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npj Microgravity

Springer Science and Business Media LLC

All preprints, ranked by how well they match npj Microgravity's content profile, based on 11 papers previously published here. The average preprint has a 0.02% match score for this journal, so anything above that is already an above-average fit. Older preprints may already have been published elsewhere.

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MicroAge Mission: Experimental Design, Hardware Development and Operational Considerations for a Bespoke Culture System to Support Tissue-Engineered Skeletal Muscle Constructs.

Jones, S. W.; Shigdar, S.; Tollitt, B. R.; Janvier, A.; Mutter, F.; Henstock, J. R.; Ohana, J.; Turner, D. A.; McArdle, C.; Neri, G.; Blackler, W.; Olentsenko, G.; Hoettges, K. F.; McArdle, A.; Jackson, M. J.

2025-06-23 bioengineering 10.1101/2025.06.17.660117 medRxiv
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Microgravity provides a unique model for understanding accelerated skeletal muscle loss, and potentially a model of muscle ageing, offering insights into the molecular mechanisms underlying reductions in muscle mass and function. During spaceflight, astronauts experience pronounced skeletal muscle atrophy. These effects appear similar to age-related muscle decline on Earth but on a significantly shorter timescale. Despite the incorporation of daily aerobic and resistance exercise on the International Space Station (ISS), countermeasures remain suboptimal, reflecting analogous challenges in exercise efficacy observed in ageing populations. The MicroAge Mission aimed to exploit microgravity conditions aboard the ISS to determine whether the molecular mechanisms underpinning reduced adaptive responses to contractile activity during ageing are analogous to those induced by spaceflight. The mission also explored proof-of-concept genetic interventions, including overexpression of Heat Shock Protein 10 (HSP10), a mitochondrial chaperone, to mitigate muscle atrophy and functional loss. To conduct these investigations, a tissue-engineering approach was employed to fabricate human skeletal muscle constructs, which were secured to custom-designed 3D-printed scaffolds. The scaffolds featured integrated microfluidic channels designed to interface with the fluid handling system within the flight hardware. The hardware, developed by Kayser Space Ltd, was specifically designed to interface with the European Space Agencys (ESA) Kubik incubator located within the Columbus module of the ISS. This research addresses critical methodological constraints in low Earth orbit (LEO) experimentation, providing a detailed account of pre-flight protocol development, muscle construct biofabrication techniques, and operational considerations. The findings establish a translational framework for future investigations into musculoskeletal degeneration, with implications for therapeutic strategies targeting both terrestrial ageing and astronaut musculoskeletal health.

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Bacteriophage-host interactions in microgravity onboard the International Space Station

Huss, P.; Chitboonthavisuk, C.; Meger, A.; Nishikawa, K.; Oates, R. P.; Mills, H.; Holzhaus, O.; Raman, S.

2023-11-13 synthetic biology 10.1101/2023.10.10.561409 medRxiv
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Bacteriophage-host interactions play a fundamental role in shaping microbial ecosystems. While extensively studied on Earth, their behavior in microgravity remains largely unexplored. Here, we report the dynamics between T7 bacteriophage and E. coli in microgravity aboard the International Space Station (ISS). Phage activity was initially delayed in microgravity but ultimately successful. We identified de novo mutations in both phage and bacteria that enhanced fitness in microgravity. Deep mutational scanning of the phage receptor binding domain revealed striking differences in the number, position, and mutational preferences between terrestrial and microgravity conditions, reflecting underlying differences in bacterial adaptation. Combinatorial libraries informed by microgravity selections yielded T7 variants capable of productively infecting uropathogenic E. coli resistant to wild-type T7 under terrestrial conditions. These findings help lay the foundation for future research on the impact of microgravity on phage-host interactions and microbial communities and the terrestrial benefits of this research.

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The effects of long duration spaceflight on sensorimotor control and cognition

Tays, G.; Hupfeld, K.; McGregor, H.; Salazar, A.; DeDios, Y.; Beltran, N.; Reuter-Lorenz, P.; Kofman, I.; Wood, S.; Bloomberg, J.; Mulavara, A.; Seidler, R.

