Time-course RNASeq of Camponotus floridanus forager and nurse ant brains indicate links between plasticity in the biological clock and behavioral division of labor DOI Creative Commons
Biplabendu Das, Charissa de Bekker

BMC Genomics, Journal Year: 2022, Volume and Issue: 23(1)

Published: Jan. 15, 2022

Circadian clocks allow organisms to anticipate daily fluctuations in their environment by driving rhythms physiology and behavior. Inter-organismal differences rhythms, called chronotypes, exist can shift with age. In ants, age, caste-related behavior chronotype appear be linked. Brood-tending nurse ants are usually younger individuals show "around-the-clock" activity. With age or the absence of brood, nurses transition into foraging that Ants adaptively between these behavioral castes caste-associated chronotypes depending on social context. We investigated how changes gene expression could contributing such plasticity Camponotus floridanus carpenter combining time-course assays RNA-Sequencing forager brains.We found brains have three times fewer 24 h oscillating genes than foragers. However, several hundred oscillated every showed robust 8 oscillations nurses, including core clock Period Shaggy. These differentially rhythmic consisted components circadian entrainment output pathway, said involved regulating insect locomotory also Vitellogenin, known regulate division labor insects, but not Finally, we significant overlap expressed two ant ultradian expression.This study provides a first look at chronobiological brains. This endeavor allowed us identify putative molecular mechanism underlying plastic timekeeping: its seemingly oscillate different harmonics rhythm. propose has evolved for distinct regulatory networks underlie castes, while supporting swift caste transitions response colony demands. Behavioral is common among insects. The links C. floridanus, thus, likely represent more general phenomenon warrants further investigation.

Language: Английский

Circadian Proteomic Analysis Uncovers Mechanisms of Post-Transcriptional Regulation in Metabolic Pathways DOI Creative Commons
Jennifer Hurley, Meaghan S. Jankowski, Hannah De los Santos

et al.

Cell Systems, Journal Year: 2018, Volume and Issue: 7(6), P. 613 - 626.e5

Published: Dec. 1, 2018

Language: Английский

Citations

101
High-fat diet disrupts REG3γ and gut microbial rhythms promoting metabolic dysfunction DOI Creative Commons
Katya Frazier,

Amal Kambal,

Elizabeth Zale

et al.

Cell Host & Microbe, Journal Year: 2022, Volume and Issue: 30(6), P. 809 - 823.e6

Published: April 18, 2022

Language: Английский

Citations

66
Circadian clocks are modulated by compartmentalized oscillating translation DOI Creative Commons

Yanrong Zhuang,

Zhiyuan Li,

Shiyue Xiong

et al.

Cell, Journal Year: 2023, Volume and Issue: 186(15), P. 3245 - 3260.e23

Published: June 26, 2023

Language: Английский

Citations

38
Time-restricted feeding promotes muscle function through purine cycle and AMPK signaling in Drosophila obesity models DOI Creative Commons

Christopher Livelo,

Yiming Guo, Farah Abou Daya

et al.

Nature Communications, Journal Year: 2023, Volume and Issue: 14(1)

Published: Feb. 21, 2023

Abstract Obesity caused by genetic and environmental factors can lead to compromised skeletal muscle function. Time-restricted feeding (TRF) has been shown prevent function decline from obesogenic challenges; however, its mechanism remains unclear. Here we demonstrate that TRF upregulates genes involved in glycine production ( Sardh CG5955 ) utilization Gnmt ), while Dgat2 , triglyceride synthesis is downregulated Drosophila models of diet- genetic-induced obesity. Muscle-specific knockdown dysfunction, ectopic lipid accumulation, loss TRF-mediated benefits, retains during aging reduces accumulation. Further analyses the purine cycle a diet-induced obesity model AMPK signaling-associated pathways model. Overall, our data suggest improves through modulations common distinct under different challenges provides potential targets for treatments.

Language: Английский

Citations

23
Autonomous circadian rhythms in the human hepatocyte regulate hepatic drug metabolism and inflammatory responses DOI Creative Commons
Sandra March, Niketa Nerurkar, Anisha Jain

et al.

Science Advances, Journal Year: 2024, Volume and Issue: 10(17)

Published: April 24, 2024

Critical aspects of physiology and cell function exhibit self-sustained ~24-hour variations termed circadian rhythms. In the liver, rhythms play fundamental roles in maintaining organ homeostasis. Here, we established characterized an vitro liver experimental system which primary human hepatocytes display oscillations. By generating gene expression profiles these over time, demonstrated that their transcriptional state is dynamic across 24 hours identified a set cycling genes with functions related to inflammation, drug metabolism, energy We designed tested treatment protocol minimize atorvastatin- acetaminophen-induced hepatotoxicity. Last, documented circadian-dependent induction pro-inflammatory cytokines when triggered by LPS, IFN-β, or

Language: Английский

Citations

14
Chronodisruption that dampens output of the central clock abolishes rhythms in metabolome profiles and elevates acylcarnitine levels in the liver of female rats DOI Creative Commons

Shiyana Arora,

Pavel Houdek,

Tomáš Čajka

et al.

