Article
Multidisciplinary Sciences
Ankita Hazarika, Bajanai Nongkhlaw, Arpita Mukhopadhyay
Summary: Selection of suitable and stable reference genes is crucial for reliable normalization of mRNA transcript levels in Type 2 diabetes mellitus (T2DM) patients' Peripheral Blood Mononuclear Cells (PBMCs). This study evaluated the stability of commonly used reference genes in PBMCs from T2DM patients and identified ACTB and YWHAZ as the most stable genes, while GAPDH and PPIB were found to be unstable. Dysregulation of GAPDH in female T2DM patients may be associated with sex-specific differences in T2DM pathogenesis and outcomes.
SCIENTIFIC REPORTS
(2023)
Article
Multidisciplinary Sciences
Manish Tiwari, Monika Sodhi, Preeti Verma, Prince Vivek, Ranjit S. Kataria, Saket K. Niranjan, Vijay K. Bharti, Nampher Masharing, Gayatri Gujar, Divya Chanda, Manishi Mukesh
Summary: This study evaluated the expression stability of 10 candidate reference genes in livestock species adapted to high altitude hypoxia conditions. Different panels of reference genes were identified for each species using various statistical algorithms. The findings of this study are important for understanding the molecular basis of high altitude adaptation in native livestock populations.
SCIENTIFIC REPORTS
(2022)
Article
Multidisciplinary Sciences
Bruno Aristides dos Santos Bronel, Ana Carolina Anauate, Edgar Maquigussa, Mirian Aparecida Boim, Antonio da Silva Novaes
Summary: The aim of this study was to determine the best combination of housekeeping genes (HKGs) for gene expression analysis using reverse transcription-quantitative polymerase chain reaction (RT-PCR) in an in vitro model with mouse mesangial cells (MMCs) stimulated with TGF-beta. Through in silico analysis using six software programs and validation of the HKGs by normalizing the expression levels of fibronectin, vimentin and alpha-SMA, Ppia and Gapdh were identified as the best HKG pair for gene expression analysis in this in vitro model.
SCIENTIFIC REPORTS
(2022)
Article
Biochemical Research Methods
Nirmal Kumar Sampathkumar, Venkat Krishnan SundaramID, Prakroothi S. Danthi, Rasha Barakat, Shiden Solomon, Mrityunjoy Mondal, Ivo Carre, Tatiana El Jalkh, Aida Padilla-Ferrer, Julien Grenier, Charbel Massaad, Jacqueline C. Mitchell
Summary: The choice of reference genes heavily influences the assessment of differential gene expression by qPCR. Recent studies suggest using RNA-Seq to identify stable genes and statistical approaches to determine the best reference genes. However, this study demonstrates that the statistical approach to determine the best reference genes from commonly used candidates is more important than preselecting stable genes from RNA-Seq data.
PLOS COMPUTATIONAL BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Rong Li, Kaiwen Cui, Quanliang Xie, Shuangquan Xie, Xifeng Chen, Lu Zhuo, Aiping Cao, Haitao Shen, Xiang Jin, Fei Wang, Hongbin Li
Summary: This study identified stable reference genes from the transcriptome data of S. pennata, which play important roles in drought stress and development process. These results provide a reliable foundation for further investigations into the genetic responses of plants to abiotic stress.
SCIENTIFIC REPORTS
(2021)
Article
Agronomy
Junliang Yin, Lu Hou, Xinchen Jiang, Jie Yang, Yang He, Xiaokang Zhou, Xiongmeng Zhu, Andong Gong, Yongxing Zhu, Zhongyi Chen
Summary: Alligatorweed is an invasive semiaquatic weed that poses a serious threat to agricultural production and ecological balance. This study identified stable reference genes for gene expression analysis in A. philoxeroides, laying a foundation for further research on gene expression profiling and invasive weed management.
Article
Multidisciplinary Sciences
Tania Martin-Perez, Martina Koehsler, Julia Walochnik
Summary: This study evaluated the expression and stability of six commonly used housekeeping genes in N. gruberi and found significant variations in the stability of reference genes depending on the algorithms and experimental conditions. The geNorm, NormFinder, and RefFinder analysis identified ACT and G6PD as the most stable reference genes, while BestKeeper analysis identified 18S and TBP as the most stable reference genes. Additionally, normalizing the expression of the HSP90 gene with the most stable reference genes resulted in reliable gene expression, while using unstable reference genes led to unreliable results. This study has important implications for gene expression studies in N. gruberi.
