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JOURNAL ARTICLE
Jobelle Peralta, Blake DuPriest, Daniel Orozco, Juan Reyna Pacheco, Laura Martins, Rachel Ann Soriano, Alan Wong, Ramy Wong, Bree Grillo-Hill
Autophagy is a conserved catabolic process where double membrane-bound structures form around macromolecules or organelles targeted for degradation. Autophagosomes fuse with lysosomes to facilitate degradation and macromolecule recycling for homeostasis or growth in a cell autonomous fashion. In cancer cells, autophagy is often upregulated and helps cancer cells survive nutrient deprivation and stressful growth conditions. Here, we propose that the increased intracellular pH (pHi) common to cancer cells is sufficient to induce autophagic cell death...
May 2, 2024: Molecular Biology of the Cell
#2
JOURNAL ARTICLE
Di Peng, Liubin Zheng, Dan Liu, Cheng Han, Xin Wang, Yan Yang, Li Song, Miaoying Zhao, Yanfeng Wei, Jiayi Li, Xiaoxue Ye, Yuxiang Wei, Zihao Feng, Xinhe Huang, Miaomiao Chen, Yujie Gou, Yu Xue, Luoying Zhang
Sleep, locomotor and social activities are essential animal behaviors, but their reciprocal relationships and underlying mechanisms remain poorly understood. Here, we elicit information from a cutting-edge large-language model (LLM), generative pre-trained transformer (GPT) 3.5, which interprets 10.2-13.8% of Drosophila genes known to regulate the 3 behaviors. We develop an instrument for simultaneous video tracking of multiple moving objects, and conduct a genome-wide screen. We have identified 758 fly genes that regulate sleep and activities, including mre11 which regulates sleep only in the presence of conspecifics, and NELF-B which regulates sleep regardless of whether conspecifics are present...
May 1, 2024: Nature Communications
#3
JOURNAL ARTICLE
Liyuan Sui, Christian Dahmann
Dynamic changes in three-dimensional cell shape are important for tissue form and function. In the developing Drosophila eye, photoreceptor differentiation requires the progression across the tissue of an epithelial fold known as the morphogenetic furrow. Morphogenetic furrow progression involves apical cell constriction and movement of apical cell edges. Here, we show that cells progressing through the morphogenetic furrow move their basal edges in opposite direction to their apical edges, resulting in a cellular tilting movement...
April 29, 2024: Developmental Cell
#4
JOURNAL ARTICLE
Julian Gurgo, Jean-Charles Walter, Jean-Bernard Fiche, Christophe Houbron, Marie Schaeffer, Giacomo Cavalli, Frédéric Bantignies, Marcelo Nollmann
Polycomb (Pc) group proteins are transcriptional regulators with key roles in development, cell identity, and differentiation. Pc-bound chromatin regions form repressive domains that interact in 3D to assemble repressive nuclear compartments. Here, we use multiplexed chromatin imaging to investigate whether Pc compartments involve the clustering of multiple Pc domains during Drosophila development. Notably, 3D proximity between Pc targets is rare and involves predominantly pairwise interactions. These 3D proximities are particularly enhanced in segments where Pc genes are co-repressed...
April 30, 2024: Cell Reports
#5
JOURNAL ARTICLE
Gbolahan Bamgbose, Guillaume Bordet, Niraj Lodhi, Alexei Tulin
PARP-1 is central to transcriptional regulation under both normal and stress conditions, with the governing mechanisms yet to be fully understood. Our biochemical and ChIP-seq-based analyses showed that PARP-1 binds specifically to active histone marks, particularly H4K20me1. We found that H4K20me1 plays a critical role in facilitating PARP-1 binding and the regulation of PARP-1-dependent loci during both development and heat shock stress. Here, we report that the sole H4K20 mono-methylase, pr-set7 , and parp-1 Drosophila mutants undergo developmental arrest...
May 1, 2024: ELife
#6
JOURNAL ARTICLE
Ariane Mandlbauer, Qiong Sun, Niko Popitsch, Tanja Schwickert, Miroslava Spanova, Jingkui Wang, Stefan L Ameres, Meinrad Busslinger, Luisa Cochella
Many microRNAs (miRNAs) are expressed with high spatiotemporal specificity during organismal development, with some being limited to rare cell types, often embedded in complex tissues. Yet, most miRNA profiling efforts remain at the tissue and organ levels. To overcome challenges in accessing the microRNomes from tissue-embedded cells, we had previously developed mime-seq (miRNome by methylation-dependent sequencing), a technique in which cell-specific miRNA methylation in C. elegans and Drosophila enabled chemo-selective sequencing without the need for cell sorting or biochemical purification...
April 30, 2024: EMBO Journal
#7
JOURNAL ARTICLE
Tingting Wang, C Andrew Frank
The Drosophila melanogaster neuromuscular junction (NMJ) is an easily accessible synapse and an excellent model for understanding synapse development, function, and plasticity. A form of plasticity called presynaptic homeostatic potentiation (PHP) operates at the NMJ and keeps synapse excitation levels stable. PHP can be induced rapidly in 10 min by application of a pharmacological antagonist of glutamate receptors (philanthotoxin-433) or chronically by deletion of the gene encoding the postsynaptic glutamate receptor subunit GluRIIA...