2021-06-22 neuroscience 10.1101/2021.06.22.449414 medRxiv
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Astronauts returning from spaceflight typically show transient declines in mobility and balance. These whole-body postural control behaviors have been investigated thoroughly, while study of the effects of spaceflight on other sensorimotor behaviors is prevalent. Here, we tested the effects of the spaceflight environment of microgravity on various sensorimotor and cognitive tasks during and after missions to the International Space Station (ISS). We obtained mobility (Functional Mobility Test), balance (Sensory Organization Test-5), bimanual coordination (bimanual Purdue Pegboard), cognitive-motor dual-tasking and various cognitive measures (Digit Symbol Substitution Test, Cube Rotation, Card Rotation, Rod and Frame Test) before, during and after 15 astronauts completed 6+ month missions aboard the ISS. We used linear mixed effect models to analyze performance changes due to entering the microgravity environment, behavioral adaptations aboard the ISS and subsequent recovery from microgravity. We identified declines in mobility and balance from pre- to post-flight, suggesting possible disruption and/or downweighting of vestibular inputs; these behaviors recovered to baseline levels within 30 days post-flight. We also identified bimanual coordination declines from pre- to post-flight and recovery to baseline levels within 30 days post-flight. There were no changes in dual-task performance during or following spaceflight. Cube rotation response time significantly improved from pre- to post-flight, suggestive of practice effects. There was a trend for better in-flight cube rotation performance on the ISS when crewmembers had their feet in foot loops on the "floor" throughout the task. This suggests that tactile inputs to the foot sole aided orientation. Overall, these results suggest that sensory reweighting due to the microgravity environment of spaceflight affected sensorimotor performance, while cognitive performance was maintained. A shift from exocentric (gravity) spatial references on Earth towards an egocentric spatial reference may also occur aboard the ISS. Upon return to Earth, microgravity adaptions become maladaptive for certain postural tasks, resulting in transient sensorimotor performance declines that recover within 30 days.

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Microgravity affects the nervous system and aging in C. elegans through reduced tactile stimulation

Higashitani, A.; Moon, J.-H.; Hwang, J.-I.; Higashitani, N.; Hashizume, T.; Abu, A. A.; Ooizumi, K.; Sazuka, I.; Hashizume, Y.; Umehara, M.; Alcantara, A. V.; Kim, B.-s.; Etheridge, T.; Szewczyk, N. J.; Abe, T.; Lee, J. I.; Higashibata, A.

2026-02-19 systems biology 10.64898/2026.02.16.706116 medRxiv
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Space travel is becoming accessible, yet our understanding of how space environment and microgravity ({micro}G) affect biology, physiology, and health remains incomplete. We investigated {micro}G effects on neuromuscular development and aging in Caenorhabditis elegans. Nematodes in {micro}G showed downregulation of genes related to synaptic signaling, dopamine response, locomotion, and cuticle development, with impaired synaptic vesicle dynamics, reduced motility, and shorter body lengths. Aged worms in {micro}G showed decreased collagen gene expression, increased motor neuron defects, synaptic vesicle accumulation and decreased release, and mitochondrial morphology collapse in body wall muscles, indicating accelerated aging. MEC-4 mechanoreceptor was identified as a key mediator of {micro}G-induced body length reduction and changes in extracellular matrix gene expression. {micro}G conditions suppressed mechanoreceptor genes, suggesting multiple mechanosensory systems are affected. Physical stimulation through culture medium with small beads in space mitigated many {micro}G-induced expression changes, including mechanoreceptors, neuromuscular defects, and aging-related phenotypes. These results highlight mechanical stimulis role in maintaining neuromuscular integrity during spaceflight and suggest restoring tactile input could counter health risks from reduced stimulation in long-term space missions. SIGNIFICACEWe found that microgravity ({micro}G) conditions suppress the expression of multiple mechanoreceptor genes in Caenorhabditis elegans, indicating that several mechanosensory systems are affected during spaceflight. Importantly, reintroducing physical stimulation by adding small beads to the culture medium in space partially reversed many of these {micro}G-induced gene expression changes. This intervention also mitigated neuromuscular defects and aging-related phenotypes observed under {micro}G conditions. Collectively, these findings underscore the essential role of mechanical stimuli in preserving neuromuscular integrity during space missions and suggest that restoring tactile input may be a promising strategy to counteract the health risks associated with reduced tactile stimulation during prolonged spaceflights.

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Microgravity Accelerates Skeletal Muscle Degeneration: Functional and Transcriptomic Insights from a Muscle Lab-on-Chip Model Onboard the ISS.

Parafati, M.; Thwin, Z.; Malany, L. K.; Coen, P. M.; Malany, S.

2025-01-27 cell biology 10.1101/2025.01.26.634580 medRxiv
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Microgravity accelerates skeletal muscle degeneration, mimicking aging, yet its effects on human muscle cell function and signaling remain underexplored. Using a muscle lab-on-chip model onboard the International Space Station, we examined how microgravity and electrically stimulated contractions influence muscle biology and age-related muscle changes. Our 3D bioengineered muscle model, cultured for 21 days (12 days in microgravity), included myobundles from young, active and older, sedentary individuals, with and without electrically stimulated contraction. Real-time data collected within an autonomous Space Tango CubeLabTM showed reduced contraction magnitude in microgravity. Global transcriptomic analysis revealed increased gene expression and particularly mitochondrial-related gene expression in microgravity for the electrically stimulated younger myobundles, while the older myobundles were less responsive. Moreover, a comparative analysis using a skeletal muscle aging gene expression database revealed that certain age-induced genes showed changes in expression in myobundles from the younger cohort when exposed to microgravity, whereas these genes remained unchanged in myobundles from the older cohort. Younger, electrically stimulated myobundles in microgravity exhibited higher expression of 45 aging genes involved in key aging pathways related to inflammation and immune function, mitochondrial dysfunction, and cellular stress; and decreased expression of 41 aging genes associated with inflammation, and cell growth. This study highlights a unique age-related molecular signature in muscle cells exposed to microgravity and underscores electrical stimulation as a potential countermeasure. These insights advance understanding of skeletal muscle aging and microgravity-induced degeneration, informing strategies for mitigating age-related muscle atrophy in space and on Earth.

