Cellular metabolism
A curated list of preprints related to cellular metabolism at Biorxiv by Pablo Ranea Robles from the Prelights community. Special interest on lipid metabolism, peroxisomes and mitochondria.
List by Pablo Ranea Robles
Preprints:
Autophagy promotes cell and organismal survival by maintaining NAD(H) pools
https://www.biorxiv.org/content/10.1101/2020.01.31.928424v1.full
Sedlackova et al. show in this preprint a new and essential role of autophagy in maintaining cellular NAD+ and NADH levels. They found that this function is well conserved from yeasts to humans and that NAD(H) boosters could serve as a therapy in human diseases associated with autophagy-dysfunction. This is an exciting new mechanistic link between autophagy and a critical mediator in cellular metabolism.
Cardiomyocyte-specific ACSL1 Deficiency Prevents Cardiac Lipotoxicity and Alleviates Heart Dysfunction in the ob/ob Model of Obesity
https://www.biorxiv.org/content/10.1101/2020.01.24.918961v1
Pascual et al. show a potential target to improve obesity-related myocardial dysfunction. Lipid toxicity is associated with cardiac dysfunction and has been demonstrated in obese mice. Here, they report that ablation of an enzyme that activates free fatty acids to the CoA-conjugated form protected obese hearts and reversed triglyceride accumulation in those hearts.
Obesity-linked PPARγ S273 phosphorylation promotes insulin resistance through Growth Differentiation Factor 3
https://www.biorxiv.org/content/10.1101/2020.01.13.904953v1
PPAR-gamma agonist thiazolidinediones (TZDs) are potent insulin-sensitizing drugs. Still, their action is not only mediated by PPAR-gamma agonism, but also by reversal of Serine 273 phosphorylation of PPAR-gamma. However, the role of this PPAR-gamma phosphorylation had not been tested genetically until now. Hall et al. show here that mice with a mutation in that serine, so it can not be phosphorylated, are protected from insulin resistance and do not show typical TZDs side effects. They also propose a mediator of the diabetogenic role of PPAR-gamma S273 phosphorylation.
Atf-6 regulates lifespan through ER-mitochondrial calcium homeostasis
https://www.biorxiv.org/content/10.1101/2020.01.14.906693v1
The role of different cell organelles in mammalian aging is well known, but there is much to know in the interplay between these organelles. In this preprint, Burkewitz et al. studied the interaction between mitochondria and the endoplasmic reticulum (ER) in the worm C. elegans. They uncovered that inhibition of a mediator of the unfolded protein response (UPR) modulates calcium homeostasis and signaling to the mitochondria. This metabolic rewiring increased lifespan in C. elegans via the ER calcium release channel.
Pioglitazone rescues mitochondrial lipid remodeling and pyruvate dehydrogenase hyperactivation in hepatic insulin resistance
https://www.biorxiv.org/content/10.1101/2020.01.02.892992v1
Pioglitazone is an insulin-sensitizing drug prescribed for Type II Diabetes whose beneficial effects are usually associated to adipose tissue PPAR-gamma targeting. In this preprint, Shannon et al. investigated the effects of pioglitazone on hepatic mitochondrial remodeling. They found that the beneficial effects of pioglitazone in mice are dissociated from changes in TG and DAG levels in the liver. Instead, pioglitazone targeted mitochondrial lipids such as cardiolipin and inhibited PDH activation.
mTORC1-Plin3 pathway is essential to activate lipophagy and protects against hepatosteatosis
https://www.biorxiv.org/content/10.1101/812990v1
Excess of lipids is accumulated in hepatocytes in the form of lipid droplets (LDs), but aberrant accumulation of LDs is detrimental and is involved in diseases like NAFLD. One way to relieve lipotoxicity is to degrade LDs by autophagy (lipophagy). Here, García-Macia et al. show that Plin3, a member of the perilipin family of proteins that coat LDs, is also involved in LD autophagy. They also show that mTORC1 phosphorylates and, surprisingly, activates Plin3 and lipophagy. Silencing of Plin3 inhibited lipophagy and induced lipid accumulation.
Transcriptomic Profiling of Skeletal Muscle Adaptations to Exercise and Inactivity
https://www.biorxiv.org/content/10.1101/813048v1
To better understand the transcriptomic changes underlying the adaptations in skeletal muscle to exercise and sedentarism Pillon et al. integrated data from 66 published datasets. This extensive compilation of transcriptomics data revealed different pathways activated by inactivity, different types of exercise and different modes of training. NR4A3 (Nor1) was identified as one of the most responsive genes to exercise and inactivity. They also provide an online interface to explore the database.