SCIENTIFIC REPORTS
(2023)
Article
Plant Sciences
Susan Duncan, Hans E. Johansson, Yiliang Ding
Summary: This study presents a modified protocol for validating reference genes suitable for quantitative single molecule RNA fluorescence in situ hybridization studies in Arabidopsis root apical meristem cells. The authors also propose selection criteria for the first set of Arabidopsis smFISH reference genes. These findings provide a solid foundation for future quantitative single molecule RNA studies.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Plant Sciences
Rohit Bharati, Madhab Kumar Sen, Ram Kumar, Aayushi Gupta, Vishma Pratap Sur, Ingrid Melnikovova, Eloy Fernandez-Cusimamani
Summary: This study evaluated the stability of seven commonly used reference genes in rosemary under different elicitor and stress conditions using RT-qPCR. The combination of F1-ATPase, ATP synthase, and ACCase was recommended for normalizing gene expression experiments in rosemary under in vitro conditions. In addition, reference genes for several plant tissues, elicitors, and stresses were proposed.
Article
Multidisciplinary Sciences
Guo-Hua Wang, Cheng-Cheng Liang, Bing-Zhi Li, Xin-Ze Du, Wen-Zhen Zhang, Gong Cheng, Lin-Sen Zan
Summary: This study assessed the accuracy of sixteen commonly used internal reference genes in skeletal muscle-derived satellite cells of Qinchuan cattle at different stages of proliferation and induction of differentiation, and determined the most suitable gene combinations. The results provide a foundation for selecting reference genes for qRT-PCR during the proliferation and induction of differentiation of bovine skeletal muscle-derived satellite cells.
SCIENTIFIC REPORTS
(2022)
Article
Genetics & Heredity
Preeti Verma, Ankita Sharma, Monika Sodhi, Manish Tiwari, Prince Vivek, Ranjit S. Kataria, S. K. Nirajan, Vijay K. Bharti, Pawan Singh, S. S. Lathwal, Vishal Sharma, Nampher Masharing, Manishi Mukesh
Summary: This study aimed to identify a panel of stably expressed reference genes from peripheral blood mononuclear cells (PBMCs) of cattle populations adapted to cold arid high-altitude hypoxia and hot arid tropical normoxia environments. The stability of 10 candidate genes was evaluated using four statistical algorithms. The results showed that RPS9, RPS15, and GAPDH could be used as reliable reference genes to accurately analyze the transcriptional profile of PBMCs from different altitudes.
FRONTIERS IN GENETICS
(2022)
Article
Multidisciplinary Sciences
Barbara Wrzesinska, Karolina Koscielniak, Patryk Frackowiak, Tadeusz Praczyk, Aleksandra Obrepalska-Steplowska
Summary: The research aimed to identify the most stably expressed reference genes in A. spica-venti plants, crucial for understanding the resistance mechanisms of this plant population to herbicides.
SCIENTIFIC REPORTS
(2021)
Article
Multidisciplinary Sciences
Sylwia Sowa, Magdalena Sozoniuk, Joanna Toporowska, Krzysztof Kowalczyk, Edyta Paczos-Grzeda
Summary: This study evaluated eleven candidate reference genes in Avena sativa during interactions with two different pathotypes of Puccinia coronata f. sp. avenae. Four algorithms were used to identify genes with high expression stability. HNR and EF1A were found to be the most stable genes, while CYP was the least suitable for normalization. This is the first report on reference gene selection in the A. sativa-P. coronata interaction system.
SCIENTIFIC REPORTS
(2022)
Article
Multidisciplinary Sciences
Xiaoxing Yang, Guangxiang Tong, Le Dong, Ting Yan, Huan Xu, Guopan Tang, Yongquan Zhang, Kai Ma, Jiasheng Yin, Youyi Kuang
Summary: This study evaluated the stability of 10 commonly used candidate reference genes in taimen and identified RPS29 and RPL19 as the optimal reference genes for qRT-PCR analysis of gene expression in taimen.
SCIENTIFIC REPORTS
(2022)
Article
Fisheries
Ya-fang Liu, Jian-xin Cheng, Kun-peng Fan, Yu-qing Xia, Zhi-qiang Zhang, Ying Liu, Peng-fei Liu
Summary: This study used different algorithms to select stable reference genes in various tissues of Takifugu rubripes, showing that different algorithms may produce inconsistent results. The most stable reference genes in different tissues under normal and infected conditions were determined, and validation experiments were conducted.
