13, 2017
To assess the risk of fumonisin contamination in Korean cereals, we isolated colonies of the Fusarium fujikuroi species complex (FFSC) from barley, maize, rice and soybean samples from 2011 to 2015. A total of 878 FFSC strains were isolated mostly fr...
What Is the most Important for Elite Control: Genetic Background of Patient, Genetic Background of Partner, both or neither? Description of Complete Natural History within a Couple of MSM.
EBioMedicine
Dec 7, 2017
BACKGROUND: We describe a homosexual man who strongly controlled HIV-1 for ten years despite lack of protective genetic background.
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