PHGDH supports liver ceramide synthesis and sustains lipid homeostasis
https://www.biorxiv.org/content/10.1101/838482v1
D-3-phosphoglycerate dehydrogenase (PHGDH) catalyzes the first step of de novo biosynthesis of L-serine. PHGDH has been proposed as an attractive target for cancer therapy since PHGDH activity is consistently high in many cancers. In this work, Kang et al. knocked down PHGDH in non-CNS adult murine tissues with a PHGDH shRNA under the control of a doxycycline-inducible promoter. There was no overt phenotype in adult tissues after PHGDH depletion. Moreover, serum and hepatic ceramide levels were decreased and triglycerides with longer and unsaturated acyl chains were increased. This work suggest that PHGDH inhibitors could be well tolerated for cancer therapy.
Tissue-Specific Alteration of Metabolic Pathways Influences Glycemic Regulation
https://www.biorxiv.org/content/10.1101/790618v1
Little et al. show here a method to integrate cellular metabolism studies with SeaHorse together with fluorescent dyes that allow to add information about mitochondrial dynamics and mitochondrial function.
ER stress sensor Ire1 deploys a divergent transcriptional program in response to lipid bilayer stress
https://www.biorxiv.org/content/10.1101/774133v1
This preprint shed light on the mechanism of insulin resistance and its relation to hyperinsulinemia in muscle cells. They show that insulin receptor (Insr) levels were negatively correlated to insulin levels in muscle cells and mouse skeletal muscle, which suggest that hyperinsulinemia causes insulin resistance rather than being a compensatory mechanism.
mTORC1 signaling is not essential for the maintenance of muscle mass and function in adult sedentary mice
https://www.biorxiv.org/content/10.1101/736538v1
Mammalian target of rapamycin complex 1 (mTORC1) is a key regulator of protein homeostasis in the muscle. Rapamycin, an mTOR inhibitor, is widely used but its effect on muscle mass are not well known yet. To elucidate the role of mTORC1 in maintaining muscle mass in adulthood, Ham et al. inhibited mTORC1 signaling in the skeletal muscle of adult mice. They inhibited mTORC1 by ablating Raptor, a regulator of mTORC1 signaling. They found that muscle mass and function were not affected at 5 months of age, suggesting that muscle maintenance in sedentary mice does not require mTORC1 activity.
Lecithin:Retinol Acyl Transferase (LRAT) induces the formation of lipid droplets
https://www.biorxiv.org/content/10.1101/733931v1
Seamet, a new metabolomics method to measure metabolites in seawater using GC/MS is described in this preprint. This method overcomes the limitations of salt in marine metabolomics.
Housing temperature influences exercise training adaptations in mice
https://www.biorxiv.org/content/10.1101/651588v1
Another report on different physiological response of rodents under different housting temperatures. Raun et al. show here that exercise-induced metabolic adaptations were blunted when mice were housed in thermoneutral conditions (30 °C).
Exercise does not induce browning of WAT at thermoneutrality and induces an oxidative, myogenic signature in BAT
https://www.biorxiv.org/content/10.1101/649061v1
Rodents are usually housed below their thermoneutral zone, but studies done at thermoneutrality show that their physiology is completely different, because brown adipose tissue (BAT) is hyperactive below thermoneutrality. Aldiss et al. show here that exercise does not induce browing of white adipose tissue (WAT) and a different response in BAT in rats housed at thermoneutrality (28 °C).
Spastin tethers lipid droplets to peroxisomes and directs fatty acid trafficking through ESCRT-III
https://www.biorxiv.org/content/10.1101/544023v1
Peroxisomes interact with other organelles within the cell, but how they do it remain largely unknown. Here Chang et al. describe a tether between peroxisomes and lipid droplets that transfer fatty acids.
Presynaptic boutons that contain mitochondria are more stable
https://www.biorxiv.org/content/10.1101/580530v1
Mitochondria are crucial for energy generation in the central nervous system and their dysfunction is related to multiple neurodegenerative diseases. Here, Lees et al. show that presynapses with more mitochondria are more stable, which open new avenues of research on the role of cellular metabolism and bioenergetics on synaptic structural plasticity.
