Biology Open

Article	Citations
Fast & Fair peer review: a bold experiment in scientific publishing	46
Over-expressing NadA quinolinate synthase inEscherichia colienhances the bioelectrochemistry in microbial fuel cells	36
Hip stabilization in an australopithecine-like hip: the influence of shape on muscle activation	36
Chromosomal organization of multigene families and meiotic analysis in species of Loricariidae (Siluriformes) from Brazilian Amazon, with description of a new cytotype for genus Spatuloricaria	30
Macrophages allocate before apoptosis initiation and produce reactive oxygen species during interdigital phagocytosis	28
Divalent metal content in diet affects severity of manganese toxicity in Drosophila	25
The extracellular matrix controls stem cell specification and crypt morphology in the developing and adult mouse gut	25
Reorganization of the heterochromatin-associated gene-dense subcompartment in early neuronal development	24
Concrete consequences: construction on prime honey bee habitat doubles foraging distances	24
EyeHex toolbox for complete segmentation of ommatidia in fruit fly eyes	23
Knee position affects medial gastrocnemius and soleus activation during dynamic plantarflexion: no evidence for an inter-muscle compensation in healthy young adults	21
First person – Rajeshwari B. R.	21
First person – Daisy Pineda-Suazo	21
A year at the forefront of plasmodesmal biology	21
Primary human neutrophils and monocytes migrate along endothelial cell boundaries to optimize search efficiency under static in vitro conditions	18
Cuticular microstructure of the locust femur–tibia joint	17
The importance of considering regulatory domains in genome-wide analyses – the nearest gene is often wrong!	17
Unpredictable aggressive defence of the venomous snake, Crotalus ravus, towards predators and humans	17
Local differences in robustness to ocean acidification	17
Fluorescent protein tags for human tropomyosin isoform comparison	16
Correction: Stable atrogin-1 (Fbxo32) and MuRF1 (Trim63) gene expression is involved in the protective mechanism in soleus muscle of hibernating Daurian ground squirrels (<	15
Young minds, deeper insights: a recap of the BMAS Summer School 2023, ranging from basic research to clinical implications of bone marrow adipose tissue	15
Shaping the future of male reproductive health: fostering talent at the 14th Network of Young Researchers in Andrology meeting	15
Future leader to watch – Tania Martins-Marques	14
shRNAs targeting mouseAdam10diminish cell response to proinflammatory stimuli independently ofAdam10silencing	14

Rhoptry kinase protein 39 (ROP39) is a novel factor that recruits host mitochondria to the parasitophorous vacuole of Toxoplasma gondii	14
Manipulating mitochondrial reactive oxygen species alters survival in unexpected ways in a Drosophila Cdk5 model of neurodegeneration	13
First person – Franziska Hacker	13
First person – Mikaela Scheer	12
The relationship between locomotion and hindlimb morphology in the leopard (Panthera pardus) using a geometric morphometric approach	12
EFEMP1 contributes to light-dependent ocular growth in zebrafish	12
An experimental test of chronic traffic noise exposure on parental behaviour and reproduction in zebra finches	12
Empowering tomorrow's leaders: the impact of the 15th Network of Young Researchers in Andrology (NYRA) meeting on male reproductive health and interdisciplinary collaboration	11
Ccn2a acts downstream of cx43 to influence joint formation during zebrafish fin regeneration	11
The Endosomal Sorting Complex, ESCRT, has diverse roles in blood progenitor maintenance, lineage choice and immune response	11
NANOS3 suppresses premature spermatogonial differentiation to expand progenitors and fine-tunes spermatogenesis in mice	11
Insulated piggyBac and FRT vectors for engineering transgenic homozygous and heterozygous eHAP cells	11
Retraction: Overexpression of long non-coding RNA SBF2-AS1 promotes cell progression in esophageal squamous cell carcinoma (ESCC) by repressing miR-494 to up-regulate PFN2 expression	11
