BMC Biology

(The TQCC of BMC Biology is 11. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 500 papers]. The publications cover those that have been published in the past four years, i.e., from 2019-08-01 to 2023-08-01.)
The human gut bacteria Christensenellaceae are widespread, heritable, and associated with health286
The microbiome of the upper respiratory tract in health and disease204
The intestinal microbiota regulates host cholesterol homeostasis105
Are we there yet? The long walk towards the development of efficient symbiotic associations between nitrogen-fixing bacteria and non-leguminous crops96
Studying the gut virome in the metagenomic era: challenges and perspectives89
Parkinson’s disease-associated alterations of the gut microbiome predict disease-relevant changes in metabolic functions88
An updated tribal classification of Lamiaceae based on plastome phylogenomics88
Distinct impact of antibiotics on the gut microbiome and resistome: a longitudinal multicenter cohort study77
Genetic voltage indicators76
Altered brain-wide auditory networks in a zebrafish model of fragile X syndrome73
X-ray computed tomography in life sciences72
A 19-isolate reference-quality global pangenome for the fungal wheat pathogen Zymoseptoria tritici72
Strigolactone synthesis is ancestral in land plants, but canonical strigolactone signalling is a flowering plant innovation70
Rapid, large-scale species discovery in hyperdiverse taxa using 1D MinION sequencing69
Cold-induced lipid dynamics and transcriptional programs in white adipose tissue67
Synthetic Biology Goes Cell-Free67
Multi-species annotation of transcriptome and chromatin structure in domesticated animals67
Multiple links between 5-methylcytosine content of mRNA and translation65
Hidden genomic features of an invasive malaria vector, Anopheles stephensi, revealed by a chromosome-level genome assembly63
Tandem gene duplications drive divergent evolution of caffeine and crocin biosynthetic pathways in plants61
Plastid phylogenomic insights into relationships of all flowering plant families59
Modelling the suppression of a malaria vector using a CRISPR-Cas9 gene drive to reduce female fertility59
Modified nucleic acids: replication, evolution, and next-generation therapeutics58
Metagenomes and metatranscriptomes shed new light on the microbial-mediated sulfur cycle in a Siberian soda lake54
Plasma membrane integrity: implications for health and disease53
Performance analysis of novel toxin-antidote CRISPR gene drive systems52
The mitochondrial HSP90 paralog TRAP1 forms an OXPHOS-regulated tetramer and is involved in mitochondrial metabolic homeostasis49
Genomes of the dinoflagellate Polarella glacialis encode tandemly repeated single-exon genes with adaptive functions46
Control of glutamate release by complexes of adenosine and cannabinoid receptors45
MARPLE, a point-of-care, strain-level disease diagnostics and surveillance tool for complex fungal pathogens45
The wild species genome ancestry of domestic chickens45
Winter is coming: the future of cryopreservation44
A tissue level atlas of the healthy human virome43
Comparison of 15 dinoflagellate genomes reveals extensive sequence and structural divergence in family Symbiodiniaceae and genus Symbiodinium42
Genomic insights from the first chromosome-scale assemblies of oat (Avena spp.) diploid species42
New targeted approaches for epigenetic age predictions41
Unlocking the origins and biology of domestic animals using ancient DNA and paleogenomics41
Unraveling the molecular interactions involved in phase separation of glucocorticoid receptor41
ONTbarcoder and MinION barcodes aid biodiversity discovery and identification by everyone, for everyone41
The replication machinery of LUCA: common origin of DNA replication and transcription40
Functional annotation of the cattle genome through systematic discovery and characterization of chromatin states and butyrate-induced variations40
Maternal milk and fecal microbes guide the spatiotemporal development of mucosa-associated microbiota and barrier function in the porcine neonatal gut40
Genome-enabled insights into the biology of thrips as crop pests40
The draft nuclear genome sequence and predicted mitochondrial proteome of Andalucia godoyi, a protist with the most gene-rich and bacteria-like mitochondrial genome39
Genomic evidence for a hybrid origin of the yeast opportunistic pathogen Candida albicans38
Optogenetic activation of parvalbumin and somatostatin interneurons selectively restores theta-nested gamma oscillations and oscillation-induced spike timing-dependent long-term potentiation impaired 38
Evolution of metabolic capabilities and molecular features of diplonemids, kinetoplastids, and euglenids37
Contaminant DNA in bacterial sequencing experiments is a major source of false genetic variability36
The rise of diversity in metabolic platforms across the Candidate Phyla Radiation36
Protein assembly systems in natural and synthetic biology36
Haplotype-resolved genomes of geminivirus-resistant and geminivirus-susceptible African cassava cultivars36
ACBE, a new base editor for simultaneous C-to-T and A-to-G substitutions in mammalian systems35
The hard clam genome reveals massive expansion and diversification of inhibitors of apoptosis in Bivalvia35
