Changes in DNA methylation and transgenerational mobilization of a transposable element (mPing) by the topoisomerase II inhibitor, etoposide, in rice

ABSTRACT: BACKGROUND: Etoposide (epipodophyllotoxin) is a chemical commonly used as an anti-cancer drug which inhibits DNA synthesis by blocking topoisomerase II activity. Previous studies in animal cells have demonstrated that etoposide constitutes a genotoxic stress which may induce genomic instability including mobilization of normally quiescent transposable elements (TEs). However, it remained unknown whether similar genetically mutagenic effects could be imposed by etoposide in plant cells. Also, no information is available with regard to whether the drug may cause a perturbation of epigenetic stability in any organism. RESULTS: To investigate whether etoposide could generate genetic and/or epigenetic instability in plant cells, we applied etoposide to germinating seeds of six cultivated rice (Oryza sativa L.) genotypes including both subspecies, japonica and indica. Based on the methylation-sensitive gel-blotting results, epigenetic changes in DNA methylation of three TEs (Tos17, Osr23 and Osr36) and two protein-encoding genes (Homeobox and CDPK-related genes) were detected in the etoposide-treated plants (S0 generation) in four of the six studied japonica cultivars, Nipponbare, RZ1, RZ2, and RZ35, but not in the rest japonica cultivar (Matsumae) and the indica cultivar (93-11). DNA methylation changes in the etoposide-treated S0 rice plants were validated by bisulfite sequencing at both of two analyzed loci (Tos17 and Osr36). Transpositional activity was tested for eight TEs endogenous to the rice genome in both the S0 plants and their selfed progenies (S1 and S2) of one of the cultivars, RZ1, which manifested heritable phenotypic variations. Results indicated that no transposition occurred in the etoposide-treated S0 plants for any of the TEs. Nonetheless, a MITE transposon, mPing, showed rampant mobilization in the S1 and S2 progenies descended from the drug-treated S0 plants. CONCLUSIONS: Our results demonstrate that etoposide imposes a similar genotoxic stress on plant cells as it does on animal and human cells, which may induce transgenerational genomic instability by instigating transpositional activation of otherwise dormant TEs. In addition, we show for the first time that etoposide may induce epigenetic instability in the form of altered DNA methylation patterns in eukaryotes. However, penetration of the genotoxic effects of etoposide on plant cells, as being reflected as genetic and epigenetic instability, appears to be in a strictly genotype- and/or generation-dependent manner.     

A tale of two cyclists: a cross-cultural comparison between Taiwanese and Filipino perceptions on cycling infrastructure landscapes

How is cycling culture defined? Because the word “culture” brings with it deep complexities, there is a need to understand varying contexts in looking for suitable strategies toward the advancement of cycling culture. The stage for cycling culture is the landscape where cycling infrastructure can be properly provided. With development, an influential element would be economic capacity. The paper explores the influence of the economic development divide by comparing cyclist perception between developed and developing countries, namely Taiwan and the Philippines. An online survey between 122 Taiwanese and 111 Filipino cyclists was conducted to find out the landscape needs of people to consider cycling transport based on affordances in the landscape. The variables selected were based on landscape elements for cycling as a commuting activity. The data were processed through factor analysis to reveal latent landscape needs to profile cycling needs. Two factors were identified as ‘environmental’ and ‘civil facilities.’ The factor loadings were then compared based on the nationalities which revealed that the bike riding motivation were different with relating to the context of their respective environment and similar with the basic infrastructural demands.

