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Biology subjects

Barak, S.

Publications and source records attributed to Barak, S..

11 recordsLinked to original sources

Decadal warming is linked to thermal tolerance and transcriptome reprogramming in a seagrass

Ocean warming and marine heatwaves threaten seagrasses, which are considered highly vulnerable to rising temperatures. We compared thermal stress responses of the tropical seagrass Halophila stipulacea collected from the Gulf of Aqaba in 2017 and 2022. Under mesocosm-applied thermal stress, 2017 plants showed reduced growth, impaired photochemistry, and extensive transcriptomic changes. In contrast, 2022 plants maintained normal growth and photochemistry with minimal transcriptional responses. The enhanced thermal stress tolerance of 2022 plants was associated with a "stress-ready" transcriptome, with many stress-response genes already up/downregulated under control conditions. These changes coincided with local ocean warming and a shift from episodic to chronic thermal stress. Our findings provide the first longitudinal dataset in a seagrass that tracks physiological and molecular changes occurring concurrently with documented ocean warming.

plant biology↗

Transcriptome responses of two Halophila stipulacea seagrass populations from pristine and impacted habitats, to single and combined thermal and excess nutrient stressors, reveal local adaptive features and core stress-response genes

In their natural habitats, seagrasses face multiple abiotic stressors, which can often occur simultaneously. However, most studies investigating the effects of environmental stressors on seagrasses have focused on growth and physiological responses to single stressors. Here, we examined the transcriptome responses of the tropical seagrass Halophila stipulacea collected from a northern Gulf of Aqaba pristine site (South Beach - SB) and an anthropogenically-impacted site (Tur Yam - TY), grown in a mesocosm, and exposed to ecologically-relevant, single and combined, thermal and excess nutrient stressors. The combined thermal and nutrient stressor elicited greater transcriptome reprogramming than the single stressors in both populations and induced the expression of a combination-specific set of genes involved in abiotic and biotic stress responses. Furthermore, thermal stress exerted a more dominant influence than excess nutrient stress upon the transcriptome response to the combined stress. Transcriptomes of plants from the impacted TY site displayed reduced plasticity, the presence of genes exhibiting a "stress-ready" mode of expression under all stresses, and increased resilience (recovery to control transcriptomes). We also identified core stress-response genes that could be leveraged as early indicators of stress in the field. Overall, our data suggest that environmental conditions in seagrass habitats can drive local molecular adaptation, and that the response of seagrasses to combined stressors associated with climate change and coastal anthropogenic stressors cannot be predicted from the response to single stressors.

plant biology↗

Chemoproteomic profiling of serine hydrolases reveals the dynamic role of lipases in Phaeodactylum tricornutum

Phaeodactylum tricornutum is a model oleaginous pennate diatom, widely investigated for the accumulation of triacylglycerols (TAG) in lipid droplets during nitrogen (N) starvation. However, lipid droplet breakdown, TAG catabolism, and remobilization upon N replenishment during growth restoration are less studied. Serine hydrolases (SH) constitute a diverse family encompassing proteases, amidases, esterases, and lipases. In this report, we adopted a chemoproteomic approach called Activity-Based Protein Profiling (ABPP) to explore the repertoire of active serine hydrolases to elucidate the mechanisms of lipid metabolism in P. tricornutum (strain Pt4). A superfamily-wide profile of serine hydrolases revealed a differentially active proteome (activome) during N starvation and after nutrient replenishment. We report 30 active serine hydrolases, which were broadly categorized into metabolic serine hydrolases and serine proteases. Lipases appeared to be the major metabolic linchpins prevalent during lipid remobilization. Global transcriptomics analysis provided a complementary insight into the gene expression level of the detected serine hydrolases. It revealed putative phospholipases as central players in membrane lipid turnover and remodeling involved in cellular lipid homeostasis and TAG accumulation. TAG remobilization and lipid droplet breakdown were impaired in the presence of phenyl mercuric acetate (PMA), whose activity as an SH inhibitor was validated by competitive ABPP. Lipid species profiling corroborated the impairment in TAG degradation and the buildup of structural lipids in the presence of PMA after nutrient replenishment. Collectively, our functional proteome approach, coupled with the transcriptome and lipidome data, provides a comprehensive landscape of bona fide active serine hydrolases, including lipases in this model diatom.