Categories: biochemistry , cell biology , pathology , physiology
Posted on: 21 May 2019 , updated on: 19 February 2020
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BSCB-Biochemical Society 2024 Cell Migration meeting
This preList features preprints that were discussed and presented during the BSCB-Biochemical Society 2024 Cell Migration meeting in Birmingham, UK in April 2024. Kindly put together by Sara Morais da Silva, Reviews Editor at Journal of Cell Science.
| List by | Reinier Prosee |
Peer Review in Biomedical Sciences
Communication of scientific knowledge has changed dramatically in recent decades and the public perception of scientific discoveries depends on the peer review process of articles published in scientific journals. Preprints are key vehicles for the dissemination of scientific discoveries, but they are still not properly recognized by the scientific community since peer review is very limited. On the other hand, peer review is very heterogeneous and a fundamental aspect to improve it is to train young scientists on how to think critically and how to evaluate scientific knowledge in a professional way. Thus, this course aims to: i) train students on how to perform peer review of scientific manuscripts in a professional manner; ii) develop students' critical thinking; iii) contribute to the appreciation of preprints as important vehicles for the dissemination of scientific knowledge without restrictions; iv) contribute to the development of students' curricula, as their opinions will be published and indexed on the preLights platform. The evaluations will be based on qualitative analyses of the oral presentations of preprints in the field of biomedical sciences deposited in the bioRxiv server, of the critical reports written by the students, as well as of the participation of the students during the preprints discussions.
| List by | Marcus Oliveira et al. |
CellBio 2022 – An ASCB/EMBO Meeting
This preLists features preprints that were discussed and presented during the CellBio 2022 meeting in Washington, DC in December 2022.
| List by | Nadja Hümpfer et al. |
20th “Genetics Workshops in Hungary”, Szeged (25th, September)
In this annual conference, Hungarian geneticists, biochemists and biotechnologists presented their works. Link: http://group.szbk.u-szeged.hu/minikonf/archive/prg2021.pdf
| List by | Nándor Lipták |
Fibroblasts
The advances in fibroblast biology preList explores the recent discoveries and preprints of the fibroblast world. Get ready to immerse yourself with this list created for fibroblasts aficionados and lovers, and beyond. Here, my goal is to include preprints of fibroblast biology, heterogeneity, fate, extracellular matrix, behavior, topography, single-cell atlases, spatial transcriptomics, and their matrix!
| List by | Osvaldo Contreras |
ASCB EMBO Annual Meeting 2019
A collection of preprints presented at the 2019 ASCB EMBO Meeting in Washington, DC (December 7-11)
| List by | Madhuja Samaddar et al. |
EMBL Seeing is Believing – Imaging the Molecular Processes of Life
Preprints discussed at the 2019 edition of Seeing is Believing, at EMBL Heidelberg from the 9th-12th October 2019
| List by | Dey Lab |
MitoList
This list of preprints is focused on work expanding our knowledge on mitochondria in any organism, tissue or cell type, from the normal biology to the pathology.
| List by | Sandra Franco Iborra |
Also in the cell biology category:
November in preprints – the CellBio edition
This is the first community-driven preList! A group of preLighters, with expertise in different areas of cell biology, have worked together to create this preprint reading lists for researchers with an interest in cell biology. Categories include: 1) cancer cell biology 2) cell cycle and division 3) cell migration and cytoskeleton 4) cell organelles and organisation 5) cell signalling and mechanosensing 6) genetics/gene expression
| List by | Felipe Del Valle Batalla et al. |
BSCB-Biochemical Society 2024 Cell Migration meeting
This preList features preprints that were discussed and presented during the BSCB-Biochemical Society 2024 Cell Migration meeting in Birmingham, UK in April 2024. Kindly put together by Sara Morais da Silva, Reviews Editor at Journal of Cell Science.
| List by | Reinier Prosee |
‘In preprints’ from Development 2022-2023
A list of the preprints featured in Development's 'In preprints' articles between 2022-2023
| List by | Alex Eve, Katherine Brown |
preLights peer support – preprints of interest
This is a preprint repository to organise the preprints and preLights covered through the 'preLights peer support' initiative.
| List by | preLights peer support |
The Society for Developmental Biology 82nd Annual Meeting
This preList is made up of the preprints discussed during the Society for Developmental Biology 82nd Annual Meeting that took place in Chicago in July 2023.