     

Mensurations échographiques de la thyroïde chez des enfants de zéro à 15 ans de la ville de Ouagadougou

Among the methods used to carry out measurements of thyroid, echography is the best because it is noninvasive and more specific. The goals of this study were to determine the normal thyroid volume of the Burkinabe child; to study the parameters which induce a variation of thyroid volume and to compare our values with those from other localities. Through a cross-sectional study, 240 children from the town of Ouagadougou benefited from a thyroid echography. Thus the height (h), the transverse diameter (dt) and the thickness (e) were measured. Volume (vl) of each lobe was estimated by: vl = h × dt × e × 3.14/6. The total volume (VT) is the sum of the volumes of each lobe, the isthmus being neglected. A correlation set at the threshold p < 0.001 has been carried out between VT and some anthropometric parameters. The following averages were observed: before one year, the average volume is of 0.51 L ± 0.21; from one to three years, it is of 0.95 mL ± 0.33; from four to six years, the average volume is of 1.35 mL ± 0.43; from seven to nine years, it is of 1.95 mL ± 0.62. From 10 to 12 years, the average volume is of 3.01 mL ± 1.08 and it is of 5.32 mL ± 2.07 from 13 to 15 years. It stands out that the VT is positively associated with the age (r = 0.82), with the size (r = 0.73), with the weight (r = 0.81) and with body surface (r = 0.78). Moreover, the VT is higher among boys than in girls beyond one year of age. This parameter varies according to the area of origin. Lastly, compared with the American, European and Asian averages, our values are smaller. This study enabled us to establish our own standards which we will be able from now on to use in daily practice. However, multicentric studies associated with thyroid and sexual hormones blood levels measurements must be undertaken to ascertain these data.     

Relationship between rate of gluconeogenesis and content of nicotinamide adenine dinucleotide in renal cortex

Gluconeogenesis in rat renal cortex was measured using tissue slices incubated with or without appropriate substrates. Immediately after incubation the tissue slices were snap-frozen and the content of oxidized nicotinamide adenine dinucleotide (NAD⁺) was determined. Incubation with 10 mM α-ketoglutarate or L-glutamate led to enhanced glucose production and an increase in tissue content of NAD⁺. Quinolinate and 3-mercaptopicolinate inhibited the rate of gluconeogenesis from L-glutamate and α-ketoglutarate respectively, and decreased the tissue levels of NAD⁺. The enhanced rate of gluconeogenesis was associated with an increase of NAD⁺ in the cytosol fraction (10⁵ × g supernatant) but not in the particulate fraction (10⁵ × g pellet) of renal cortex homogenate. Present results indicate that NAD⁺ content changes in parallel with the rate of gluconeogenesis in renal cortical tissue.     

Ungulate bocaparvovirus 4 and rodent bocavirus are different genotypes of the same species of virus

Bocaviruses are associated with many human infectious diseases, such as respiratory tract infections, gastroenteritis, and hepatitis. Rats are known to be reservoirs of bocaviruses, including rodent bocavirus and rat bocavirus. Recently, ungulate bocaparvovirus 4, a known porcine bocavirus, has also been found in rats. Thus, investigating bocaviruses in rats is important for determining the origin of the viruses and preventing and controlling their transmission. To the best of our knowledge, no study to date has investigated bocaviruses in the livers of rats. In this report, a total of 624 rats were trapped in southern China between 2014 and 2017. Liver and serum samples from rats were tested for the prevalence of bocaviruses using PCR. Sequences related to ungulate bocaparvovirus 4 and rodent bocavirus were detected in both liver and serum samples. Interestingly, the prevalence of ungulate bocaparvovirus 4 (reference strain:KJ622366.1) was higher than that of rodent bocavirus (reference strain:KY927868.1) in both liver (2.24% and 0.64%, respectively) and serum samples (2.19% and 0.44%, respectively). The NS1 regions of ungulate bocaparvovirus 4 and rodent bocavirus related sequences displayed over 84% and 88% identity at the nucleic acid and amino acid levels, respectively. Furthermore, these sequences had similar genomic structure, genomic features, and codon usage bias, and shared a common ancestor. These viruses also displayed greater adaptability to rats than pigs. Our results suggested that ungulate bocaparvovirus 4 and rodent bocavirus may originate from rats and may be different genotypes of the same bocavirus species.