Evidence Of Microevolution Research Articles

Evidence of micro-evolution in Crocidura russula from two abandoned heavy metal mines: potential use of Cytb, CYP1A1, and p53 as gene biomarkers

Heavy metals accumulated in the environment due to the mining industry may impact on the health of exposed wild animals with consequences at the population level via survival and selection of the most resistant individuals. The detection and quantification of shifts in gene frequencies or in the genetic structure in populations inhabiting polluted sites may be used as early indicators of environmental stress and reveal potential 'candidate gene biomarkers' for environmental health assessment. We had previously observed that specimens of the Greater white-toothed shrew (Crocidura russula) from two heavy metal mines in Southern Portugal (the Aljustrel and the Preguiça mines) carried physiological alterations compared to shrews from an unpolluted site. Here, we further investigated whether these populations showed genetic differences in genes relevant for physiological homeostasis and/or that are associated with pathways altered in animals living under chronic exposure to pollution, and which could be used as biomarkers. We analysed the mitochondrial cytochrome b (Cytb) gene and intronic and/or exonic regions of four nuclear genes: CYP1A1, LCAT, PRPF31, and p53. We observed (1) population differences in allele frequencies, types of variation, and diversity parameters in the Cytb, CYP1A1, and p53 genes; (2) purifying selection of Cytb in the mine populations; (3) genetic differentiation of the two mine populations from the reference by the p53 gene. Adding to our previous observations with Mus spretus, we provide unequivocal evidence of a population effect exerted by the contaminated environment of the mines on the local species of small mammals.

MICROEVOLUTION OF CANDIDA ALBICANS STRAINS IN OLDER PEOPLE WITH LOW SALIVARY FLOW

Background Populations are aging worldwide, and older people are more likely to take medications and undergo treatment leading to side effects such as salivary gland hypofunction. It is not known how reduced salivary flow in older people affects the Candida albicans strains colonizing the oral cavity. The presence of resistant Candida strains could be debilitating for immunocompromised older people. Objective The aim of this study was to compare C. albicans strains colonizing the mouths of older people with low and normal salivary flow. Methods Participants aged 65 and above (n = 50) were examined, and their salivary flow rates (SFRs) were determined. Swabs and smears of the palate and tongue and saliva samples were collected. Smear products were stained with periodic acid-Schiff (PAS). Yeasts were cultured, quantified, and presumptively identified using CHROMagar Candida agar. Multilocus sequence typing was used to compare C. albicans strains. Results Twenty-four participants had a low SFR ( 400 CFU/mL saliva) (68% vs 38%), presented with more PAS-positive smears (47% vs 19%), and had more C. albicans strains with evidence of microevolution (8 of 12 participants vs 1 of 5 participants) than those with normal salivary flow. Conclusions Increased yeast presence in older people with low salivary flow was confirmed. There was a link between SFR and microevolution of C. albicans. The genetic changes may be because C. albicans is under pressure to adapt to a low-saliva environment.

Whole genome sequencing reveals mycobacterial microevolution among concurrent isolates from sputum and blood in HIV infected TB patients.