April 30, 2024: Cold Spring Harbor Protocols
#8
JOURNAL ARTICLE
Dajia Ye, Justin T Walsh, Ian P Junker, Yun Ding
How evolutionary changes in genes and neurons encode species variation in complex motor behaviors is largely unknown. Here, we develop genetic tools that permit a neural circuit comparison between the model species Drosophila melanogaster and the closely related species D. yakuba, which has undergone a lineage-specific loss of sine song, one of the two major types of male courtship song in Drosophila. Neuroanatomical comparison of song-patterning neurons called TN1 across the phylogeny demonstrates a link between the loss of sine song and a reduction both in the number of TN1 neurons and the neurites supporting the sine circuit connectivity...
April 24, 2024: Current Biology: CB
#9
JOURNAL ARTICLE
Jonathan A Jackson, Marlis Denk-Lobnig, Katherine A Kitzinger, Adam C Martin
Actin cortex patterning and dynamics are critical for cell shape changes. These dynamics undergo transitions during development, often accompanying changes in collective cell behavior. Although mechanisms have been established for individual cells' dynamic behaviors, the mechanisms and specific molecules that result in developmental transitions in vivo are still poorly understood. Here, we took advantage of two developmental systems in Drosophila melanogaster to identify conditions that altered cortical patterning and dynamics...
April 21, 2024: Current Biology: CB
#10
JOURNAL ARTICLE
Camila Heloise Dos Santos, Emanuele Cristina Gustani, Luciana Paes de Barros Machado, Rogério Pincela Mateus
The ability of an organism to respond to nutritional stress can be a plastic character under the action of natural selection, affecting several characteristics, including life history and energy storage. The genus Drosophila (Diptera; Drosophilidae) presents high variability regarding natural resource exploration. However, most works on this theme have studied the model species D. melanogaster Meigen, 1830 and little is known about Neotropical drosophilids. Here we evaluate the effects of three diets, with different carbohydrate-to-protein ratios, on life history (viability and development time) and metabolic pools (triglycerides, glycogen, and total soluble protein contents) of three Neotropical species of Drosophila: D...
April 30, 2024: Neotropical Entomology
#11
JOURNAL ARTICLE
Claire M Lye, Guy B Blanchard, Jenny Evans, Alexander Nestor-Bergmann, Bénédicte Sanson
As tissues grow and change shape during animal development, they physically pull and push on each other, and these mechanical interactions can be important for morphogenesis. During Drosophila gastrulation, mesoderm invagination temporally overlaps with the convergence and extension of the ectodermal germband; the latter is caused primarily by Myosin II-driven polarised cell intercalation. Here, we investigate the impact of mesoderm invagination on ectoderm extension, examining possible mechanical and mechanotransductive effects on Myosin II recruitment and polarised cell intercalation...
April 29, 2024: PLoS Biology
#12
JOURNAL ARTICLE
Elena Nikonova, Jenna DeCata, Marc Canela, Christiane Barz, Alexandra Esser, Jessica Bouterwek, Akanksha Roy, Heidemarie Gensler, Martin Heß, Tobias Straub, Ignasi Forne, Maria L Spletter
Muscles undergo developmental transitions in gene expression and alternative splicing that are necessary to refine sarcomere structure and contractility. CUG-BP and ETR-3-like (CELF) family RNA-binding proteins are important regulators of RNA processing during myogenesis that are misregulated in diseases such as Myotonic Dystrophy Type I (DM1). Here, we report a conserved function for Bruno 1 (Bru1, Arrest), a CELF1/2 family homolog in Drosophila, during early muscle myogenesis. Loss of Bru1 in flight muscles results in disorganization of the actin cytoskeleton leading to aberrant myofiber compaction and defects in pre-myofibril formation...
April 29, 2024: PLoS Biology
#13
JOURNAL ARTICLE
Isabella Schember, William Reid, Geyenna Sterling-Lentsch, Marc S Halfon
Transcriptional cis-regulatory modules, e.g., enhancers, control the time and location of metazoan gene expression. While changes in enhancers can provide a powerful force for evolution, there is also significant deep conservation of enhancers for developmentally important genes, with function and sequence characteristics maintained over hundreds of millions of years of divergence. Not well understood, however, is how the overall regulatory composition of a locus evolves, with important outstanding questions such as how many enhancers are conserved vs...
April 29, 2024: PLoS Genetics
#14
JOURNAL ARTICLE
Elizabeth L Graham, Joel Fernandez, Shagun Gandhi, Iqra Choudhry, Natalia Kellam, Jeannine R LaRocque
Accurate repair of DNA double-strand breaks (DSBs) is essential for the maintenance of genome integrity, as failure to repair DSBs can result in cell death. The cell has evolved two main mechanisms for DSB repair: non-homologous end-joining (NHEJ) and homology-directed repair (HDR), which includes single-strand annealing (SSA) and homologous recombination (HR). While certain factors like age and state of the chromatin are known to influence DSB repair pathway choice, the roles of developmental stage, tissue type, and sex have yet to be elucidated in multicellular organisms...