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Inflammasome-Inhibiting Nanoligomers are Neuroprotective Against Space-Induced Pathology in Healthy and Diseased 3D Human Motor and Pre-Frontal Cortex Brain Organoids

Sharma, S.; Gilberto, V. S.; Rask, J.; Chatterjee, A.; Nagpal, P.

2024-03-20 neuroscience 10.1101/2024.03.19.585802 medRxiv
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Microgravity and space environment has been linked to deficits in neuromuscular and cognitive capabilities, hypothesized to occur due to accelerated aging and neurodegeneration in space. While the specific mechanisms are still being investigated, spaceflight-associated neuropathology is an important health risk to space astronauts and tourists, and is being actively investigated for the development of appropriate countermeasures. However, such space-induced neuropathology offers an opportunity for accelerated screening of therapeutic targets and lead molecules for treating neurodegenerative diseases. Here we show, a proof-of-concept high-throughput target screening (on Earth), target validation, and mitigation of microgravity-induced neuropathology using our Nanoligomer platform, onboard the 43-day SpaceX CRS-29 mission to the International Space Station (ISS). First, comparing 3D healthy and diseased pre-frontal cortex (PFC, for cognition) and motor neuron (MN, for neuromuscular function) organoids, we assessed space-induced pathology using biomarkers relevant to Alzheimers Disease (AD), Frontotemporal Dementia (FTD), and Amyotrophic Lateral Sclerosis (ALS). Both healthy and diseased PFC and MN organoids showed significantly enhanced neurodegeneration in space, as measured through relevant disease biomarkers, when compared to their respective Earth controls. Second, we tested the top two lead molecules, NI112 which targeted NF-{kappa}B, and NI113 that targeted IL-6. We observed that these Nanoligomers significantly mitigate the AD, FTD, and ALS relevant biomarkers like amyloid beta-42 (A{beta}42), phosphorylated Tau (pTau), Kallikrein (KLK-6), Tar DNA-binding protein 43 (TDP-43), and others. Moreover, the 43-day Nanoligomer treatment of these brain organoids did not appear to cause any observable toxicity or safety issues in the target organoid tissue, suggesting good tolerability for these molecules in the brain at physiologically relevant doses. Together, these results show significant potential for both the development and translation of NI112 and NI113 molecules as potential neuroprotective countermeasures for safer space travel, and demonstrate the usefulness of the space environment for rapid, high-throughput screening of targets and lead molecules for clinical translation. We assert that the use of microgravity in drug development and screening may ultimately benefit millions of patients suffering from debilitating neurodegenerative diseases on Earth.

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Engineering Radioprotective Human Cells Using the Tardigrade Damage Suppressor Protein, DSUP

Westover, C.; Najjar, D.; Meydan, C.; Grigorev, K.; Veling, M.; Chang, R.; Iosim, S.; Colon, R.; Yang, S.; Restrep, U.; Chin, C.; Butler, D.; Moszary, C.; Rahmatulloev, S.; Afshinnekoo, E.; Silver, P.; Mason, C.

2020-11-10 synthetic biology 10.1101/2020.11.10.373571 medRxiv
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Spaceflight has been documented to produce detrimental effects to physiology and genomic stability, partly a result of Galactic Cosmic Radiation (GCR). In recent years, extensive research into extremotolerant organisms has begun to reveal how they survive harsh conditions, such as ionizing radiation. One such organism is the tardigrade (Ramazzottius varieornatus) which can survive up to 5kGy of ionizing radiation and the vacuum of space. In addition to their extensive network of DNA damage response mechanisms, the tardigrade also possesses a unique damage suppressor protein (Dsup) that co-localizes with chromatin in both tardigrade and transduced human cells to protect against DNA damage from reactive oxygen species induced by ionizing radiation. While Dsup has been shown to confer human cells with increased radiotolerance; much of the mechanism of how it does this in the context of human cells remains unknown. Until now there is no knowledge yet of how introduction of Dsup into human cells can perturb molecular networks and if there are any systemic risks associated with foreign gene introduction. Here, we created a stable HEK293 cell line expressing Dsup, validated its radioprotective phenotype, and performed multi-omic analyses across different time points and doses of radiation to delineate molecular mechanism of the radioprotection and assess molecular network pertubations. Dsup expressing human cells showed an enrichment for pathways seen in cells overexpressing HMGN1, a chromosomal architectural protein that has a highly similar nucleosome binding motif. As HMGN1 binding to nucleosomes promotes a less transcriptionally repressed chromatin state, we further explored the hypothesis that Dsup could behave similarly via ATAC-seq analysis and discovered overall selective differential opening and closing of the chromatin landscape. Cut&Run analysis further revealed global increases in histone post translational modifications indicative of open chromatin and global decreases in repressive marks, with Dsup binding preferentially towards promoter regions marked by H3K27ac and H3K4me3. We further validated some of the enriched pathways via in-vitro assays and revealed novel phenotypes that Dsup confers to human cells such as reduction in apoptosis, increased cell proliferation, and increased cell adhesion properties. Our analysis provides evidence that the Dsup protein in the context of HEK293 cells may behave as a chromatin architectural protein and that in addition to its nucleosome shielding effect, may confer radio-resistance via chromatin modulation. These results provide future insight into mitigating some of the major challenges involved with long term spaceflight as well as understanding some of the molecular architectural underpinnings that lead to radioresistant cancer phenotypes back home.