AQUACULTURE RESEARCH
(2021)
Article
Medicine, General & Internal
Antonio Caycedo-Marulanda, Lawrence Lee, Sami A. Chadi, Chris P. Verschoor, Jordan Crosina, Shady Ashamalla, Carl J. Brown
Summary: The study found that transanal TME performed by experienced surgeons had a low incidence of local recurrence and systemic recurrence, suggesting it may be an acceptable approach for rectal cancer management.
Article
Cell Biology
Graham Pawelec, Emilie Picard, Valquiria Bueno, Chris P. Verschoor, Suzanne Ostrand-Rosenberg
Summary: The challenge of distinguishing between changes attributable to ageing and pathology is particularly significant for MDSCs in the immune system. Studies on MDSCs in the context of ageing are influenced by disease and cannot be solely focused on the ageing process itself.
CELLULAR IMMUNOLOGY
(2021)
Article
Gastroenterology & Hepatology
Antonio Caycedo-Marulanda, Chris P. Verschoor, Carl P. Brown, Ahmer Karimuddin, Manoj Raval, Terry Phang, Elena Vikis, George Melich
Summary: This study compares the oncological outcomes of patients undergoing taTME-APR and taTME-LAR procedures and finds inferior outcomes in taTME-APR. The use of this technique for this specific indication needs careful consideration.
COLORECTAL DISEASE
(2022)
Article
Geriatrics & Gerontology
Oxana Mian, Laura N. Anderson, Daniel W. Belsky, Andrea Gonzalez, Jinhui Ma, Deborah M. Sloboda, Dawn M. E. Bowdish, Chris P. Verschoor
Summary: This study found an association between exposure to adverse childhood experiences (ACEs) and frailty in older adults, with different types of ACEs having different impacts and the number of ACEs reported being positively correlated with frailty. The research also indicated that the effect of ACEs on frailty was more pronounced in women and men aged 45-64.
Article
Multidisciplinary Sciences
Jacqueline Lim, Sureka Pavalagantharajah, Chris P. Verschoor, Eric Lentz, Mark Loeb, Mitchell Levine, Marek Smieja, Lawrence Mbuagbaw, Dale Kalina, Jean-Eric Tarride, Tim O'Shea, Anna Cvetkovic, Sarah van Gaalen, Aidan Reid Findlater, Robin Lennox, Carol Bassim, Cynthia Lokker, Elizabeth Alvarez
Summary: This study examines the outcomes of individuals who inject drugs after admission, finding a high rate of hospitalization for infectious diseases. Among various infectious diagnoses, bacteremia, abscess, and endocarditis are the most common. Some patients seek emergency care or readmitted after discharge.
Article
Endocrinology & Metabolism
Oxana Mian, Daniel W. Belsky, Alan A. Cohen, Laura N. Anderson, Andrea Gonzalez, Jinhui Ma, Deborah M. Sloboda, Dawn Me Bowdish, Chris P. Verschoor
Summary: People exposed to adverse childhood experiences have an increased risk of chronic disease, shorter lifespan, accelerated reproductive development, and signs of advanced cellular aging. This suggests that adverse childhood experiences may accelerate biological aging through direct or indirect mechanisms.
PSYCHONEUROENDOCRINOLOGY
(2022)
Article
Geriatrics & Gerontology
Emilie Picard, Sarah Armstrong, Melissa K. Andrew, Laura Haynes, Mark Loeb, Graham Pawelec, George A. Kuchel, Janet E. McElhaney, Chris P. Verschoor
Summary: The study found a significant association between systemic inflammation levels and antibody responses to the seasonal influenza vaccine, particularly in older adults receiving high vaccine doses.
Article
Health Care Sciences & Services
Chris P. Verschoor, Sabit Cakmak, Anna O. Lukina, Robert E. Dales
Summary: In an older adult population, there are several factors correlated with dyspnea, including obesity, lung disease, heart disease, lower income, and depression. These factors have significant independent and combined effects on dyspnea. The relationship between dyspnea and diabetes also requires further investigation.
JOURNAL OF GENERAL INTERNAL MEDICINE
(2022)
Article
Geriatrics & Gerontology
Chris P. Verschoor, Daniel W. Belsky, Melissa K. Andrew, Laura Haynes, Mark Loeb, Graham Pawelec, Janet E. McElhaney, George A. Kuchel
Summary: Biological age was found to be associated with improved antibody responses to influenza vaccination, depending on vaccine dose and cytomegalovirus (CMV) serostatus.
