Comparative transcriptomics across photoperiod in the Siberian hamster and Japanese quail brains
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ABSTRACT:
PROVIDER: PRJNA1279196 | ENA |
REPOSITORIES: ENA
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Project description:Seasonal morphological brain plasticity plays a key role in driving adaptive behavioural responses. Structural changes in the brain including the hippocampus and amygdala (nucleus taeniae in birds), across photoperiods are thought to underlie seasonal shifts in emotional state. For humans, this includes manifestations of short photoperiod seasonal affective disorder (SAD). While morphological brain changes are well documented, the associated transcriptomic dynamics remain poorly understood. Here, we examined the transcriptomes of the hippocampus and amygdala or nucleus taeniae in two highly photoperiodic species, the Siberian hamster (Phodopus sungorus) and the Japanese quail (Coturnix japonica), to identify transcriptomic changes underpinning seasonal shifts in emotional state. Hamsters and quail exhibited robust physiological changes between long and short photoperiod treatment. Under short photoperiod, hamsters displayed anxiety-like behaviour (increased grooming) in the open field test, consistent with a SAD-like phenotype. Transcriptomic analysis of the amygdala in hamsters identified 76 significantly differentially expressed (DE) transcripts (including transthyretin, TTR) and prolactin receptor, PRLR as differentially expressed, but not significantly. In the quail nucleus taeniae, we found 54 DE transcripts (including tenascin-C, TNC). In the hamster hippocampus, 14 DE transcripts were found, including mahogunin ring finger-1 (MGRN1), and 31 in the quail hippocampus, including eyes absent-2 (Eya2). These findings provide novel insights into the transcriptomic mechanisms underpinning seasonal affective states and suggest conserved roles for prolactin and thyroid hormone signalling in mediating seasonal changes in physiology and affective behaviour, particularly in the Siberian hamster.
2025-06-23 | GSE300190 | GEO
Project description:The mechanism(s) involved in the regulation of the seasonal-appropriate body weight of the Siberian hamster is currently unknown. We have identified photoperiodically regulated genes including VGF in a sub-region of the arcuate nucleus termed the dorsomedial posterior arcuate (dmpARC). Gene expression changes in this nucleus so far account for a significant number of those reported as photoperiodically regulated and are therefore likely to contribute to seasonal physiological responses of the hamsters. The present study was conducted to identify additional genes expressed in the dmpARC regulated by photoperiod that could be involved in regulating the activity of this nucleus with respect to seasonal physiology of the Siberian hamster. Using laser capture microdissection coupled with a microarray analysis and a candidate gene approach, we have identified in the dmpARC several photoperiodically regulated genes that are known to have roles in secretory and intracellular signaling pathways. These include secretogranin III (SgIII) and SgVI (secretory pathway), melanocortin 3 receptor (MC3-R) and serotonin (5-HT) receptors 2A and 7 (signaling pathway), all of which increase in expression in short photoperiod. The spatial relationship between receptor signaling and potential secretory pathways was investigated by dual in situ hybridization, which revealed that 5-HT2A and 5-HT7 receptors are expressed in neurons expressing VGF mRNA and that a sub-population (approximately 40%) of these neurons express MC3-R. These gene expression changes in dmpARC neurons may reflect the functional requirement of these neurons for seasonal physiology responses of the hamster Samples were taken from 10 individual animals, 5 of which had lived under a short day (SD) photoperiod, the other 5 under a long day (LD) photoperiod. Each hybridisation compared a LD sample (labelled with Cy5) with a SD sample (labelled with Cy3).
2010-05-15 | E-GEOD-10278 | biostudies-arrayexpress
Project description:The mechanism(s) involved in the regulation of the seasonal-appropriate body weight of the Siberian hamster is currently unknown. We have identified photoperiodically regulated genes including VGF in a sub-region of the arcuate nucleus termed the dorsomedial posterior arcuate (dmpARC). Gene expression changes in this nucleus so far account for a significant number of those reported as photoperiodically regulated and are therefore likely to contribute to seasonal physiological responses of the hamsters. The present study was conducted to identify additional genes expressed in the dmpARC regulated by photoperiod that could be involved in regulating the activity of this nucleus with respect to seasonal physiology of the Siberian hamster. Using laser capture microdissection coupled with a microarray analysis and a candidate gene approach, we have identified in the dmpARC several photoperiodically regulated genes that are known to have roles in secretory and intracellular signaling pathways. These include secretogranin III (SgIII) and SgVI (secretory pathway), melanocortin 3 receptor (MC3-R) and serotonin (5-HT) receptors 2A and 7 (signaling pathway), all of which increase in expression in short photoperiod. The spatial relationship between receptor signaling and potential secretory pathways was investigated by dual in situ hybridization, which revealed that 5-HT2A and 5-HT7 receptors are expressed in neurons expressing VGF mRNA and that a sub-population (approximately 40%) of these neurons express MC3-R. These gene expression changes in dmpARC neurons may reflect the functional requirement of these neurons for seasonal physiology responses of the hamster
2008-11-29 | GSE10278 | GEO
Project description:Since Japanese quail and chicken belong to the same order Galliforms, DNA sequence of both species are highly conserved and proved to be applicable for various analyses each other. Quail are commonly used to address physiological questions for reasons of economy. To test whether chicken microarrays are useful to quail samples, we compared hybridization signals of chicken and quail genomic DNA on Affymetrix chicken genome array. Keywords: comparative genomic hybridization
2008-03-11 | GSE8016 | GEO
Project description:Since Japanese quail and chicken belong to the same order Galliforms, DNA sequence of both species are highly conserved and proved to be applicable for various analyses each other. Quail are commonly used to address physiological questions for reasons of economy. To test whether chicken microarrays are useful to quail samples, we compared hybridization signals of chicken and quail genomic DNA on Affymetrix chicken genome array. Experiment Overall Design: Genomic DNA of female chicken and quail were extracted individually from liver of three birds and hybridized on Affymetrix microarrays. Samples were analyzed in triplicate set of array (three biological replicates).