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Unveiling Hidden Microbial Diversity in Mars 2020 Mission Assembly Cleanrooms with Molecular Insights into the Persistent and Perseverance of Novel Species Defying Metagenome Sequencing

Muthamilselvi Sivabalan, S. K.; Vijayakumar, V.; Sengupta, P.; Palmal, S.; Krishnamurthi, S.; Kumar Singh, N.; Kyrpides, N. C.; Raman, K.; Venkateswaran, K.

2025-01-31 genomics 10.1101/2025.01.21.633868 medRxiv
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NASA cleanrooms, where space mission components are assembled, maintain stringent cleaning protocols and nutrient-poor environments, resulting in low yet persistent microbial loads. Although these oligotrophic extremophiles are reported in small numbers, their resistance to environmental stresses, sparse presence, and difficulty in extracting biomolecules often lead to their omission, even with advanced sequencing technologies. Traditional metagenomic approaches fail to detect these rare species due to challenges in lysing robust microbial cells and isolating minute amounts of DNA from dominant microorganisms. Additionally, the absence of database references for novel extremophiles limits their identification. Over a six month period of monitoring Mars 2020 mission cleanrooms, 182 bacterial strains from 19 families were identified using advanced molecular techniques. This included 14 novel Gram-positive species, eight of which were spore-formers. Despite being present at only about 0.001% abundance in metagenomic sequencing data, they were successfully cultured. Functional studies revealed their capabilities in nitrogen cycling, carbohydrate metabolism, and radiation resistance. Furthermore, 12 biosynthetic gene clusters, including those linked to ectoine and{varepsilon} -poly-L-lysine production, underscore their biotechnological potential. These findings emphasize the hidden microbial diversity in spacecraft assembly cleanrooms and highlight the need for advanced detection methods to uncover extremophiles with potential applications in biotechnology and space exploration. SynopsisUnderstanding extremophiles in NASA spacecraft assembly cleanrooms aids contaminant management in confined habitats, ensuring sustainability and safety in future space missions.

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Genetic Diversity Modulates The Physical And Transcriptomic Response Of Skeletal Muscle To Simulated Microgravity

Zeineddine, Y.; Friedman, M. A.; Buettmann, E. G.; Abraham, L. B.; Hoppock, G. A.; Donahue, H. J.

2023-06-28 bioengineering 10.1101/2023.06.27.546810 medRxiv
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Developments in long-term space exploration necessitate advancements in countermeasures against microgravity-induced skeletal muscle loss. Astronaut data shows considerable variation in muscle loss in response to microgravity. Previous experiments suggest that genetic background influences the skeletal muscle response to unloading, but no in-depth analysis of genetic expression was performed. Here, we placed eight inbred founder strains of the diversity outbred mice (129S1/SvImJ, A/J, C57BL/6J, CAST/EiJ, NOD/ShiLtJ, NZO/HILtJ, PWK/PhJ, and WSB/EiJ) in simulated microgravity (SM) via hindlimb unloading for three weeks. Body weight, muscle morphology, muscle strength, protein synthesis marker expression, and RNA expression were collected. A/J and CAST/EiJ mice were most susceptible to SM-induced muscle loss, whereas NOD/ShiLtJ mice were the most protected. In response to SM, A/J and CAST/EiJ mice experienced reductions in body weight, muscle mass, muscle volume, and muscle cross-sectional area. A/J mice had the highest number of differentially expressed genes (68) and associated gene ontologies (328). Downregulation of immunological gene ontologies and genes encoding anabolic immune factors suggest that immune dysregulation contributes to the response of A/J mice to SM. Several muscle properties showed significant interactions between SM and mouse strain and a high degree of heritability. These data imply that genetic background plays a role in the degree of muscle loss in SM and that more individualized programs should be developed for astronauts to protect their skeletal muscles against microgravity on long term missions.