Dynamic shapes of the zygote and two-cell mouse and human	11
From fossils to future – Jane Francis on polar exploration and changing climates	10
First person – Avery Hinks	10
The Abl-interactor Abi suppresses the function of the BRAG2 GEF family member Schizo	10
Fully automated point spread function analysis using PyCalibrate	10
First person – Tom Carruthers	10
Differential effect of ubiquitous and germline depletion of Integrator complex function on C. elegans physiology	10
Feeding a rich diet supplemented with the translation inhibitor cycloheximide decreases lifespan and ovary size in Drosophila	10
Ethanol downregulates gastrula gene expression and cell movement, causing symptoms of foetal alcohol spectrum disorders	10
Social interactions among ants are impacted by food availability and group size	9
Dorso-ventral heterogeneity in tracheal basal stem cells	9
Investigating the link between morphological characteristics and diet in an island population of omnivorous reptiles (Sphenodon punctatus)	9
Effects of blood extraction and ecophysiological experiments on stress in adult males of Liolaemus attenboroughi	9
Winging it: hummingbirds alter flying kinematics during molt	9
Holding time has limited impact on constitutive innate immune function in a long-lived Antarctic seabird, the Adélie penguin: implications for field studies	9
First person – Leah Eller	9
Cellular senescence limits translational readthrough	9
Normotensive metabolic syndrome in Transient Receptor Potential Canonical Channel type 1 Trpc1−/− mice.	9
Hotter deserts and the impending challenges for the spiny-tailed Lizard in India	9
Parental exposure to ocean acidification impacts gamete production and physiology but not offspring performance in Nematostella vectensis	8
Mutational cooperativity of RUNX1::RUNX1T1 isoform 9a and oncogenic NRAS in zebrafish myeloid leukaemia	8
Euglena International Network (EIN): Driving euglenoid biotechnology for the benefit of a challenged world	8
Zika virus-induces metabolic alterations in fetal neuronal progenitors that could influence in neurodevelopment during early pregnancy	8
Meeting proceedings of the 43rd Indian Association for Cancer Research (IACR)	8
First person – Angela Fan and Yoldas Yildiz	8
Metabolic shift towards oxidative phosphorylation reduces cell-density-induced cancer-stem-cell-like characteristics in prostate cancer in vitro	8
Aging disrupts spatiotemporal regulation of germline stem cells and niche integrity	8
Protein complexes from mouse and chick brain that interact with phospho-KXGS motif tau/microtubule associated protein antibody	8
Intrinsic function of the peptidylarginine deiminase PADI4 is dispensable for normal haematopoiesis	8
Bees display limited acclimation capacity for heat tolerance	8
First person – Isabelle Toussaint-Lardé	8
Investigating the effect of cholinergic and adrenergic blocking agents on maternal-fetal heart rates and their interactions in mice fetuses	8
ASCL2 is a key regulator of the proliferation–differentiation equilibrium in the esophageal epithelium	8
Pacsin2 is required for endocytosis in the zebrafish pronephric tubule	8
Reliable replicative lifespan determination of yeast with a single-channel microfluidic chip	7
Characterization of nuclear pore complex targeting domains in Pom152 in Saccharomyces cerevisiae	7
CDX2 dose-dependently influences the gene regulatory network underlying human extraembryonic mesoderm development	7

The zebrafish ETS transcription factor Fli1b functions upstream of Scl/Tal1 during embryonic hematopoiesis	7
Neural crest development and disorders: from patient to model system and back again – the NEUcrest conference	7
Response to Correspondence: Hajnal et al. ‘The role of lin-12 notch in C. elegans anchor cell proliferation’	7
Arf6 is necessary for senseless expression in response to wingless signalling during Drosophila wing development	7
Hormonal regulation of miRNA during mammary gland development	7
Na,K-ATPase activity promotes macropinocytosis in colon cancer via Wnt signaling	7
Retraction: Overexpression of Wnt7a enhances radiosensitivity of non-small-cell lung cancer via the Wnt/JNK pathway	7