April 2024: PLoS Genetics
#15
JOURNAL ARTICLE
Allison M Box, Navyashree A Ramesh, Shyama Nandakumar, Samuel Jaimian Church, Dilan Prasad, Ariana Afrakhteh, Russell S Taichman, Laura Buttitta
The Drosophila melanogaster male accessory gland is a functional analog of the mammalian prostate and seminal vesicles containing two secretory epithelial cell types, termed main and secondary cells. This tissue is responsible for making and secreting seminal fluid proteins and other molecules that contribute to successful reproduction. The cells of this tissue are bi-nucleate and polyploid, due to variant cell cycles that include endomitosis and endocycling during metamorphosis. Here we provide evidence of additional cell cycle variants in this tissue...
April 29, 2024: G3: Genes—Genomes—Genetics
#16
REVIEW
Arman Fesharaki-Zadeh, Dibyadeep Datta
BACKGROUND: Traumatic brain injury (TBI) is a major cause of morbidity and mortality, affecting millions annually worldwide. Although the majority of TBI patients return to premorbid baseline, a subset of patient can develop persistent and often debilitating neurocognitive and behavioral changes. The etiology of TBI within the clinical setting is inherently heterogenous, ranging from sport related injuries, fall related injuries and motor vehicle accidents in the civilian setting, to blast injuries in the military setting...
2024: Frontiers in Cellular Neuroscience
#17
JOURNAL ARTICLE
Michael Ryan Kann, Martin K Ackerman, Sarah D Ackerman
Optogenetics is a powerful tool used to manipulate physiological processes in animals through cell-specific expression of genetically modified channelrhodopsins. In Drosophila melanogaster, optogenetics is frequently used for temporal control of neuronal activation or silencing through light-dependent actuation of cation and anion channelrhodopsins, respectively. The high setup costs and complexity associated with commercially available optogenetic systems prevents many investigators from exploring the use of this technology...
2024: microPublication. Biology
#18
JOURNAL ARTICLE
Lauren Thomson, Hemin P Shah, Victoria Akinwotu Adewale, Alyssa Beise, Camryn Bliayang, Zuzanna Cioch, Mason Craig, Adell Crump, Maya Durdan, Madeleine Espinosa, Kaitlin Feda, Jami Feist, Alexis Fragoso, Genesys Haro, Breanna Hoffman, Paige Horne, Nathan Houha, Shirley Hounnou, Annabel Inman, Daniel Jakobsze, Yolanda Juarez-Morales, Yousuf Khan, Joshua Kohler, Reece Lawlor, Bethany Lieser, Ryan Loitz, Erik Martinez, Alexis Martinez, Michelle Martinez, Brandyn Maza, Brenda Mendoza, Steven Miller, Haniel Mngodo, Sarah O'Shea, Sarah N Piane, Ethan Raivala, Sophie Ruger, Abigail Singer, Jessica E Strand, Alexis Traylor, Asia Wright, Shawn McCabe, Sandesh S Pandit, Kayla Bieser, Paula Croonquist, Elizabeth E Taylor, Jacqueline Wittke-Thompson, Jacob D Kagey, Olivier Devergne
Genetic screens are valuable for identifying novel genes involved in the regulation of developmental processes. To identify genes associated with cell growth regulation in Drosophila melanogaster , a mutagenesis screen was performed. Undergraduate students participating in Fly-CURE phenotypically characterized the E.4.1 mutant which is associated with rough eyes and antennae overgrowth. Following complementation analysis and subsequent genomic sequencing, E.4.1 was identified as a novel mutant allele of GstE14 , a gene involved in ecdysone biosynthesis important for the timing of developmental events...
2024: microPublication. Biology
#19
JOURNAL ARTICLE
M B Schwartz, M M Prudnikova, O V Andreenkov, E I Volkova, I F Zhimulev, O V Antonenko, S A Demakov
The bantam gene encodes a vital microRNA and has a complex expression pattern in various tissues at different stages of Drosophila development. This microRNA is involved in the control of normal development of the ocular and wing imaginal discs, the central nervous system, and also in maintaining the undifferentiated state of stem cells in the ovaries of adult females. At the cellular level, bantam stimulates cell proliferation and prevents apoptosis. The bantam gene is a target of several conserved signaling cascades, in particular, Hippo...
April 2024: Vavilovskii Zhurnal Genetiki i Selektsii
#20
JOURNAL ARTICLE
Sara Ahmed-de-Prado, Carlos Estella, Antonio Baonza
BACKGROUND: The ability of animals to regenerate damaged tissue is a complex process that involves various cellular mechanisms. As animals age, they lose their regenerative abilities, making it essential to understand the underlying mechanisms that limit regenerative ability during aging. Drosophila melanogaster wing imaginal discs are epithelial structures that can regenerate after tissue injury. While significant research has focused on investigating regenerative responses during larval stages our comprehension of the regenerative potential of pupal wings and the underlying mechanisms contributing to the decline of regenerative responses remains limited...
April 29, 2024: BMC Biology
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