Long-term live imaging and multiscale analysis identify heterogeneity and core principles of epithelial organoid morphogenesis35
Changes in ESCRT-III filament geometry drive membrane remodelling and fission in silico34
Transcriptome resilience predicts thermotolerance in Caenorhabditis elegans34
Reorganization of the 3D chromatin architecture of rice genomes during heat stress34
Genome-wide pQTL analysis of protein expression regulatory networks in the human liver34
Differential loss of effector genes in three recently expanded pandemic clonal lineages of the rice blast fungus33
Sphenodontian phylogeny and the impact of model choice in Bayesian morphological clock estimates of divergence times and evolutionary rates33
Extreme mobility of the world’s largest flying mammals creates key challenges for management and conservation33
The genome sequence of the grape phylloxera provides insights into the evolution, adaptation, and invasion routes of an iconic pest32
Impact of COVID-19 on early career scientists: an optimistic guide for the future32
Discordant evolution of mitochondrial and nuclear yeast genomes at population level32
Putative ligand binding sites of two functionally characterized bark beetle odorant receptors31
Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies31
Multi-omics analysis delineates the distinct functions of sub-cellular acetyl-CoA pools in Toxoplasma gondii30
Genome assembly of the basket willow, Salix viminalis, reveals earliest stages of sex chromosome expansion30
FGF-2 promotes angiogenesis through a SRSF1/SRSF3/SRPK1-dependent axis that controls VEGFR1 splicing in endothelial cells30
Autochthonous faecal viral transfer (FVT) impacts the murine microbiome after antibiotic perturbation29
Prokaryotic virus host predictor: a Gaussian model for host prediction of prokaryotic viruses in metagenomics29
Bivalent promoter hypermethylation in cancer is linked to the H327me3/H3K4me3 ratio in embryonic stem cells29
Comparative whole genome DNA methylation profiling across cattle tissues reveals global and tissue-specific methylation patterns28
Single-cell reconstruction of differentiation trajectory reveals a critical role of ETS1 in human cardiac lineage commitment28
Genomic adaptations to chemosymbiosis in the deep-sea seep-dwelling tubeworm Lamellibrachia luymesi28
Paxillin mediates ATP-induced activation of P2X7 receptor and NLRP3 inflammasome28
The mitochondrial carrier pathway transports non-canonical substrates with an odd number of transmembrane segments28
Stimulus-specific behavioral responses of zebrafish to a large range of odors exhibit individual variability28
Native-like membrane models of E. coli polar lipid extract shed light on the importance of lipid composition complexity27
The transposable element-rich genome of the cereal pest Sitophilus oryzae27
Bacterial microcompartments: catalysis-enhancing metabolic modules for next generation metabolic and biomedical engineering27
Insights into the origin of metazoan multicellularity from predatory unicellular relatives of animals27
Ribosomal RNA fragmentation into short RNAs (rRFs) is modulated in a sex- and population of origin-specific manner27
The quail genome: insights into social behaviour, seasonal biology and infectious disease response27
Global population genetic structure and demographic trajectories of the black soldier fly, Hermetia illucens27
A metabolic switch regulates the transition between growth and diapause in C. elegans27
Characterizing RNA stability genome-wide through combined analysis of PRO-seq and RNA-seq data26
Genome sequencing sheds light on the contribution of structural variants to Brassica oleracea diversification26
The genome of a wild Medicago species provides insights into the tolerant mechanisms of legume forage to environmental stress26
Long-term persistence of crAss-like phage crAss001 is associated with phase variation in Bacteroides intestinalis26
Characterization of a novel type of carbonic anhydrase that acts without metal cofactors26
The round goby genome provides insights into mechanisms that may facilitate biological invasions25
Gut bacterial deamination of residual levodopa medication for Parkinson’s disease25
Rapid protein evolution, organellar reductions, and invasive intronic elements in the marine aerobic parasite dinoflagellate Amoebophrya spp25
Comparative analysis of morabine grasshopper genomes reveals highly abundant transposable elements and rapidly proliferating satellite DNA repeats25
2000-year-old pathogen genomes reconstructed from metagenomic analysis of Egyptian mummified individuals25
Evolutionary analyses of the gasdermin family suggest conserved roles in infection response despite loss of pore-forming functionality25
Large-scale discovery of male reproductive tract-specific genes through analysis of RNA-seq datasets25
Transposon-induced epigenetic silencing in the X chromosome as a novel form of dmrt1 expression regulation during sex determination in the fighting fish24
Genomic evidence for recurrent genetic admixture during the domestication of Mediterranean olive trees (Olea europaea L.)24
Measuring and modeling energy and power consumption in living microbial cells with a synthetic ATP reporter24