Article
Immunology
Jessica A. Breznik, Angela Huynh, Ali Zhang, Lucas Bilaver, Hina Bhakta, Hannah D. Stacey, Jann C. Ang, Jonathan L. Bramson, Ishac Nazy, Matthew S. Miller, Judah Denburg, Andrew P. Costa, Dawn M. E. Bowdish, Eric D. Brown, Gerry Wright, David C. Bulir, Mark Loeb, Marek Smieja, Aaron Jones, Parminder Raina, Chris Verschoor, Janet E. McElhaney, Kevin Brown, George A. Heckman, John P. Hirdes, Michael P. Hillmer, Ahmad Von Schlegell, Nathan M. Stall, Kevin Stinson, Arthur Sweetman
Summary: Chronic infection with human CMV does not affect antibody levels and quality, as well as cellular memory recall responses, after SARS-CoV-2 mRNA vaccination in older adults. However, CMV seropositivity may alter T cell composition without impeding the durability of humoral protection or cellular memory responses.
JOURNAL OF IMMUNOLOGY
(2022)
Article
Virology
Aisha Nazli, Ryan Chow, Muhammad Atif Zahoor, Samuel Tekeste Workenhe, Tushar Dhawan, Chris Verschoor, Charu Kaushic
Summary: The study shows that HSV-2 is taken up by human vaginal epithelial cells through an endosomal-lysosomal pathway in association with LAMP3, which plays a crucial role in enhancing HSV-2 replication. These findings provide the basis for the future development of antiviral agents for preventive measures against HSV-2 infection.
JOURNAL OF VIROLOGY
(2022)
Article
Geriatrics & Gerontology
Jessica A. Breznik, Ahmad Rahim, Tara Kajaks, Megan Hagerman, Lucas Bilaver, Karen Colwill, Roaya M. Dayam, Anne -Claude Gingras, Chris P. Verschoor, Janet E. McElhaney, Jonathan L. Bramson, Dawn M. E. Bowdish, Andrew P. Costa
Summary: A longitudinal cohort study in nursing and retirement homes in Ontario, Canada, identified vaccine type, number of doses, and recent infection history as important factors for protection against Omicron variant infection in older adults.
JOURNAL OF THE AMERICAN MEDICAL DIRECTORS ASSOCIATION
(2023)
Article
Clinical Neurology
Anna Taddio, Katherine S. McGilton, Nancy Zheng, Lydia Yeung, Benoit Lafleur, Jollee S. T. Fung, Noni E. MacDonald, Melissa K. Andrew, Chris P. Verschoor
Summary: This study evaluated the drivers to implementation for COVID-19 vaccinations in a long-term care facility. The results showed that staff commitment, resource availability, and alignment with external policies were important factors for successful implementation. Future research is recommended to expand the strategies employed and involve residents more directly.
CANADIAN JOURNAL OF PAIN-REVUE CANADIENNE DE LA DOULEUR
(2022)
Article
Medicine, General & Internal
Vincenzo Forgetta, Rui Li, Corinne Darmond-Zwaig, Alexandre Belisle, Cynthia Balion, Delnaz Roshandel, Christina Wolfson, Guillaume Lettre, Guillaume Pare, Andrew D. Paterson, Lauren E. Griffith, Chris Verschoor, Mark Lathrop, Susan Kirkland, Parminder Raina, J. Brent Richards, Jiannis Ragoussis
Summary: The Canadian Longitudinal Study on Aging (CLSA) Comprehensive cohort collected genomic data from 26,622 individuals aged 45-85 to study the genetic and environmental contributions to human disease and aging process. The data revealed novel loci associated with glaucoma and validated the use of polygenic risk score in identifying individuals at high fracture risk. Future studies will focus on genetic factors in cognitive decline and cardiovascular diseases.
Article
Health Care Sciences & Services
Antonio Caycedo-Marulanda, Sunil Patel, Chris P. Verschoor, Sami A. Chadi, Gabriela Moeslein, Manoj Raval, Amy Lightner, Manish Chand, Rosa Jimenez-Rodriguez, Joep Knol, Yasuko Maeda, John R. T. Monson, Steven D. Wexner, Julio Mayol
Summary: The study compared the similarities between Twitter polls and traditional survey methods in describing practice patterns for the treatment of rectal cancer, finding good agreement between the two methods. Polls available via social media may offer a low-cost, efficient, and pragmatic method to describe clinical practice patterns.