SlicerMorph photogrammetry: an open-source photogrammetry workflow for reconstructing 3D models	7
Temporal integration and decision-making in crocodiles	7
Computational anatomy and geometric shape analysis enables analysis of complex craniofacial phenotypes in zebrafish	7
Glycogen synthase is required for heat shock-mediated autophagy induction in neuronal cells	7
Frequency-dependent avoidance movement of glass catfish in response to sinusoidal electrical stimulation and associated spiking patterns of electroreceptors	7
Single-motor and multi-motor motility properties of kinesin-6 family members	7
Wnt and BMP signalling direct anterior–posterior differentiation in aggregates of mouse embryonic stem cells	6
Coilin as a regulator of NF-kB mediated inflammation in preeclampsia	6
Antimicrobial peptide expression in the cockroach gut during enterobacterial infection is specific and influenced by type III secretion	6
Nondeterministic nature of sensorineural outcomes following noise trauma	6
Changes in mitochondrial distribution occur at the axon initial segment in association with neurodegeneration in Drosophila	6
Retraction: MicroRNA-96-5p promotes proliferation, invasion and EMT of oral carcinoma cells by directly targeting FOXF2	6
SOX2 and NR2F1 coordinate the gene expression program of the early postnatal visual thalamus	6
First person – Emily Bulger	6
Actin cytoskeleton in angiogenesis	6
Increased expression of the small lysosomal gene SVIP in the Drosophila gut suppresses pathophysiological features associated with a high-fat diet	6
Insights into Octopus maya cathepsins from metatranscriptome and genome: structure evolutionary relationships and functional role prediction in digestive processes	6
A novel technique for atraumatic transurethral catheterisation of male rats	6
Effects of vessel noise on beluga (Delphinapterus leucas) call type use: ultrasonic communication as an adaptation to noisy environments?	6
Morphlight theory inspired by raptors: musculoskeletal modeling and muscle control in Falco peregrinus wing flapping	6
Metabolic scaling of fire ants (Solenopsis invicta) engaged in collective behaviors	6
Linking peak intensity of mechanically stimulated bioluminescence and cell surface area in dinoflagellates	6
Innervation of the developing kidney in vivo and in vitro	6
Experimental playback of urban noise does not affect cognitive performance in captive Australian magpies	6
Biomechanical analysis of little penguins’ underwater locomotion from the free-ranging dive data	6
microRNA-guided immunity against respiratory virus infection in human and mouse lung cells	6
Loss of Elp1 perturbs histone H2A.Z and the Notch signaling pathway	6
An optimized retroviral toolbox for overexpression and genetic perturbation of primary lymphocytes	6
First person – Latasha Ludwig	6
Vestigial-dependent induction contributes to robust patterning but is not essential for wing-fate recruitment in Drosophila	6
Partial role of volatile organic compounds in behavioural responses of mice to bedding from cancer-affected congeners	6
Deletion of taf1 and taf5 in zebrafish capitulate cardiac and craniofacial abnormalities associated with TAFopathies through perturbations in metabolism	6
A Drosophila model of mitochondrial disease phenotypic heterogeneity	6
Maintenance of neuronal fate and transcriptional identity	6
Characterization of alternative splicing during mammalian brain development reveals the extent of isoform diversity and potential effects on protein structural changes	6
Plpp3, a novel regulator of pluripotency exit and endodermal differentiation of mouse embryonic stem cells	5
Regulation of NANOG and SOX2 expression by activin A and a canonical WNT agonist in bovine embryonic stem cells and blastocysts	5
Ethanol induces subcellular trafficking of the RNA-binding protein, hnRNP A1, in neuronal cells in vitro, but not in the peripubertal rat brain	5
Intermittent hypoxia differentially affects metabolic and oxidative stress responses in two species of cyprinid fish	5