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Plant-based Production and Characterization of a Promising Fc-fusion Protein against Bone Mass Density Loss

Xiong, Y.; Hirano, H.; Lane, N. E.; Nandi, S.; McDonald, K.

2022-06-06 synthetic biology 10.1101/2022.06.05.494914 medRxiv
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Microgravity-induced bone loss is a main obstacle for long term space missions as it is difficult to maintain bone mass when loading stimuli is reduced. With a typical bone mineral density loss of 1.5% per month of microgravity exposure, the chances for osteoporosis and fractures may endanger astronauts health. Parathyroid Hormone or PTH (1-34) is an FDA approved treatment for osteoporosis, and may reverse microgravity-induced bone loss. However, PTH proteins requires refrigeration, daily subcutaneous injection, and have a short shelf-life, limiting its use in a resource-limited environment, like space. In this study, PTH was produced in an Fc-fusion form via transient expression in plants, to improve the circulatory half-life which reduces dosing frequency and to simplify purification if needed. Plant-based expression is well-suited for space medicine application given its low resource consumption and short expression timeline. The PTH-Fc accumulation profile in plant was established with a peak expression on day 5 post infiltration of 373 {+/-} 59 mg/kg leaf fresh weight. Once the PTH-Fc was purified, the amino acid sequence and the binding affinity to its target, PTH 1 receptor (PTH1R), was determined utilizing biolayer interferometry (BLI). The binding affinity between PTH-Fc and PTH1R was 2.30 x 10-6 M, similar to the affinity between PTH (1-34) and PTH1R (2.31 x 10-6 M). Its function was also confirmed in a cell-based receptor stimulation assay, where PTH-Fc was able to stimulate the PTH1R producing cyclic adenosine monophosphate (cAMP) with an EC50 of (8.54 {+/-} 0.12) x 10-9 M, comparable to the EC50 from the PTH (1-34) of 1.49 x 10-8 M. These results suggest that plant recombinant PTH-Fc exhibits a similar potency compared to PTH. Furthermore, it can be produced rapidly at high levels with minimal resources and reagents, making it ideal for production in low resource environments such as space.

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Studies on the International Space Station to assess the effects of microgravity on iPSC-derived neural organoids

Marotta, D.; Ijaz, L.; Barbar, L.; Nijsure, M.; Stein, J.; Clements, T.; Stoudemire, J.; Grisanti, P.; Noggle, S. A.; Loring, J. F.; Fossati, V.

2023-08-14 neuroscience 10.1101/2023.08.10.552814 medRxiv
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Exposure to microgravity in low-Earth orbit (LEO) has been shown to affect human cardiovascular, musculoskeletal, and immune systems. Post-flight brain imaging indicates that reports about astronauts and mouse models suggest that microgravity may cause intracranial fluid shifts and possibly alter white and gray matter of the brain [1]. To focus on the effects of microgravity on the brain, we used induced pluripotent stem cells (iPSCs) to produce three-dimensional (3D) human neural organoids as models of the nervous system. We studied iPSCs derived from four individuals, including people with the neurological diseases primary progressive multiple sclerosis (PPMS) and Parkinsons disease (PD) and non-symptomatic controls. We patterned the organoids toward cortical and dopaminergic fates representing regions of the brain affected by MS and PD, respectively. Microglia were generated from the same cell lines and integrated into a portion of the organoids. The organoids were maintained for 30 days in a novel static culture system on the International Space Station (ISS) and live samples were returned to Earth. The post-flight samples were evaluated using histology, transcriptome and secretome analysis. Microglia-specific genes and secreted proteins were detectable in the microglia-containing organoid cultures. The gene expression analyses of individual organoids cultured in LEO and on Earth suggest that cell proliferation was lower and neural cells were more mature in samples that were cultured in LEO. These experiments lay the groundwork for further studies, including long term studies to investigate the effects of microgravity on the brain. With two more missions using similar cells, we are determining whether this effect of microgravity is consistent in separate experiments. Such studies may ultimately aid in developing countermeasures for the effects of microgravity on the nervous systems of astronauts during space exploration and suggest novel therapeutic interventions for neurological diseases on Earth.

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Systemic Genome Correlation Loss as a Central Characteristic of Spaceflight

Sakharkar, A.; Lukong, K. E.; Sanders, L. M.; Costes, S. V.; Yang, J.; Taghibiglou, C.

