Comparative Population Analysis of Metallothionein Promoter Alleles Suggests Stress-induced Microevolution in the Field

2008 ◽  
Vol 42 (10) ◽  
pp. 3873-3878 ◽  
Author(s):  
Thierry K. S. Janssens ◽  
Ricardo del Rio Lopéz ◽  
Janine Mariën ◽  
Martijn J. T. N. Timmermans ◽  
K. Montagne-Wajer ◽  
...  
Keyword(s):  
Population Analysis ◽  
Metallothionein Promoter ◽  
Comparative Population

scholarly journals Comparative Population Analysis of Klebsiella pneumoniae Strains with Extended-Spectrum β-Lactamases Colonizing Patients in Rehabilitation Centers in Four Countries

2013 ◽  
Vol 57 (4) ◽  
pp. 1992-1997 ◽  
Author(s):  
A. Baraniak ◽  
R. Izdebski ◽  
J. Fiett ◽  
E. Sadowy ◽  
A. Adler ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Klebsiella Pneumoniae ◽  
Population Analysis ◽  
International Project ◽  
High Genetic Diversity ◽  
Content Type ◽  
Rehabilitation Centers ◽  
Extended Spectrum ◽  
Comparative Population

ABSTRACTThe international project MOSAR was conducted in five rehabilitation centers; patients were screened for rectal carriage of extended-spectrum β-lactamase (ESBL)-producing members of theEnterobacteriaceae. Among 229Klebsiella pneumoniaeisolates, four clonal groups (CG) or complexes (CC) prevailed: CG17 in France, CG101 in Italy, CG15 in Spain, and CC147 in Israel. ESBLs, mainly CTX-Ms, were produced by 226 isolates; three isolates expressed AmpC-like cephalosporinases. High genetic diversity ofK. pneumoniaepopulations was observed, with specific characteristics at each center.

scholarly journals Functional prediction and comparative population analysis of variants in genes for proteases and innate immunity related to SARS-CoV-2 infection

2020 ◽  
Author(s):  
Kristel Klaassen ◽  
Biljana Stankovic ◽  
Branka Zukic ◽  
Nikola Kotur ◽  
Vladimir Gasic ◽  
...  
Keyword(s):  
Innate Immunity ◽  
Sequence Data ◽  
Population Analysis ◽  
South American ◽  
Italian Population ◽  
Allelic Frequencies ◽  
Coding Regions ◽  
Asian Populations ◽  
Genes Encoding ◽  
Comparative Population

AbstractNew coronavirus SARS-CoV-2 is capable to infect humans and cause a novel disease COVID-19. Aiming to understand a host genetic component of COVID-19, we focused on variants in genes encoding proteases and genes involved in innate immunity that could be important for susceptibility and resistance to SARS-CoV-2 infection.Analysis of sequence data of coding regions of FURIN, PLG, PRSS1, TMPRSS11a, MBL2 and OAS1 genes in 143 unrelated individuals from Serbian population identified 22 variants with potential functional effect. In silico analyses (PolyPhen-2, SIFT, MutPred2 and Swiss-Pdb Viewer) predicted that 10 variants could impact the structure and/or function of proteins. These protein-altering variants (p.Gly146Ser in FURIN; p.Arg261His and p.Ala494Val in PLG; p.Asn54Lys in PRSS1; p.Arg52Cys, p.Gly54Asp and p.Gly57Glu in MBL2; p.Arg47Gln, p.Ile99Val and p.Arg130His in OAS1) may have predictive value for inter-individual differences in the response to the SARS-CoV-2 infection.Next, we performed comparative population analysis for the same variants using extracted data from the 1000 genomes project. Population genetic variability was assessed using delta MAF and Fst statistics. Our study pointed to 7 variants in PLG, TMPRSS11a, MBL2 and OAS1 genes with noticeable divergence in allelic frequencies between populations worldwide. Three of them, all in MBL2 gene, were predicted to be damaging, making them the most promising population-specific markers related to SARS-CoV-2 infection.Comparing allelic frequencies between Serbian and other populations, we found that the highest level of genetic divergence related to selected loci was observed with African, followed by East Asian, Central and South American and South Asian populations. When compared with European populations, the highest divergence was observed with Italian population.In conclusion, we identified 4 variants in genes encoding proteases (FURIN, PLG and PRSS1) and 6 in genes involved in the innate immunity (MBL2 and OAS1) that might be relevant for the host response to SARS-CoV-2 infection.

scholarly journals Functional prediction and comparative population analysis of variants in genes for proteases and innate immunity related to SARS-CoV-2 infection

2020 ◽  
Vol 84 ◽  
pp. 104498 ◽  
Author(s):  
Kristel Klaassen ◽  
Biljana Stankovic ◽  
Branka Zukic ◽  
Nikola Kotur ◽  
Vladimir Gasic ◽  
...  
Keyword(s):  
Innate Immunity ◽  
Population Analysis ◽  
Functional Prediction ◽  
Comparative Population

Automated 3-D cell population analysis in thick tissue sections using laser-scanning confocal-microscopy data

1993 ◽  
Vol 51 ◽  
pp. 562-563
Author(s):  
Hakan Ancin
Keyword(s):  
Laser Scanning ◽  
Population Analysis ◽  
Three Dimensional ◽  
Large Data ◽  
Laser Scanning Confocal Microscopy ◽  
Tissue Slices ◽  
Scanning Confocal Microscopy ◽  
Tissue Sections ◽  
Spatially Adaptive ◽  
Microscopy Data

This paper presents methods for performing detailed quantitative automated three dimensional (3-D) analysis of cell populations in thick tissue sections while preserving the relative 3-D locations of cells. Specifically, the method disambiguates overlapping clusters of cells, and accurately measures the volume, 3-D location, and shape parameters for each cell. Finally, the entire population of cells is analyzed to detect patterns and groupings with respect to various combinations of cell properties. All of the above is accomplished with zero subjective bias.In this method, a laser-scanning confocal light microscope (LSCM) is used to collect optical sections through the entire thickness (100 - 500μm) of fluorescently-labelled tissue slices. The acquired stack of optical slices is first subjected to axial deblurring using the expectation maximization (EM) algorithm. The resulting isotropic 3-D image is segmented using a spatially-adaptive Poisson based image segmentation algorithm with region-dependent smoothing parameters. Extracting the voxels that were labelled as "foreground" into an active voxel data structure results in a large data reduction.

Population Analysis of a Commercial Beef Cattle Herd

1985 ◽  
Vol 61 (1) ◽  
pp. 44-54 ◽  
Author(s):  
D. Schons ◽  
W. D. Hohenboken ◽  
J. D. Hall
Keyword(s):  
Beef Cattle ◽  
Population Analysis ◽  
Cattle Herd
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