Multiple effects govern endogenous retrovirus survival patterns in human gene introns

BACKGROUND: Endogenous retroviruses (ERVs) and solitary long terminal repeats (LTRs) have a significant antisense bias when located in gene introns, suggesting strong negative selective pressure on such elements oriented in the same transcriptional direction as the enclosing gene. It has been assumed that this bias reflects the presence of strong transcriptional regulatory signals within LTRs but little work has been done to investigate this phenomenon further. RESULTS: In the analysis reported here, we found significant differences between individual human ERV families in their prevalence within genes and degree of antisense bias and show that, regardless of orientation, ERVs of most families are less likely to be found in introns than in intergenic regions. Examination of density profiles of ERVs across transcriptional units and the transcription signals present in the consensus ERVs suggests the importance of splice acceptor sites, in conjunction with splice donor and polyadenylation signals, as the major targets for selection against most families of ERVs/LTRs. Furthermore, analysis of annotated human mRNA splicing events involving ERV sequence revealed that the relatively young human ERVs (HERVs), HERV9 and HERV-K (HML-2), are involved in no human mRNA splicing events at all when oriented antisense to gene transcription, while elements in the sense direction in transcribed regions show considerable bias for use of strong splice sites. CONCLUSION: Our observations suggest suppression of splicing among young intronic ERVs oriented antisense to gene transcription, which may account for their reduced mutagenicity and higher fixation rate in gene introns

Characteristics of SARS-CoV-2-containing aerosols in hospital corridors

The aim of this work is to investigate the presence of airborne SARS-CoV-2 in corridors of infection wards, and gain more detailed size information of SARS-CoV-2-containing aerosols. Associations between SARS-CoV-2 presence and relative humidity and/or temperature in the facilities is also explored

Multiple effects govern endogenous retrovirus survival patterns in human gene introns

BACKGROUND: Endogenous retroviruses (ERVs) and solitary long terminal repeats (LTRs) have a significant antisense bias when located in gene introns, suggesting strong negative selective pressure on such elements oriented in the same transcriptional direction as the enclosing gene. It has been assumed that this bias reflects the presence of strong transcriptional regulatory signals within LTRs but little work has been done to investigate this phenomenon further. RESULTS: In the analysis reported here, we found significant differences between individual human ERV families in their prevalence within genes and degree of antisense bias and show that, regardless of orientation, ERVs of most families are less likely to be found in introns than in intergenic regions. Examination of density profiles of ERVs across transcriptional units and the transcription signals present in the consensus ERVs suggests the importance of splice acceptor sites, in conjunction with splice donor and polyadenylation signals, as the major targets for selection against most families of ERVs/LTRs. Furthermore, analysis of annotated human mRNA splicing events involving ERV sequence revealed that the relatively young human ERVs (HERVs), HERV9 and HERV-K (HML-2), are involved in no human mRNA splicing events at all when oriented antisense to gene transcription, while elements in the sense direction in transcribed regions show considerable bias for use of strong splice sites. CONCLUSION: Our observations suggest suppression of splicing among young intronic ERVs oriented antisense to gene transcription, which may account for their reduced mutagenicity and higher fixation rate in gene introns

Airborne SARS-CoV-2 RNA collected during childbirth and autopsy

Airborne SARS-CoV-2 is considered to play a major role in covid-19 transmission, and several studies have reported its presence in hospital environments, including corridors, patient rooms, cohort rooms and ICUs (Dinoi et al., 2022). The risk of airborne virus have been associated with a number of factors, such as low ventilation, high patient viral load and in some cases, certain medical procedures.However, specific medical situations still deserve further investigation. One such situation of interest is childbirth, as respiratory emissions, which could contain virus, are increased due to heavy breathing during labor. Another situation with potential risk for airborne SARS-CoV-2 is autopsy.The aim of the current study was to further explore the presence of airborne SARS-CoV-2 RNA during childbirth and autopsy.The results in this study can increase our understanding about the risk of covid-19 transmission by aerosols at delivery wards and during autopsy, even though the sample material is small. Reports of airborne SARS-CoV-2 in hospital environments contribute to improving guidelines for protective equipment for healthcare personnel working with such patients

Longitudinal, size-resolved air sampling of SARS-CoV-2 in hospital corridors and relations to the indoor environment

The aim of this work is to investigate the presence of airborne SARS-CoV-2 in corridors of infection wards, and gain more detailed size information of SARS-CoV-2-containing aerosols. Associations between SARS-CoV-2 presence and relative humidity and/or temperature in the facilities is also explored

SARS-CoV-2 in size-fractionated aerosols from hospital corridors and relations to the indoor environment

The aim of the current study was to evaluate the presence of airborne virus, specifically SARS-CoV-2, in infection ward corridors, and the size distribution of the virus-containing aerosols. Associations between virus presence and relative humidity and/or temperature in the facilities was also investigated