2024-01-27 genomics 10.1101/2024.01.24.577100 medRxiv
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Space exploration has captured the imagination of humanity for generations. From the first steps on the moon to the recent Mars rover and Artemis lunar exploration missions, space travel has always been an ambitious goal for humanity. However, as we venture further into space and prepare for long-term missions to other planets, the physiological and health risks associated with prolonged space travel are becoming more prominent. Most current research on astronaut health focuses on identifying individual genes or pathways for specific symptoms astronauts face. The human system is complex and delicate, and the effects of microgravity, radiation, and isolation on astronaut health during long-duration spaceflight are still not fully understood. This study used a novel ranking and analysis methodology to combine space omics data from multiple datasets in the NASA OSDR repository. The data was used to generate a multi-omic, integrative bioinformatics analysis pipeline, which identified and characterized a genome-wide spaceflight gene expression correlation loss as a central biosignature for astronaut health on the International Space Station (ISS). Our findings indicate that genome-wide correlation loss corresponds to a breakdown in gene synchronization and cooperation, showcasing the systemic symptoms spaceflight induces and their genomic roots.

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A synthetic biochemical device for sensing microgravity

Mukhopadhyay, S.; Bagh, S.

2020-01-27 synthetic biology 10.1101/2020.01.26.920629 medRxiv
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Biological solutions to human space travel must consider microgravity as an important component, which is unknown by the biochemical worlds on the Earth. Thus, one of the fundamental challenges of space biotechnology is to create engineered biochemical systems to integrate microgravity as a signal within molecular and cellular processes. Here we created the first molecular or biochemical microgravity sensor by creating a synthetic-small-regulatory-RNA based molecular network in E.coli, which sensed microgravity and responded by altering the expression of a target protein. We demonstrated that the design was universal, could work potentially with any promoter and against any target gene. This device was applied to target cell division process and rescue the deformed cell shape by applying microgravity. The work showed for the first time, a way to integrate microgravity as physical signals within biochemical process of a living cell in a human designed way and thus, opens a new direction in space biotechnology, space chemistry and space technology.

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Genomic, Functional, and Metabolic Enhancements in Multidrug-Resistant Enterobacter bugandensis Facilitating its Persistence and Succession in the International Space Station

Sengupta, P.; Sivabalan, S. K. M.; Singh, N. K.; Raman, K.; Venkateswaran, K.

2023-09-07 systems biology 10.1101/2023.09.05.556398 medRxiv
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BackgroundThe International Space Station (ISS) stands as a testament to human achievement in space exploration. Despite its highly controlled environment, characterised by microgravity, increased CO2 levels, and elevated solar radiation, microorganisms occupy a unique niche. These microbial inhabitants play a significant role in influencing the health and well-being of astronauts on board. One microorganism of particular interest in our study is Enterobacter bugandensis, primarily found in clinical specimens including the human gastrointestinal tract, and also reported to possess pathogenic traits, leading to a plethora of infections. ResultsDistinct from their Earth counterparts, ISS E. bugandensis strains have exhibited resistance mechanisms that categorize them within the ESKAPE pathogen group, a collection of pathogens recognized for their formidable resistance to antimicrobial treatments. During the two-year Microbial Tracking 1 mission, 12 strains of multidrug resistant E. bugandensis were isolated from various locations within the ISS. We have carried out a comprehensive study to understand the genomic intricacies of ISS-derived E. bugandensis in comparison to terrestrial strains, with a keen focus on those associated with clinical infections. We unravel the evolutionary trajectories of pivotal genes, especially those contributing to functional adaptations and potential antimicrobial resistance. A hypothesis central to our study was that the singular nature of the stresses of the space environment, distinct from any on Earth, could be driving these genomic adaptations. Extending our investigation, we meticulously mapped the prevalence and distribution of E. bugandensis across the ISS over time. This temporal analysis provided insights into the persistence, succession, and potential patterns of colonization of E. bugandensis in space. Furthermore, by leveraging advanced analytical techniques, including metabolic modelling, we delved into the coexisting microbial communities alongside E. bugandensis in the ISS across multiple missions and spatial locations. This exploration revealed intricate microbial interactions, offering a window into the microbial ecosystem dynamics within the ISS. ConclusionsOur comprehensive analysis illuminated not only the ways these interactions sculpt microbial diversity but also the factors that might contribute to the potential dominance and succession of E. bugandensis within the ISS environment. The implications of these findings are two-fold. Firstly, they shed light on microbial behavior, adaptation, and evolution in extreme, isolated environments. Secondly, they underscore the need for robust preventive measures, ensuring the health and safety of astronauts by mitigating risks associated with potential pathogenic threats.

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Dynamic alterations of DNA methylation and transcriptome in adaptation to and recovery from the space environment

Lu, L.; Hao, Y.; Lin, X.; Li, K.; Zhai, T.; Liang, F.; Chen, L.; Wang, L.; Mei, X.; Feng, S.; Lv, K.; Yuan, Y.; Dai, Z.; Liu, D.; Zhang, H.; Yang, C.; Liu, A.; Wang, L.; Li, Z.; Liu, S.; Dai, X.; Yang, C.; Wang, C.; Sun, P.; Shi, L.; Zhang, C.; Xiong, J.; Wei, M.; Xu, C.; Liu, Z.; Qu, L.; Li, J.; Li, Y.