biochemistry↗

Transcriptional analysis of neuronal ensembles of alcohol memories within the nucleus accumbens

Alcohol-associated memories play an important role in relapse in alcohol use disorder. Disrupting these memories, which become labile upon retrieval, through interference with their reconsolidation process, could reduce relapse. Memories are thought to be encoded within specific patterns of sparsely distributed neurons, called neuronal ensembles. Here, we explored the role of neuronal ensembles in alcohol-memory reconsolidation and relapse and characterized their transcriptional signature. Upon retrieving alcohol-related memories, we observed increased neuronal activation in the nucleus accumbens (NAc). We established the causal role of these NAc ensembles in alcohol-memory reconsolidation using the Daun02 method with the Fos-LacZ transgenic rat, which expresses {beta}-galactosidase ({beta}-gal) under the Fos promoter, allowing the selective ablation of activated neurons. Selective inactivation of the active NAc neuronal ensemble produced a long-lasting attenuation of relapse. Through fluorescence-activated cell sorting (FACS) and RNA sequencing, we found a unique transcriptional fingerprint in activated Fos-positive neuronal ensembles in NAc following alcohol memory retrieval (vs. no retrieval controls) that was not present in the Fos-negative neurons. Our findings underscore the critical role of NAc neuronal ensembles in alcohol-associated memory reconsolidation. These neurons have a unique transcriptional profile that can provide novel targets for reducing alcohol relapse.

neuroscience↗

Involvement of FKBP5, but not of stress, in alcohol memory reconsolidation

Relapse is a fundamental challenge in drug addiction, often evoked by exposure to drug-associated cues. Upon retrieval, memories become temporarily labile before re-stabilizing in a process termed reconsolidation. Therefore, targeting the reconsolidation process offers a therapeutic approach for relapse prevention via the disruption of the drug-cue memories. We recently demonstrated that retrieval of contextual alcohol memories increased the expression of the mRNA encoding for FK506 binding protein 51 (FKBP51), a regulator of the hypothalamic-pituitary-adrenal (HPA) axis. Here, we explored the role of the HPA axis, and FKBP5/FKBP51 in particular, in the reconsolidation of alcohol memories. We found that the FKBP51 inhibitor SAFit2 given before alcohol-memory retrieval using contextual cues prevented the extinction of alcohol place preference behavior in female mice, suggesting that this protein may play a role in cognitive flexibility in a sex-dependent manner. Conversely, the retrieval of alcohol memories using an odor-taste cue did not affect Fkbp5 expression in rats with a history of chronic alcohol consumption, suggesting that FKBP5 may play a differential role in different alcohol-associated memories. In addition, we provide evidence for HPA axis activation following alcohol memory retrieval, by showing that exposure to an alcohol-associated context led to elevated corticosterone secretion. However, we found that the reconsolidation process was unaffected by HPA axis-related manipulations, namely stress exposure, and administration of corticosterone or the glucocorticoid receptors inhibitor, mifepristone. Our results suggest that although FKBP5 can affect cognitive flexibility, and thereby impact the reconsolidation of alcohol memories, this effect is not likely mediated by HPA axis-related mechanisms.

neuroscience↗

ERK1/2 inhibition disrupts alcohol memory reconsolidation and prevents relapse

Relapse to alcohol abuse after periods of abstinence, often caused by cue-induced alcohol craving, is a major challenge in the treatment of alcohol addiction. Therefore, disruption of the cue-alcohol associative memories can diminish the risk of relapse. Upon retrieval, memories become temporarily labile before they reconsolidate in a process that requires protein synthesis. Accumulating evidence suggests that the mammalian target of rapamycin complex 1 (mTORC1), which is responsible for the translation of a subset of dendritic proteins, is crucial for memory reconsolidation. Here, we explored the involvement of two regulatory pathways of mTORC1, namely phosphoinositide 3-kinase (PI3K)-AKT and extracellular regulated kinase1/2 (ERK1/2), in the reconsolidation process in a rat model of non-operant alcohol self-administration. We found that retrieval of alcohol memories using an odor-taste cue increased ERK1/2 activation in the amygdala, but did not affect the PI3K-AKT pathway. Importantly, inhibition of ERK1/2 shortly after alcohol memory retrieval impaired reconsolidation and led to long-lasting suppression of relapse to alcohol drinking. Additionally, we show that attenuation of alcohol memories and relapse was also induced by post-retrieval administration of lacosamide, an inhibitor of collapsin response mediator protein-2 (CRMP2) - a translational product of mTORC1 that is functionally regulated by PI3K-AKT signaling. Together, our findings provide evidence for the crucial role of ERK1/2 and CRMP2 in the reconsolidation of alcohol memories, and mark the FDA-approved drug, lacosamide, as a potential treatment for alcohol use disorder.