| List by | Joyce Yu, Katherine Brown |
CSHL 87th Symposium: Stem Cells
Preprints mentioned by speakers at the #CSHLsymp23
| List by | Alex Eve |
Journal of Cell Science meeting ‘Imaging Cell Dynamics’
This preList highlights the preprints discussed at the JCS meeting 'Imaging Cell Dynamics'. The meeting was held from 14 - 17 May 2023 in Lisbon, Portugal and was organised by Erika Holzbaur, Jennifer Lippincott-Schwartz, Rob Parton and Michael Way.
| List by | Helen Zenner |
9th International Symposium on the Biology of Vertebrate Sex Determination
This preList contains preprints discussed during the 9th International Symposium on the Biology of Vertebrate Sex Determination. This conference was held in Kona, Hawaii from April 17th to 21st 2023.
| List by | Martin Estermann |
Alumni picks – preLights 5th Birthday
This preList contains preprints that were picked and highlighted by preLights Alumni - an initiative that was set up to mark preLights 5th birthday. More entries will follow throughout February and March 2023.
| List by | Sergio Menchero et al. |
CellBio 2022 – An ASCB/EMBO Meeting
This preLists features preprints that were discussed and presented during the CellBio 2022 meeting in Washington, DC in December 2022.
| List by | Nadja Hümpfer et al. |
Fibroblasts
The advances in fibroblast biology preList explores the recent discoveries and preprints of the fibroblast world. Get ready to immerse yourself with this list created for fibroblasts aficionados and lovers, and beyond. Here, my goal is to include preprints of fibroblast biology, heterogeneity, fate, extracellular matrix, behavior, topography, single-cell atlases, spatial transcriptomics, and their matrix!
| List by | Osvaldo Contreras |
EMBL Synthetic Morphogenesis: From Gene Circuits to Tissue Architecture (2021)
A list of preprints mentioned at the #EESmorphoG virtual meeting in 2021.
| List by | Alex Eve |
FENS 2020
A collection of preprints presented during the virtual meeting of the Federation of European Neuroscience Societies (FENS) in 2020
| List by | Ana Dorrego-Rivas |
Planar Cell Polarity – PCP
This preList contains preprints about the latest findings on Planar Cell Polarity (PCP) in various model organisms at the molecular, cellular and tissue levels.
| List by | Ana Dorrego-Rivas |
BioMalPar XVI: Biology and Pathology of the Malaria Parasite
[under construction] Preprints presented at the (fully virtual) EMBL BioMalPar XVI, 17-18 May 2020 #emblmalaria
| List by | Dey Lab, Samantha Seah |
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Cell Polarity
Recent research from the field of cell polarity is summarized in this list of preprints. It comprises of studies focusing on various forms of cell polarity ranging from epithelial polarity, planar cell polarity to front-to-rear polarity.
| List by | Yamini Ravichandran |
TAGC 2020
Preprints recently presented at the virtual Allied Genetics Conference, April 22-26, 2020. #TAGC20
| List by | Maiko Kitaoka et al. |
3D Gastruloids
A curated list of preprints related to Gastruloids (in vitro models of early development obtained by 3D aggregation of embryonic cells). Updated until July 2021.
| List by | Paul Gerald L. Sanchez and Stefano Vianello |
ECFG15 – Fungal biology
Preprints presented at 15th European Conference on Fungal Genetics 17-20 February 2020 Rome
| List by | Hiral Shah |
ASCB EMBO Annual Meeting 2019
A collection of preprints presented at the 2019 ASCB EMBO Meeting in Washington, DC (December 7-11)
| List by | Madhuja Samaddar et al. |
EMBL Seeing is Believing – Imaging the Molecular Processes of Life
Preprints discussed at the 2019 edition of Seeing is Believing, at EMBL Heidelberg from the 9th-12th October 2019
| List by | Dey Lab |
Autophagy
Preprints on autophagy and lysosomal degradation and its role in neurodegeneration and disease. Includes molecular mechanisms, upstream signalling and regulation as well as studies on pharmaceutical interventions to upregulate the process.
| List by | Sandra Malmgren Hill |
Lung Disease and Regeneration
This preprint list compiles highlights from the field of lung biology.
| List by | Rob Hynds |
Cellular metabolism
A curated list of preprints related to cellular metabolism at Biorxiv by Pablo Ranea Robles from the Prelights community. Special interest on lipid metabolism, peroxisomes and mitochondria.