Cerebral organoids in primary progressive multiple sclerosis reveal stem cell and oligodendrocyte differentiation defect	5
exTREEmaTIME: a method for incorporating uncertainty into divergence time estimates	5
Sox8: a multifaceted transcription factor in development and disease	5
Tbx5 overexpression in embryoid bodies increases TAK1 expression but does not enhance the differentiation of sinoatrial node cardiomyocytes	5
Identification of a new allele of O-fucosyltransferase 1 involved in Drosophila intestinal stem cell regulation	5
First person – Francesca Mastropasqua and Marika Oksanen	5
Vitamin A cycle byproducts explain retinal damage and molecular changes thought to initiate retinal degeneration	5
Reevaluating the relationship between EGL-43 (EVI1) and LIN-12 (Notch) during C. elegans anchor cell invasion	5
Experimental short-term heatwaves negatively impact body weight gain and survival during larval development in Bombus terrestris L. (Hymenoptera: Apidae)	5
Cdc48 and its co-factor Ufd1 extract CENP-A from centromeric chromatin and can induce chromosome elimination in the fission yeast Schizosaccharomyces pombe	5
Transgenic force sensors and software to measure force transmission across the mammalian nuclear envelope in vivo	5
Zebrafish embryos hatch early in response to chemical and mechanical indicators of predation risk, resulting in underdeveloped swimming ability of hatchling larvae	5
Development of a cypovirus protein microcrystal-encapsulated Bacillus thuringiensis UV-tolerant and mosquitocidal δ-endotoxin	5
Gene expression and DNA methylation changes in response to hypoxia in toxicant-adapted Atlantic killifish (Fundulus heteroclitus)	5
PatternJ: an ImageJ toolset for the automated and quantitative analysis of regular spatial patterns found in sarcomeres, axons, somites, and more	5
First person – Kelly Diamond	5
Interaction between Discs large and Pins/LGN/GPSM2: a comparison across species	5
Alterations in lifespan and sleep:wake duration under selective monochromes of visible light in Drosophila melanogaster	5
First person – Amy Irving	5
Saccharomyces cerevisiae deficient in the early anaphase release of Cdc14 can traverse anaphase I without ribosomal DNA disjunction and successfully complete meiosis	5
Alpha-T-catenin is expressed in peripheral nerves as a constituent of Schwann cell adherens junctions	5
Introducing Daniel Gorelick – a new Editor-in-Chief for Biology Open	5
Expression levels and activities of energy-yielding ATPases in the oligohaline neritid snail Theodoxus fluviatilis under changing environmental salinities	5
Spatial structure could explain the maintenance of alternative reproductive tactics in tree cricket males	4
Hepatic leukemia factor-expressing paraxial mesoderm cells contribute to the developing brain vasculature	4
trithorax is an essential regulator of cardiac Hox gene expression and anterior-posterior patterning of the Drosophila embryonic heart tube	4
First person – Neydiana Pina-Lopes	4
Theoretical model of impact mitigation mechanisms inherent to the North American bison skull	4
First person – Ming-Hsuan Wen	4
Metabolic FRET sensors in intact organs: Applying spectral unmixing to acquire reliable signals	4
First person – Matthew Penaso-Stinson and Summer Paulson	4
Low colostrum intake results in potential accumulation of peroxisome lipid substrates in vaginal tissue of 3-week-old gilts	4
Visual acuity of budgerigars for moving targets	4
Beyond bold versus shy: Zebrafish exploratory behavior falls into several behavioral clusters and is influenced by strain and sex	4

Correction: Polyphyllin II inhibits liver cancer cell proliferation, migration and invasion through downregulated cofilin activity and the AKT/NF-κB pathway	4
The next stage in Biology Open's support for early-career researchers	4
Elliptical Fourier analysis of hominoid radius shape: implications for Ardipithecus ramidus	4
Characterization of nitric oxide in Octopus maya nervous system and its potential role in sensory perception	4
Population-level antagonism between FGF and BMP signaling steers mesoderm differentiation in embryonic stem cells	4