neuroscience↗

Characterizing habit learning in the human brain at the individual and group levels: a multi-modal MRI study

The dual-process theory of action control postulates that there are two competitive and complementary mechanisms that control our behavior: a goal-directed system that executes deliberate actions, explicitly aimed toward a particular outcome, and a habitual system that autonomously execute well-learned actions, typically following an encounter with a previously associated cue. In line with dual-process theory, animal studies have provided convincing evidence for dissociable neural mechanisms, mainly manifested in cortico-striatal regions, involved in goal-directed and habitual action control. While substantial progress has been made in characterizing the neural mechanism underlying habit learning in animals, we still lack knowledge on how habits are formed and maintained in the human brain. Thus far only one study, conducted more than a decade ago by Tricomi et al. (2009), has been able to induce habitual behavior in humans via extensive training. This study also implicated the posterior putamen in the process, using functional magnetic resonance imaging (fMRI). However, recent attempts to replicate the behavioral results of this study were not successful. This leaves the research of human habits, and particularly the research of their formation through extensive repetition, as well as their neural basis, limited and far behind the animal research in the field. This motivated us to (1) attempt to replicate the behavioral and imaging main findings of Tricomi et al., (2) identify further functional and microstructural neural modifications associated with habit formation and manifestation, and (3) investigate the relationships between functional and structural plasticity and individual differences in habit expression. To this end, in this registered report we used Tricomi et al.s free-operant task along with multi-modal MRI methods in a well-powered sample (n=123). In this task participants sensitivity to outcome devaluation (an index of goal-directed/habitual action control) is tested following either short or extensive training. In contrast to our hypothesis, we were not able to demonstrate habit formation as a function of training duration nor were we able to relate any functional or microstructural plasticity in the putamen with individual habit expression. We found that a pattern of increased activations in the left head of caudate that re-occurred across each days training is associated with goal directed behavior and that increased processing of devalued cues in low-level visual regions was indicative of goal-directed behavior (and vice versa). In a follow-up exploratory analysis comparing habitual and goal-directed subgroups within each experimental group, we found that elevated activations in frontoparietal regions during early stages of training, as well as increased reactivity towards still-valued cues in somatosensory and superior parietal regions were found in individuals that were more inclined to perform goal-directed behavior (compared with more habitual individuals). Taken together, regions commonly implicated in goal-directed behavior were most predictive of individual habit expression. Finally, we also found that differential patterns of training-related microstructural plasticity, as measured with diffusion MRI, in midbrain dopaminergic regions were associated with habit expression. This work provides new insights into the neural dynamics involved in individual habit formation/expression and encourages the development and testing of new, more sensitive, procedures for experimental habit induction in humans.

neuroscience↗

Alcohol-specific transcriptional dynamics of memory reconsolidation

Relapse, a critical issue in alcohol addiction, can be attenuated by disruption of alcohol-associated memories. Memories are thought to temporarily destabilize upon retrieval during the reconsolidation process. Here, we characterized the alcohol-specific transcriptional dynamics that regulate these memories. Using a mouse place-conditioning procedure, we found that alcohol memory retrieval increased the expression of Arc and Zif268 in the dorsal hippocampus (DH) and medial prefrontal cortex (mPFC). Alcohol seeking was abolished by post-retrieval non-specific inhibition of gene transcription in the DH, as well as by downregulating ARC expression in the DH using antisense-oligodeoxynucleotides. Since sucrose memory retrieval also increased Arc and Zif268 expression, we performed an RNA-sequencing assay, and revealed alterations in the expression of Adcy8, Neto1, Slc8a3 in the DH and Fkbp5 in the mPFC, caused by the retrieval of alcohol but not sucrose memories. This offers a first insight into the unique transcriptional dynamics underpinning alcohol memory reconsolidation.

neuroscience↗

Positive Selection and Heat-Response Transcriptomes Reveal Adaptive Features of the Arabidopsis Desert Relative, Anastatica hierochuntica