2025-12-05 genomics 10.64898/2025.12.03.691098 medRxiv
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Space exploration presents tremendous health challenges. Here, we report time series of multi-omic and phenotypic profiles of seventeen astronauts from six China Manned Space missions with continuous spaceflight durations ranging from 13 to 180 days. We revealed a key role of DNA methylation regulation in reshaping gene expression patterns to adapt to the space environment. Long-duration spaceflight showed more alterations in epigenetic modifications correlated with alternative splicing and protein acetylation. During recovery, an "overrange rebound" phenomenon was observed, furthermore, a mathematical model was established to describe this implying important phenomenon. Moreover, we revealed the correlations between molecular alterations and phenotypic changes such as coagulation activation and bone intensity loss. Additionally, we performed ground-based simulation experiments to estimate the impacts of individual stressors in the space environment on DNA methylation. In summary, our study highlights the importance and complexity of epigenetic regulation in adaptation to and recovery from the space environment.

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Alternative Splicing Regulates the Physiological Adaptation of the Mouse Hind Limb Postural and Phasic Muscles to Microgravity

Henrich, M.; Ha, P.; Adams, J. S.; Soo, C.; Ting, K.; Stodeick, L.; Chun, R.

2021-05-26 genomics 10.1101/2021.05.25.445491 medRxiv
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Muscle atrophy and fiber type alterations are well-characterized physiological adaptations to microgravity with both understood to be primarily regulated by differential gene expression (DGE). While microgravity-induced DGE has been extensively investigated, adaptations to microgravity due to alternative splicing (AS) have not been studied in a mammalian model. We sought to comprehensively elucidate the transcriptomic underpinnings of microgravity-induced muscle phenotypes in mice by evaluating both DGE and changes in AS due to extended spaceflight. Tissue sections and total RNA were isolated from the gastrocnemius and quadriceps, postural and phasic muscles of the hind limb, respectively, of 32-week-old female BALB/c mice exposed to microgravity or ground control conditions for nine weeks. Immunohistochemistry disclosed muscle type-specific physiological adaptations to microgravity that included i) a pronounced reduction in muscle fiber cross-sectional area in both muscles and ii) a prominent slow-to-fast fiber type transition in the gastrocnemius. RNA sequencing revealed that DGE and AS varied across postural and phasic muscle types with preferential employment of DGE in the gastrocnemius and AS in the quadriceps. Gene ontology analysis indicated that DGE and AS regulate distinct molecular processes. Various non-differentially expressed transcripts encoding musculoskeletal proteins (Tnnt3, Tnnt1, Neb, Ryr1, and Ttn) and muscle-specific RNA binding splicing regulators (Mbnl1 and Rbfox1) were found to have significant changes in AS that altered critical functional domains of their protein products. In striking contrast, microgravity-induced differentially expressed genes were associated with lipid metabolism and mitochondrial function. Our work serves as the first comprehensive investigation of coordinate changes in DGE and AS in large limb muscles across spaceflight. We propose that substantial remodeling of pre-mRNA by AS is a major component of transcriptomic adaptation of skeletal muscle to microgravity. The alternatively spliced genes identified here could be targeted by small molecule splicing regulator therapies to address microgravity-induced changes in muscle during spaceflight.

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Simulated Microgravity Enhances Adipocyte Maturation and Glucose Uptake via Increased Cortical Actin Remodeling

Anvari, G.; Struss, M. M.; Bellas, E.

2024-02-02 bioengineering 10.1101/2024.01.30.578049 medRxiv
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Adipose tissue (AT) regulates whole-body metabolism and is subject to various forces during movement, exercise, and during rest. Adipocytes are mechanically responsive cells, yet little is known about how the lack of mechanical loading may affect adipocytes and their function. To model the lack of mechanical loading, we exposed engineered AT constructs to simulated microgravity (s{micro}g) conditions for 28 days. We found s{micro}g enhanced lipid accumulation (lipogenesis) and lipid mobilization (lipolysis). Adipocyte maturation involves a phenotypic switch from actin stress fiber disruption and cortical actin formation. S{micro}g exposure increased cortical actin formation through mechanoresponsive signaling pathways involving Ras homolog family member A (RhoA) and Rho Associated Coiled-Coil Containing Protein Kinase 1 (ROCK1) downstream targets, cofilin and actin-related protein 2/3 (ARP2/3). Adipocytes cultured in s{micro}g have increased glucose transporter type 4 (GLUT4) translocation to the cell membrane and insulin-stimulated glucose uptake, independent of the canonical Akt pathway. GLUT4 translocation to the cell membrane and insulin-stimulated glucose uptake was limited when we inhibited new formation of branched cortical actin using an ARP2/3 inhibitor, CK-666. This study demonstrated that s{micro}g enhances adipocyte maturation via increased lipogenesis and lipolysis and cortical actin remodeling which further enhanced glucose uptake. Therefore, targeting these mechanosensitive pathways pharmacologically or simulating microgravity on earth as a non-pharmacological modality are novel approaches to improving adipocyte function and AT metabolism and possibly for treating related comorbidities such as type 2 diabetes and obesity.