Association of Bacteroides acidifaciens relative abundance with high-fibre diet-associated radiosensitisation24
Modeling confinement and reversibility of threshold-dependent gene drive systems in spatially-explicit Aedes aegypti populations24
Epigenomics and genotype-phenotype association analyses reveal conserved genetic architecture of complex traits in cattle and human24
Towards open, reliable, and transparent ecology and evolutionary biology23
Identification of African swine fever virus-like elements in the soft tick genome provides insights into the virus’ evolution22
Regeneration in the ctenophore Mnemiopsis leidyi occurs in the absence of a blastema, requires cell division, and is temporally separable from wound healing22
Charting the diversity of uncultured viruses of Archaea and Bacteria22
Precise base editing with CC context-specificity using engineered human APOBEC3G-nCas9 fusions22
Identification of berberine as a novel drug for the treatment of multiple myeloma via targeting UHRF122
Oxidative stress mediates thalidomide-induced pain by targeting peripheral TRPA1 and central TRPV422
Spatiotemporal mapping of RNA editing in the developing mouse brain using in situ sequencing reveals regional and cell-type-specific regulation22
Genomic history of the Italian population recapitulates key evolutionary dynamics of both Continental and Southern Europeans22
Satellitome comparison of two oedipodine grasshoppers highlights the contingent nature of satellite DNA evolution22
Engineered sex ratio distortion by X-shredding in the global agricultural pest Ceratitis capitata21
Phylogenomic approaches untangle early divergences and complex diversifications of the olive plant family21
Genomic architecture of endogenous ichnoviruses reveals distinct evolutionary pathways leading to virus domestication in parasitic wasps21
DNA methyltransferase 3a mediates developmental thermal plasticity21
LocalZProjector and DeProj: a toolbox for local 2D projection and accurate morphometrics of large 3D microscopy images21
A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity21
Persistent DNA damage triggers activation of the integrated stress response to promote cell survival under nutrient restriction21
Extracting physiological information in experimental biology via Eulerian video magnification20
Development of an efficient and precise adenine base editor (ABE) with expanded target range in allotetraploid cotton (Gossypium hirsutum)20
Divergent camptothecin biosynthetic pathway in Ophiorrhiza pumila20
Modelling the Wolbachia incompatible insect technique: strategies for effective mosquito population elimination20
Gregarine single-cell transcriptomics reveals differential mitochondrial remodeling and adaptation in apicomplexans20
Pathologic tau conformer ensembles induce dynamic, liquid-liquid phase separation events at the nuclear envelope20
Deconvolution of cellular subsets in human tissue based on targeted DNA methylation analysis at individual CpG sites20
Optimized photo-stimulation of halorhodopsin for long-term neuronal inhibition20
Conventional laboratory housing increases morbidity and mortality in research rodents: results of a meta-analysis20
Dynamic and reversible DNA methylation changes induced by genome separation and merger of polyploid wheat19
TDP-43 prevents retrotransposon activation in the Drosophila motor system through regulation of Dicer-2 activity19
Stomatal conductance limited the CO2 response of grassland in the last century19
A simple threat-detection strategy in mice19
Long live the king: chromosome-level assembly of the lion (Panthera leo) using linked-read, Hi-C, and long-read data19
Sorting and packaging of RNA into extracellular vesicles shape intracellular transcript levels19
Beyond Drosophila: resolving the rapid radiation of schizophoran flies with phylotranscriptomics19
Neuronal cell-based high-throughput screen for enhancers of mitochondrial function reveals luteolin as a modulator of mitochondria-endoplasmic reticulum coupling18
Large-scale genomic analysis reveals the genetic cost of chicken domestication18
GLIPR1L1 is an IZUMO-binding protein required for optimal fertilization in the mouse18
A primary cell wall cellulose-dependent defense mechanism against vascular pathogens revealed by time-resolved dual transcriptomics18
Bioengineered human skeletal muscle capable of functional regeneration18
Effects of immune challenge on expression of life-history and immune trait expression in sexually reproducing metazoans—a meta-analysis18
Nucleus size and DNA accessibility are linked to the regulation of paraspeckle formation in cellular differentiation18
Crystal structure of diamondback moth ryanodine receptor Repeat34 domain reveals insect-specific phosphorylation sites17
Genome-scale CRISPR screening at high sensitivity with an empirically designed sgRNA library17
Large-scale transcriptomics to dissect 2 years of the life of a fungal phytopathogen interacting with its host plant17
Fluid shear stress enhances T cell activation through Piezo117
Comprehensive transcriptome and methylome analysis delineates the biological basis of hair follicle development and wool-related traits in Merino sheep17
Resilin matrix distribution, variability and function in Drosophila17