O_LIPlant adaptation to a desert environment and its endemic heat stress is poorly understood at the molecular level. The naturally heat-tolerant Brassicaceae species Anastatica hierochuntica is an ideal extremophyte model to identify genetic adaptations that have evolved to allow plants to tolerate heat stress and thrive in deserts. C_LIO_LIWe generated an A. hierochuntica reference transcriptome and pinpointed extremophyte adaptations by comparing Arabidopsis thaliana and A. hierochuntica transcriptome responses to heat and identifying positively selected genes in A. hierochuntica. C_LIO_LIThe two species exhibit similar transcriptome adjustment in response to heat and the A. hierochuntica transcriptome does not exist in a constitutive heat "stress-ready" state. Furthermore, the A. hierochuntica global transcriptome as well as heat-responsive orthologs, display a lower basal and higher heat-induced expression than in A. thaliana. Genes positively selected in multiple extremophytes are associated with stomatal opening, nutrient acquisition, and UV-B induced DNA repair while those unique to A. hierochuntica are consistent with its photoperiod-insensitive, early-flowering phenotype. C_LIO_LIWe suggest that evolution of a flexible transcriptome confers the ability to quickly react to extreme diurnal temperature fluctuations characteristic of a desert environment while positive selection of genes involved in stress tolerance and early flowering could facilitate an opportunistic desert lifestyle. C_LI

plant biology↗

Disruption of relapse to alcohol seeking by aversive counterconditioning following memory retrieval

Relapse to alcohol abuse is often caused by exposure to potent alcohol-associated cues. Therefore, disruption of the cue-alcohol memory can prevent relapse. It is believed that memories destabilize and become prone for updating upon their reactivation through retrieval, and then re-stabilize within 6 h during a "reconsolidation" process. We recently showed that relapse to cocaine seeking could be prevented by counterconditioning the cocaine-cues with aversive outcomes following cocaine-memory retrieval, in a place conditioning paradigm. However, to better model addiction-related behaviors, self-administration models are necessary. Here, we demonstrate that relapse to alcohol seeking can be prevented by aversive counterconditioning conducted during alcohol-memory reconsolidation, in conditioned place preference (CPP) and operant self-administration paradigms, in mice and rats, respectively. We found that the reinstatement of alcohol-CPP was abolished only when aversive counterconditioning with water-flooding was given shortly after alcohol-memory retrieval. Furthermore, rats trained to lever-press for alcohol showed decreased context-induced renewal of alcohol-seeking responding when the lever-pressing was counterconditioned with foot-shocks, shortly, but not 6 h, after memory retrieval. These results 0suggest that aversive counterconditioning can prevent relapse to alcohol seeking only when performed during alcohol-memory reconsolidation, presumably by updating, or replacing, the alcohol memory with aversive information. Also, we found that aversive counterconditioning preceded by alcohol-memory retrieval was characterized by upregulation of brain-derived neurotrophic factor (Bdnf) mRNA expression in the medial prefrontal cortex, suggesting that Bdnf plays a role in the memory updating process.

neuroscience↗

A retrieval-counterconditioning procedure diminishes reinstatement of appetitive memories in humans

Appetitive memories play a crucial role in learning and behavior but under certain circumstances become maladaptive and play a vital part in addiction and other psychopathologies. In recent years, scientific research demonstrated the ability of memories to be modified following their reactivation through memory retrieval, in a process termed memory reconsolidation. Several non-pharmacological behavioral manipulations yielded mixed results in their capacity to alter maladaptive memories in humans. Here, aiming to translate promising findings observed in rodents to humans, we constructed a novel three-day procedure to test the efficacy of aversive counterconditioning to alter appetitive memories when given following memory retrieval. On Day1 we used appetitive conditioning to form appetitive memories. On Day2, we retrieved these appetitive memories for half of the participants (Retrieval group). Subsequently, all participants underwent counterconditioning. On Day3, we tried to reinstate Day1 appetitive memories. We observed a significant reduction in the reinstatement of the original appetitive memory when counterconditioning was induced following memory retrieval. We provide here a novel human paradigm that models several memory processes, and demonstrate memory attenuation when counterconditioned after its retrieval. This paradigm can be used to study complex appetitive memory dynamics, e.g., memory reconsolidation, and their underlying brain mechanisms.

neuroscience↗