A human stem cell resource to decipher the biochemical and cellular basis of neurodevelopmental defects in Lowe syndrome	4
BBQ methods: streamlined workflows for bacterial burden quantification in infected cells by confocal microscopy	4
So long, and thanks for all the papers about fish (and other organisms too)	4
PTP10D-mediated cell competition is not obligately required for elimination of polarity-deficient clones	4
Altered epithelial development of the lateral ventricle choroid plexus in Mllt11 mutants	4
EphA1 receptor tyrosine kinase is localized to the nucleus in rhabdomyosarcoma from multiple species	4
Future leader to watch – Nathan Harmston	4
First person – Fatima Batool	4
Flavonols do not affect aphid load in green or senescing birch leaves but coincide with a decrease in Photosystem II functionality	4
First person – Alexandra Venuto	4
Dirichlet process mixture models for single-cell RNA-seq clustering	4
midline represses Dpp signaling and target gene expression in Drosophila ventral leg development	4
Correction: IRS-1 increases TAZ expression and promotes osteogenic differentiation in rat bone marrow mesenchymal stem cells	4
First person – Ricardo Villalba-Briones	4
First person – Daniel Lenthall	4
First person – Yixing Wu and Ying Bai	4
Development of the dictyostelid Polysphondylium violaceum does not require secreted cAMP	4
A larval zebrafish model of cardiac physiological recovery following cardiac arrest and myocardial hypoxic damage	4
The lymphatic system favours survival of a unique T. brucei population	4
A genome-wide CRISPR screen implicates plasma membrane asymmetry in exogenous C6-ceramide toxicity	4
First person – Valentina Laverde	4
foxg1a is required for hair cell development and regeneration in the zebrafish lateral line	3
HepT1-derived murine models of high-risk hepatoblastoma display vascular invasion, metastasis, and circulating tumor cells	3
Imp and Chinmo are required for embryonic motor neuron axon and dendrite targeting	3
Inherited anoxia tolerance and growth performance can result in enhanced invasiveness in hybrid fish	3
First person – Mai Nguyen	3
Minimal functional domains of the core polarity regulator Dlg	3
Hansenula polymorpha cells lacking the ER-localized peroxins Pex23 or Pex29 show defects in mitochondrial function and morphology	3
Biology Open 2023 – a year in review	3
New horizons of microphysiological systems: India forging its path in human-relevant research	3
Connexin 43 mediated collective cell migration is independent of Golgi orientation	3
Human in vivo medial gastrocnemius gear during active and passive muscle lengthening: effect of inconsistent methods and nomenclature on data interpretation	3
Meeting Review of the ‘1st Azerbaijan Neuroscience School: Introduction’	3
First person – Viju Vijayan Pillai and Prasanthi Koganti	3
Establishment of a novel protocol for formalin-fixed paraffin-embedded organoids and spheroids	3
Bioengineering of a tumour-stroma 3D-tumouroid co-culture model of hypopharyngeal cancer	3
Identification of a postnatal period of interdependent neurogenesis and apoptosis in peripheral neurons	3
First person – Martha S. C. Xelhuantzi	3
First person – Meg Watt	3
First person – Sophie Kraunsoe	3
Discontinuous, biphasic, ontogenetic shifts in the metabolic allometry of aquatic animals?	3
Mutations in Drosophila tRNA processing factors cause phenotypes similar to Pontocerebellar Hypoplasia	3
A pro-angiogenic and hypoxic zebrafish model as a novel platform for anti-angiogenic drug testing	3
In vitro forestomach digestion experiments give less-biased estimates of food composition in odontocetes	3
Dynein-2–driven intraciliary retrograde trafficking indirectly requires multiple interactions of IFT54 in the IFT-B complex with the dynein-2 complex	3
Mass loss, timing and duration of catastrophic moult in little penguins	3
Automated counting of Drosophila imaginal disc cell nuclei	3
The uncoating of EV71 in mature late endosomes requires CD-M6PR	3
Kinetics of Arf1 inactivation regulates Golgi organisation and function in non-adherent fibroblasts	3