Acta Physiologica, Journal Year: 2025, Volume and Issue: 241(2)

Published: Jan. 13, 2025

Exposure to light at night and meal time misaligned with the light/dark (LD) cycle-typical features of daily life in modern 24/7 society-are associated negative effects on health. To understand mechanism, we developed a novel protocol complex chronodisruption (CD) which exposed female rats four weekly cycles consisting 5-day intervals constant 2-day food access restricted phase 12:12 LD cycle. We examined CD behavior, estrous cycle, sleep patterns, glucose homeostasis profiles clock- metabolism-related gene expression (using RT qPCR) liver metabolome lipidome untargeted metabolomic lipidomic profiling). attenuated rhythmic output central clock suprachiasmatic nucleus via Prok2 signaling, thereby disrupting locomotor activity, mutual relationship between peripheral clocks. In periphery, abolished Per1,2 rhythms tissues (liver, pancreas, colon) worsened homeostasis. liver, it impaired NAD+, lipid, cholesterol metabolism genes most high-amplitude lipids polar metabolites. Interestingly, circadian rhythm Cpt1a increased levels long-chain acylcarnitines (ACar 18:2, ACar 16:0), indicating enhanced fatty acid oxidation mitochondria. Our data show widespread point ACars as biomarkers for due feeding patterns.

Language: Английский

Citations

1
Circatidal control of gene expression in the deep-sea hot vent shrimp Rimicaris leurokolos DOI
Hongyin Zhang, Takuya Yahagi, Norio Miyamoto

et al.

Proceedings of the Royal Society B Biological Sciences, Journal Year: 2025, Volume and Issue: 292(2040)

Published: Feb. 1, 2025

Biological clocks are a ubiquitous feature of all life, enabling the use natural environmental cycles to track time. Although studies on circadian rhythms have contributed greatly knowledge chronobiology, biological in dark biospheres such as deep sea remain poorly understood. Here, based free-running experiment laboratory, we reveal potentially endogenous gene expression deep-sea hydrothermal vent shrimp Rimicaris leurokolos . Oscillations with approximately 12 h periods, probably reflecting tidal influence, prevail over others temporal transcriptome, indicating R. depends circatidal clock consisting at least some components independent from clocks. The transcripts exhibit an antiphased pattern divided into two internally synchronized clusters, correlated wide-ranging processes that occur nucleus and cytoplasm, respectively. In addition, showed great similarities genes fruit flies mice exhibiting ultradian rhythms, tide had broad impact evolution oscillations found across Metazoa. These findings not only provide new insights adaptations organisms but also highlight intriguing models for chronobiological studies, particularly those linked rhythms.

Language: Английский

Citations

1
Pharmacological targeting of BMAL1 modulates circadian and immune pathways DOI Creative Commons
Hua Pu, Laura C. Bailey, Ludwig G. Bauer

et al.

Nature Chemical Biology, Journal Year: 2025, Volume and Issue: unknown

Published: March 25, 2025

Language: Английский

Citations

1
LimoRhyde: A Flexible Approach for Differential Analysis of Rhythmic Transcriptome Data DOI Creative Commons

Jordan M. Singer,

Jacob Hughey

Journal of Biological Rhythms, Journal Year: 2018, Volume and Issue: 34(1), P. 5 - 18

Published: Nov. 25, 2018

Unraveling the effects of genetic or environmental perturbations on biological rhythms requires detecting changes in rhythmicity across multiple conditions. Although methods to detect genome-scale data are well established, average expression between experimental conditions often ad hoc and statistically unreliable. Here we present LimoRhyde (linear models for rhythmicity, design), a flexible approach analyzing transcriptome from circadian systems. Borrowing cosinor regression, decomposes zeitgeber time into components fit linear model each gene. The can accommodate any number additional variables, whether discrete continuous, making it straightforward differential using state-of-the-art microarray RNA-seq data. In this approach, corresponds statistical interaction an variable time, whereas main effect while accounting time. To validate LimoRhyde’s performance, applied simulated demonstrate versatility, murine human datasets acquired under various designs. Our results show how systematizes analysis such data, suggest that could prove valuable assessing systems respond perturbations.

Language: Английский

Citations

81
CosinorPy: a python package for cosinor-based rhythmometry DOI Creative Commons
Miha Moškon

BMC Bioinformatics, Journal Year: 2020, Volume and Issue: 21(1)

Published: Oct. 29, 2020

Even though several computational methods for rhythmicity detection and analysis of biological data have been proposed in recent years, classical trigonometric regression based on cosinor still has advantages over these is widely used. Different software packages cosinor-based rhythmometry exist, but lack certain functionalities require different, non-unified input formats.We present CosinorPy, a Python implementation analysis. CosinorPy merges extends the existing packages. It supports rhythmic using single- or multi-component models, automatic selection best model, population-mean regression, differential assessment. Moreover, it implements functions that can be used design experiments, synthetic generator, import export different formats.CosinorPy an easy-to-use package straightforward requiring minimal statistical knowledge, produces publication-ready figures. Its code, examples, documentation are available to download from https://github.com/mmoskon/CosinorPy . installed manually by pip, manager The reported this paper corresponds release v1.1.

Language: Английский

Citations

70