BackgroundIn the context of advanced immunosuppression, M. tuberculosis is known to cause detectable mycobacteremia. However, little is known about the intra-patient mycobacterial microevolution and the direction of seeding between the sputum and blood compartments.MethodsFrom a diagnostic study of HIV-infected TB patients, 51 pairs of concurrent blood and sputum M. tuberculosis isolates from the same patient were available. In a previous analysis, we identified a subset with genotypic concordance, based on spoligotyping and 24 locus MIRU-VNTR. These paired isolates with identical genotypes were analyzed by whole genome sequencing and phylogenetic analysis.ResultsOf the 25 concordant pairs (49 % of the 51 paired isolates), 15 (60 %) remained viable for extraction of high quality DNA for whole genome sequencing. Two patient pairs were excluded due to poor quality sequence reads. The median CD4 cell count was 32 (IQR; 16–101)/mm3 and ten (77 %) patients were on ART. No drug resistance mutations were identified in any of the sequences analyzed. Three (23.1 %) of 13 patients had SNPs separating paired isolates from blood and sputum compartments, indicating evidence of microevolution.Using a phylogenetic approach to identify the ancestral compartment, in two (15 %) patients the blood isolate was ancestral to the sputum isolate, in one (8 %) it was the opposite, and ten (77 %) of the pairs were identical.ConclusionsAmong HIV-infected patients with poor cellular immunity, infection with multiple strains of M. tuberculosis was found in half of the patients. In those patients with identical strains, whole genome sequencing indicated that M. tuberculosis intra-patient microevolution does occur in a few patients, yet did not reveal a consistent direction of spread between sputum and blood. This suggests that these compartments are highly connected and potentially seed each other repeatedly.Electronic supplementary materialThe online version of this article (doi:10.1186/s12879-016-1737-2) contains supplementary material, which is available to authorized users.

Multilocus variable-number tandem-repeat analysis of Neisseria meningitidis serogroup C in China.

This study characterized Neisseria meningitidis serogroup C strains in China in order to establish their genetic relatedness and describe the use of multilocus variable-number tandem-repeat (VNTR) analysis (MLVA) to provide useful epidemiological information. A total of 215 N. meningitidis serogroup C strains, obtained from 2003 to 2012 in China, were characterized by MLVA with different published schemes as well as multilocus sequence typing. (i) Based on the MLVA scheme with a combination of five highly variable loci, 203 genotypes were identified; this level of discrimination supports its use for resolving closely related isolates. (ii) Based on a combination of ten low variable loci, clear phylogenetic relationships were established within sequence type complexes. In addition, there was evidence of microevolution of VNTR loci over the decade as strain lineages spread from Anhui to other provinces, the more distant the provinces from Anhui, the higher the genetic variation.

Bergmann's rule and climate change revisited: Disentangling environmental and genetic responses in a wild bird population

Ecological responses to on-going climate change are numerous, diverse, and taxonomically widespread. However, with one exception, the relative roles of phenotypic plasticity and microevolution as mechanisms in explaining these responses are largely unknown. Several recent studies have uncovered evidence for temporal declines in mean body sizes of birds and mammals, and these responses have been interpreted as evidence for microevolution in the context of Bergmann's rule-an ecogeographic rule predicting an inverse correlation between temperature and mean body size in endothermic animals. We used a dataset of individually marked red-billed gulls (Larus novaehollandiae scopulinus) from New Zealand to document phenotypic and genetic changes in mean body mass over a 47-year (1958-2004) period. We found that, whereas the mean body mass had decreased over time as ambient temperatures increased, analyses of breeding values estimated with an "animal model" approach showed no evidence for any genetic change. These results indicate that the frequently observed climate-change-related responses in mean body size of animal populations might be due to phenotypic plasticity, rather than to genetic microevolutionary responses.

Evidence of microevolution in an escaped pear population

A population of 87 wild pears (Pyrus communis L.) of fruiting age, growing in a relatively homogeneous old field environment, was found to be highly variable, with coefficients of variation up to 40%. Generally, variability was greater in size than in meristic characters, in meristic characters than in shape characters, and floral traits were less variable than vegetative. Tree trunk core samples showed the population to have been founded circa 1905 to 1908, by three trees. Establishment of progeny began about 19 years later. The population is high in 1975 and still expanding logarithmically. Numerical taxonomic clustering techniques using morphological characters showed the population to contain two very diverse groups. Trees of both groups are of all age classes and are distributed randomly over the site. Trees phenetically like and unlike the oldest trees were analysed as to growth rates. Those trees similar to the oldest trees were significantly slower in growth rate than trees that were morphologically dissimilar. This suggests that natural selection is operating to remove the less fit genotype from the population.