insideOutside: an accessible algorithm for classifying interior and exterior points, with applications in embryology	3
CD133/Prom1 marks proximal mouse oviduct epithelial progenitors and adult epithelial cells with a low generative capacity	3
Re-assessment of the subcellular localization of Bazooka/Par-3 in Drosophila: no evidence for localization to the nucleus and the neuromuscular junction	3
Zebrafish models of alx-linked frontonasal dysplasia reveal a role for Alx1 and Alx3 in the anterior segment and vasculature of the developing eye	3
Instantaneous visual genotyping and facile site-specific transgenesis via CRISPR-Cas9 and phiC31 integrase	3
PIWIL2 downregulation in colon cancer promotes transposon activity and pro-tumorigenic phenotypes	3
Context-dependent thermolability of sex determination in a lacertid lizard with heteromorphic sex chromosomes	3
SPS1 deficiency-triggered PGRP-LC and Toll expression controls innate immunity in Drosophila S2 cells	3
Neurophysiological measurements of planarian brain activity: a unique model for neuroscience research	3
Redundant functions of the SLC5A transporters Rumpel, Bumpel, and Kumpel in ensheathing glial cells	3
Developmental disorders caused by haploinsufficiency of transcriptional regulators: a perspective based on cell fate determination	3
Alveolar epithelial paxillin in postnatal lung alveolar development	3
Temporal transcriptomic profiling of human 3D neuromuscular co-cultures	3
First person – Bailey Calder	3
Characterization of gene cluster heterogeneity in single-cell transcriptomic data within and across cancer types	3
2024 Argentine Group for Extracellular Vesicles (GAVE) Workshop: promoting science in challenging times	3
Computational tools for quantifying actin filament numbers, lengths, and bundling	3
First person – Andreas Enström	3
The factory, the antenna and the scaffold: the three-way interplay between the Golgi, cilium and extracellular matrix underlying tissue function	3
Allorecognition behaviors in Myxomycetes respond to intraspecies factors	3
Germline competent mesoderm: the substrate for vertebrate germline and somatic stem cells?	3
Analysis of the chromatin landscape and RNA polymerase II binding at SIN3-regulated genes	3
Constructing a doxycycline-inducible system for an epithelial-to-mesenchymal transition model in MCF10A cells	3
Ecophysiology of neotropical amphibians and reptiles: lessons learned from Colombia	3
Hands-on training in structural biology, a tool for sustainable development in Africa series 4	3
Ecology, ethology, and evolution in the Anthropocene	3
Influence of weighted downhill running training on serial sarcomere number and work loop performance in the rat soleus	2
Cytoneme-like protrusion formation induced by LAR is promoted by receptor dimerization	2
Peripodial adherens junctions regulate Ajuba-Yorkie signaling to preserve fly eye morphology	2
Potentiating Vγ9Vδ2 T cell proliferation and assessing their cytotoxicity towards adherent cancer cells at the single cell level	2
The story of Biology Open: a conversation with past and present Editors-in-Chief	2
Sexual dimorphism and the impact of aging on ball rolling-associated locomotor behavior in Drosophila	2
Focal sources of FGF-10 promote the buckling morphogenesis of the embryonic airway epithelium	2
First person – Justin Varholick	2
An ode to multidisciplinarity: the ‘Bacteria Orchestrate Life’ international meeting	2
Ac/Ds transposition for CRISPR/dCas9-SID4x epigenome modulation in zebrafish	2
Retraction: MicroRNA-96-5p promotes proliferation, invasion and EMT of oral carcinoma cells by directly targeting FOXF2	2
Expression of Concern: MicroRNA-96-5p promotes proliferation, invasion and EMT of oral carcinoma cells by directly targeting FOXF2	2
Odours of cancerous mouse congeners: detection and attractiveness	2
The influence of carbon dioxide on cerebral metabolism and oxygen consumption: combining multimodal monitoring with dynamic systems modelling	2
Novel protocol to observe the intestinal tuft cell using transmission electron microscopy	2