| List by | Pablo Ranea Robles |
BSCB/BSDB Annual Meeting 2019
Preprints presented at the BSCB/BSDB Annual Meeting 2019
| List by | Dey Lab |
Biophysical Society Annual Meeting 2019
Few of the preprints that were discussed in the recent BPS annual meeting at Baltimore, USA
| List by | Joseph Jose Thottacherry |
ASCB/EMBO Annual Meeting 2018
This list relates to preprints that were discussed at the recent ASCB conference.
| List by | Dey Lab, Amanda Haage |
Also in the pathology category:
Fibroblasts
The advances in fibroblast biology preList explores the recent discoveries and preprints of the fibroblast world. Get ready to immerse yourself with this list created for fibroblasts aficionados and lovers, and beyond. Here, my goal is to include preprints of fibroblast biology, heterogeneity, fate, extracellular matrix, behavior, topography, single-cell atlases, spatial transcriptomics, and their matrix!
| List by | Osvaldo Contreras |
ECFG15 – Fungal biology
Preprints presented at 15th European Conference on Fungal Genetics 17-20 February 2020 Rome
| List by | Hiral Shah |
COVID-19 / SARS-CoV-2 preprints
List of important preprints dealing with the ongoing coronavirus outbreak. See http://covidpreprints.com for additional resources and timeline, and https://connect.biorxiv.org/relate/content/181 for full list of bioRxiv and medRxiv preprints on this topic
| List by | Dey Lab, Zhang-He Goh |
1
Cellular metabolism
A curated list of preprints related to cellular metabolism at Biorxiv by Pablo Ranea Robles from the Prelights community. Special interest on lipid metabolism, peroxisomes and mitochondria.
| List by | Pablo Ranea Robles |
Also in the physiology category:
Fibroblasts
The advances in fibroblast biology preList explores the recent discoveries and preprints of the fibroblast world. Get ready to immerse yourself with this list created for fibroblasts aficionados and lovers, and beyond. Here, my goal is to include preprints of fibroblast biology, heterogeneity, fate, extracellular matrix, behavior, topography, single-cell atlases, spatial transcriptomics, and their matrix!
| List by | Osvaldo Contreras |
FENS 2020
A collection of preprints presented during the virtual meeting of the Federation of European Neuroscience Societies (FENS) in 2020
| List by | Ana Dorrego-Rivas |
TAGC 2020
Preprints recently presented at the virtual Allied Genetics Conference, April 22-26, 2020. #TAGC20
| List by | Maiko Kitaoka et al. |
Autophagy
Preprints on autophagy and lysosomal degradation and its role in neurodegeneration and disease. Includes molecular mechanisms, upstream signalling and regulation as well as studies on pharmaceutical interventions to upregulate the process.
| List by | Sandra Malmgren Hill |
Also in the biochemistry category:
Triglyceride metabolism controls inflammation and APOE4-associated disease states in microglia
Gustavo Stelzer, Marcus Oliveira
Impaired 26S proteasome causes learning and memory deficiency and induces neuroinflammation mediated by NF-κB in mice
Gustavo Stelzer, Marcus Oliveira
Notch3 is a genetic modifier of NODAL signalling for patterning asymmetry during mouse heart looping
Bhaval Parmar
Also in the cell biology category:
Restoring mechanophenotype reverts malignant properties of ECM-enriched vocal fold cancer
Teodora Piskova
Germplasm stability in zebrafish requires maternal Tdrd6a and Tdrd6c
Justin Gutkowski
Leukocytes use endothelial membrane tunnels to extravasate the vasculature
Felipe Del Valle Batalla
Also in the pathology category:
Integrin conformation-dependent neutrophil slowing obstructs the capillaries of the pre-metastatic lung in a model of breast cancer
Simon Cleary
LINC complex alterations are a hallmark of sporadic and familial ALS/FTD
Megane Rayer et al.
Hypoxia blunts angiogenic signaling and upregulates the antioxidant system in elephant seal endothelial cells
Sarah Young-Veenstra
Also in the physiology category:
Investigating Mechanically Activated Currents from Trigeminal Neurons of Non-Human Primates
Vanessa Ehlers
Geometric analysis of airway trees shows that lung anatomy evolved to enable explosive ventilation and prevent barotrauma in cetaceans
Sarah Young-Veenstra
Precision Farming in Aquaculture: Use of a non-invasive, AI-powered real-time automated behavioural monitoring approach to predict gill health and improve welfare in Atlantic salmon (Salmo salar) aquaculture farms
Jasmine Talevi