2008-11-06 | E-GEOD-8016 | biostudies-arrayexpress
Project description:To understand molecular mechanism of stripe patterning in the embryonic skin of Japanese quail, we compared gene expression profile between black stripe and yelllow stripe by using RNA seq method. Most of differential expression genes were known pigmentation-related genes, but some are unknown role in pigment pattern formation.
2019-02-23 | GSE119008 | GEO
Project description:In this study, we used RNA-seq to identify differences in gene expression patterns in ovarian follicles of female Japanese quail (Coturnix coturnix japonica) that produce large versus small eggs relative to their body size. A high quality reference genome is currently under construction by the Quail Genome Consortium (BioProject ID: PRJNA292031).
2015-10-11 | E-MTAB-3945 | biostudies-arrayexpress
Project description:A genome-wide association study was performed on ovaries from Siberian hamsters raised in either long or short photoperiod. Few differences between long and short photoperiod were noted at 3 wk of age, when ovarian histology was identical, whereas many differences in gene expression were noted at 8 wk of age, when ovarian histologies were markedly different.
2013-09-14 | GSE50869 | GEO
Project description:Annual cycles in daylength provide an initial predictive environmental cue that plants and animals use to time seasonal biology. Seasonal changes in photoperiodic information acts to entrain endogenous programs in physiology to optimize an animal’s fitness. Attempts to identify the neural and molecular substrates of photoperiodic time measurement in birds have, to date, focussed on blunt changes in light exposure during a restricted period of photoinducibility. The objectives of these studies were first to characterise a molecular seasonal clock in Japanese quail and second, to identify the key transcripts involved in endogenously generated interval timing that underlies photosensitivity in birds. We hypothesized that the mediobasal hypothalamus (MBH) provides the neuroendocrine control of photoperiod-induced changes in reproductive physiology, and that the pars distalis of the pituitary gland contains an endogenous internal timer for the short photoperiod dependent development of reproductive photosensitivity. Here we report distinct seasonal waveforms of transcript expression in the MBH, and pituitary gland and discovered the patterns were not synchronized across tissues. Follicle-stimulating hormone-β (FSHβ) expression increased during the simulated spring equinox, prior to photoinduced increases in prolactin, thyrotropin-stimulating hormone-β and testicular growth. Diurnal analyses of transcript expression showed sustained elevated levels of FSHβ under conditions of the spring equinox, compared to autumnal equinox, short (<12L) and long (>12L) photoperiods. FSHβ expression increased in quail held in non-stimulatory short photoperiod, indicative of the initiation of an endogenously programmed interval timer. These data identify that FSHβ establishes a state of photosensitivity for the external coincidence timing of seasonal physiology. The independent regulation of FSHβ expression provides an alternative pathway through which other supplementary environmental cues, such as temperature, can fine tune seasonal reproductive maturation and involution.
2023-09-04 | GSE241774 | GEO
Project description:Annual cycles in daylength provide an initial predictive environmental cue that plants and animals use to time seasonal biology. Seasonal changes in photoperiodic information acts to entrain endogenous programs in physiology to optimize an animal’s fitness. Attempts to identify the neural and molecular substrates of photoperiodic time measurement in birds have, to date, focussed on blunt changes in light exposure during a restricted period of photoinducibility. The objectives of these studies were first to characterise a molecular seasonal clock in Japanese quail and second, to identify the key transcripts involved in endogenously generated interval timing that underlies photosensitivity in birds. We hypothesized that the mediobasal hypothalamus (MBH) provides the neuroendocrine control of photoperiod-induced changes in reproductive physiology, and that the pars distalis of the pituitary gland contains an endogenous internal timer for the short photoperiod dependent development of reproductive photosensitivity. Here we report distinct seasonal waveforms of transcript expression in the MBH, and pituitary gland and discovered the patterns were not synchronized across tissues. Follicle-stimulating hormone-β (FSHβ) expression increased during the simulated spring equinox, prior to photoinduced increases in prolactin, thyrotropin-stimulating hormone-β and testicular growth. Diurnal analyses of transcript expression showed sustained elevated levels of FSHβ under conditions of the spring equinox, compared to autumnal equinox, short (<12L) and long (>12L) photoperiods. FSHβ expression increased in quail held in non-stimulatory short photoperiod, indicative of the initiation of an endogenously programmed interval timer. These data identify that FSHβ establishes a state of photosensitivity for the external coincidence timing of seasonal physiology. The independent regulation of FSHβ expression provides an alternative pathway through which other supplementary environmental cues, such as temperature, can fine tune seasonal reproductive maturation and involution.
2023-09-04 | GSE241772 | GEO