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Supplementary tables for "A comprehensive, flexible collection of SARS-CoV-2 coding regions"

Leanne Betasamosake Simpson is a renowned Michi Saagiig Nishnaabeg musician, writer and academic, who has been widely recognized as one of the most compelling Indigenous voices of her generation. Her work breaks open the boundaries between story and song—bringing audiences into a rich and layered world of sound, light, and sovereign creativity. Leanne has performed in venues and festivals across Canada with her sister singer songwriter Ansley Simpson and guitarist Nick Ferrio. Leanne’s second album, f(l)light, was released in 2016 and is a haunting collection of story-songs that effortlessly interweave Simpson’s complex poetics and multi-layered stories of the land, spirit, and body with lush acoustic and electronic arrangements. Her EP Noopiming Sessions combines readings from her novel Noopiming with soundscapes composed and performed by Ansley Simpson and James Bunton with a gorgeous video by Sammy Chien and the Chimerik Collective. It was produced during the on-going social isolation of COVID-19 and was released on Gizhiiwe Music in the Fall of 2020. Leanne is the author of seven books, including This Accident of Being Lost, which won the MacEwan University Book of the Year; was a finalist for the Rogers Writers’ Trust Fiction Prize and the Trillium Book Award; was long listed for CBC Canada Reads; and was named a best book of the year by the Globe and Mail, the National Post, and Quill & Quire. Her new novel Noopiming: The Cure for White Ladies was released by the House of Anansi Press in the fall of 2020 and in the US by the University of Minnesota Press in 2021 and was named one of the Globe and Mail’s best books of the year and was short listed for the Governor General’s Literary Award for fiction. A Short History of the Blockade was released by the University of Alberta Press in early 2021. Her new project with Robyn Maynard,Rehearsals for Living will be released in 2022 by Knopf Canada. Her newest record, Theory Of Ice was released by You’ve Changed Records in the winter of 2021, and features the artistic brilliance of Ansley Simpson, Nick Ferrio, Jim Bryson, John K. Samson, Jonas Bonnetta and Sandra Brewster.

Using D-B primers to detect SARS-COV-2 virus in nasopharyngeal samples using fast conditions. (A) cDNAs from reverse-transcribed RNA extracted from nasopharyngeal swabs of 3 patients (S1, S2, S3) as well as SARS-COV-2 synthetic RNA “N” were subjected to qPCR using primer mix #8 and VIC-TqM probe #12 and TqM fast kit+ UDG. Ct values: Patient S1- 20.44, patient S2- 21.26, patient S3- 21.38, synthetic RNA- 25.78, NYC- 37.63. (B) one-tube RT-qPCR using template RNA extracted from nasopharyngeal swabs of positive patient S2 as well as SARS-COV-2 synthetic RNA “N”, TqM fast kit without UDG and iScript reverse-transcriptase. Insert- 1.5% agarose gel: lane 1- 100 bp ladder; lane 2- SARS-COV-2 synthetic RNA “N”. lane 3- RNA extracted from nasopharyngeal swabs of patient S2. Ct- values: Patient S1- 23.47, synthetic RNA- 27.36, NTC- undetermined.

Additional file 1: Table S1. List of candidate genes examined in the current study. Table S2. Results obtained from the sex-based expression analysis performed on the autosomal genes (segregated by tissues). Table S3. Results obtained from the sex-based expression analysis performed on the X-linked genes (segregated by tissues). Table S4. Results obtained from the sex-based DNA methylation analysis performed on the autosomal genes (segregated by tissues). Table S5. Results obtained from the sex-based DNA methylation analysis performed on the X-linked genes (segregated by tissues). Table S6. Results obtained from the exposure-based DNA methylation analysis performed on the autosomal genes (segregated by tissues).

An infographic describing the results of the following study published in the Canadian Journal of Public Health: "Older adults living in social housing in Canada: the next COVID-19 hotspot?" Older adults in social housing have high rates of chronic diseases and live in clustered housing, creating the ideal situation for a tragic outbreak in this vulnerable population, which has been largely unrecognized in the public health discourse. It is estimated that two thirds of this population have cardiometabolic conditions that put them at higher risk of poor outcomes from COVID-19. In addition, their social isolation, low mobility, low health literacy, and limited internet access are barriers to accessing basic needs, health information, and health care in a Canadian context where many services have moved to virtual platforms. Since older adults in social housing tend to be clustered in apartment buildings with shared facilities, there is an increased risk of exposure through common spaces (e.g., elevator, laundry room) and high-touch surfaces. Compared to long-term care homes, there is substantial movement in and out of social housing buildings as residents are required to go out to meet their basic needs and individuals providing support enter the buildings without screening (e.g., personal support workers, volunteers delivering groceries). Without a targeted public health strategy to support this vulnerable population, we surmise that social housing will be the next COVID-19 hotspot.

Additional file 3 Figure S1: Number of tested participants and cumulative number of tested participants over time.

Efficiency of D-B primers in detecting SARS-COV-2 virus in nasopharyngeal swabs. cDNA of reverse-transcribed RNA extracted from nasopharyngeal swabs of patient S1 underwent 3 decimal dilutions and subjected to qPCR with SYBR green kit+ UDG and D-B primer mix #8. (A) amplification plot and insert efficiency plot of Ct vs log dilution. Slope= -3.2942 representing 101.27% amplification efficiency and R2= 0.9934. (B) melt curve of the amplicons depicted in panel A. Ct dilution values: 100- 25.55, 10-1- 28.38, 10-2- 32.14, NTC- 39.48. qPCR was performed under standard conditions.

Supplemental Material, sj-r-1-jbd-10.1177_01650254211031631 for Solutions for latent growth modeling following COVID-19-related discontinuities in change and disruptions in longitudinal data collection by Charlie Rioux, Zachary L. Stickley and Todd D. Little in International Journal of Behavioral Development