Clock genes and their ohnologues observed as cycling by Kendall’s rank correlation coefficient in JTK_CYCLE.

• Main Authors: Mariann Eilertsen (11502317), David W. P. Dolan (14247792), Charlotte M. Bolton (11780345), Rita Karlsen (13025421), Wayne I. L. Davies (8028890), Rolf B. Edvardsen (6913946), Tomasz Furmanek (283506), Harald Sveier (8218770), Herve Migaud (308426), Jon Vidar Helvik (8028887)
• Format: Still Image
• Language: unknown
• Published: 2022
• Subjects: Microbiology; Cell Biology; Genetics; Molecular Biology; Neuroscience; Physiology; Ecology; Developmental Biology; Inorganic Chemistry; Mental Health; Environmental Sciences not elsewhere classified; Biological Sciences not elsewhere classified; salmo salar </; atlantic salmon (<; complex photoreceptive system; photoperiod </ p; div >< p; early developmental stages; two clock genes; several clock genes; differing light conditions; developing teleost prior; circadian profile showed; different light conditions; constant white light; constant conditions; circadian profile; clock genes; white light; light conditions; constant light; significantly different; results showed; present prior; photoreceptive capacity; developmental series; expressed early; early development; light environment; light condition; green light; many genes; genes related; genes associated; transcriptomic response; transcriptome profile; study implies; significantly cycling; seasonal changes; poorly differentiated; Atlantic salmon; Salmo salar
• Online Access: https://doi.org/10.1371/journal.pgen.1010529.g002

A, C, E, G) The normalized counts for the circadian series under light-dark of medium intensity of white light (LDM) conditions plotted as standard deviation. B, D, F, H) Boxplots of all light conditions at 18:00 and 02:00 at 690 dd, where outliers are indicated by red asterisks and the median is shown as a line inside each box. A and C) The two nr1d4b genes showed a similar expression pattern through circadian sampling. E and G) The genes arntl2b and arntl2c showed a similar trend but only arntl2b showed a decrease in expression at dark phase (02:00). B and D) For both nr1d4b genes, expression was lower at 02:00 compared to 18:00 in LDM and light-dark of red (LDR). Statistically significant differences were confirmed by conducting Wald test in DESeq2, where downregulation was significant in LDM for both genes and in LDR for nr1d4b . 1 . F and H) Validated by DESeq2, arntl2c was significantly upregulated during light phase (18:00) in all light conditions compared to continuous darkness (DD).