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Spaceflight causes strain-dependent gene expression changes associated with lipid and extracellular matrix dysregulation in the mouse kidney in vivo

Finch, R. H.; Vitry, G.; Siew, K.; Walsh, S. B.; Beheshti, A.; Hardiman, G.; da Silveira, W. A.

2024-03-14 genomics 10.1101/2024.03.13.584781 medRxiv
Top 0.1%
29.4%
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To explore new worlds we must ensure humans can survive and thrive in the space environment. Incidence of kidney stones in astronauts is a major risk factor associated with long term missions, caused by increased blood calcium levels due to bone demineralisation triggered by microgravity and space radiation. Transcriptomic changes have been observed in other tissues during spaceflight, including the kidney. We analysed kidney transcriptome patterns in two different strains of mice flown on the International Space Station, C57BL/6J and BALB/c. Here we show a link between spaceflight and transcriptome patterns associated with dysregulation of lipid and extracellular matrix metabolism and altered transforming growth factor-beta signalling. A stronger response was seen in C57BL/6J mice than BALB/c. Genetic differences in hyaluronan metabolism between strains may confer protection against extracellular matrix remodelling through downregulation of epithelial-mesenchymal transition. We intend for our findings to contribute to development of new countermeasures against kidney disease in astronauts and people here on Earth.

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Mouse Genomic Associations with Ex Vivo Sensitivity to Simulated Space Radiation

Cekanaviciute, E.; Tran, D.; Nguyen, H.; Lopez Macha, A.; Pariset, E.; Langley, S.; Babbi, G.; Malkani, S.; Penninckx, S.; Schisler, J. C.; Tin, N.; Karpen, G.; Costes, S. V.

2022-03-05 genomics 10.1101/2022.03.03.482929 medRxiv
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29.3%
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Exposure to ionizing radiation is considered by NASA to be a major health hazard for deep space exploration missions. Ionizing radiation sensitivity is modulated by both genomic and environmental factors. Understanding their contributions is crucial for designing experiments in model organisms, evaluating the risk of deep space (i.e. high-linear energy transfer, or LET, particle) radiation exposure in astronauts, and also selecting therapeutic irradiation regimes for cancer patients. We identified single nucleotide polymorphisms in 15 strains of mice, including 10 collaborative cross model strains and 5 founder strains, associated with spontaneous and ionizing radiation-induced ex vivo DNA damage quantified based on immunofluorescent 53BP1+ nuclear foci. Statistical analysis suggested an association with pathways primarily related to cellular signaling, metabolism, tumorigenesis and nervous system damage. We observed different genomic associations in early (4 and 8 hour) responses to different LET radiation, while later (24 hour) DNA damage responses showed a stronger overlap across all LETs. Furthermore, a subset of pathways was associated with spontaneous DNA damage, suggesting 53BP1+ foci as a potential biomarker for DNA integrity in mouse models. Based on our results, we suggest several mouse strains as new models to further study the impact of ionizing radiation and validate the identified genetic loci. We also highlight the importance of future human ex vivo studies to refine the association of genes and pathways with the DNA damage response to ionizing radiation and identify targets for space travel countermeasures.

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Ribonucleoprotein (RNP) condensates modulate survival in response to Mars-like stress conditions

DHAGE, R.; Roy, A.; Sivaraman, B.; Rajyaguru, P. I.

2025-07-11 cell biology 10.1101/2025.07.09.663920 medRxiv
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Scientific advances have emboldened human efforts toward exploring the potential of extinct, extant, or future life on Mars. An important aspect of this endeavor is understanding how an organism adapts to stress-inducing environmental conditions on Mars, such as radiation, shock waves, extreme temperatures, and chaotropic stress due to higher levels of perchlorates. A conserved approach used by organisms across evolutionary scales to adapt and overcome stress conditions is the assembly of ribonucleoprotein (RNP) condensates. In this study, we employ a multidisciplinary approach to understand yeast survivability and adaptation under Mars-like stress conditions, specifically shock waves and perchlorate, by focusing on RNP condensates. Our study reveals that yeast survives 5.6 M intensity shock waves. Exposure to either shock waves or sodium perchlorate induces the formation of P-bodies, a conserved stress-induced condensate. Yeast mutants defective in P-body assembly show defective growth in response to perchlorate stress. Transcriptome analysis, followed by validation, identified several relevant transcripts whose levels are perturbed in response to Mars-like conditions. Finally, identification of several transcripts whose abundance is altered in the P-body assembly mutant upon stress highlights a new connection between response to Martian stress conditions and RNP condensates. This study, a first of its kind, highlights the importance of RNP condensates in understanding the impact of Martian conditions on life in general. This study paves the way for using RNP condensates as a biomarker for assessing the health of life forms during space explorations.