Defining rules governing recognition and Fc-mediated effector functions to the HIV-1 co-receptor binding site17
Genome sequencing of evolved aspergilli populations reveals robust genomes, transversions in A. flavus, and sexual aberrancy in non-homologous end-joining mutants17
Innate antiviral defense demonstrates high energetic efficiency in a bony fish17
SATB1 establishes ameloblast cell polarity and regulates directional amelogenin secretion for enamel formation17
Mechanical force-induced morphology changes in a human fungal pathogen17
Monophyletic blowflies revealed by phylogenomics17
Relationship between oxygen consumption and neuronal activity in a defined neural circuit16
Sensory adaptations reshaped intrinsic factors underlying morphological diversification in bats16
The CBP KIX domain regulates long-term memory and circadian activity16
Wonky whales: the evolution of cranial asymmetry in cetaceans16
Genomic analysis of field pennycress (Thlaspi arvense) provides insights into mechanisms of adaptation to high elevation16
A versatile contribution of both aminopeptidases N and ABC transporters to Bt Cry1Ac toxicity in the diamondback moth16
Neuron ID dataset facilitates neuronal annotation for whole-brain activity imaging of C. elegans16
The genome of the stable fly, Stomoxys calcitrans, reveals potential mechanisms underlying reproduction, host interactions, and novel targets for pest control16
Large-scale genomic analysis of antimicrobial resistance in the zoonotic pathogen Streptococcus suis15
Multi-faceted analysis provides little evidence for recurrent whole-genome duplications during hexapod evolution15
Linked-read sequencing identifies abundant microinversions and introgression in the arboviral vector Aedes aegypti15
Mapping the past, present and future research landscape of paternal effects15
Aneuploidy-induced proteotoxic stress can be effectively tolerated without dosage compensation, genetic mutations, or stress responses15
Waking experience modulates sleep need in mice15
The genome of the zoonotic malaria parasite Plasmodium simium reveals adaptations to host switching15
Complete representation of a tapeworm genome reveals chromosomes capped by centromeres, necessitating a dual role in segregation and protection15
Articulating the “stem cell niche” paradigm through the lens of non-model aquatic invertebrates15
Natural food intake patterns have little synchronizing effect on peripheral circadian clocks15
Sexual conflict drives micro- and macroevolution of sexual dimorphism in immunity15
Inter-embryo gene expression variability recapitulates the hourglass pattern of evo-devo15
A two-pore channel protein required for regulating mTORC1 activity on starvation15
Direct evidence for transport of RNA from the mouse brain to the germline and offspring15
Dynamic genetic differentiation drives the widespread structural and functional convergent evolution of snake venom proteinaceous toxins14
Analysis of urinary exosomal metabolites identifies cardiovascular risk signatures with added value to urine analysis14
The evolutionarily conserved ESRE stress response network is activated by ROS and mitochondrial damage14
Protein kinase A controls yeast growth in visible light14
An optimized base editor with efficient C-to-T base editing in zebrafish14
The X chromosome of the German cockroach, Blattella germanica, is homologous to a fly X chromosome despite 400 million years divergence14
Mapping DNA interaction landscapes in psoriasis susceptibility loci highlights KLF4 as a target gene in 9q3114
Ultrastructural and molecular analysis of the origin and differentiation of cells mediating brittle star skeletal regeneration14
DNA interference is controlled by R-loop length in a type I-F1 CRISPR-Cas system14
Single-cell resolution landscape of equine peripheral blood mononuclear cells reveals diverse cell types including T-bet+ B cells14
The mitochondrially-localized nucleoside diphosphate kinase D (NME4) is a novel metastasis suppressor14
Genomics and transcriptomics yields a system-level view of the biology of the pathogen Naegleria fowleri14
A unified evolutionary origin for the ubiquitous protein transporters SecY and YidC14
Highly flexible metabolism of the marine euglenozoan protist Diplonema papillatum14
Mangroves are an overlooked hotspot of insect diversity despite low plant diversity13
Symbiont transmission in marine sponges: reproduction, development, and metamorphosis13
Single-cell RNA-seq reveals a concomitant delay in differentiation and cell cycle of aged hematopoietic stem cells13
TORC1 regulates the transcriptional response to glucose and developmental cycle via the Tap42-Sit4-Rrd1/2 pathway in Saccharomyces cerevisiae13
Phylotranscriptomics points to multiple independent origins of multicellularity and cellular differentiation in the volvocine algae13
The selectivity filter of the mitochondrial protein import machinery13
DNA methylation atlas and machinery in the developing and regenerating annelid Platynereis dumerilii13
Analysis of the genetically tractable crustacean Parhyale hawaiensis reveals the organisation of a sensory system for low-resolution vision13
Spatial and temporal modulation of enterotoxigenic E. coli H10407 pathogenesis and interplay with microbiota in human gut models13
Using a chimeric respiratory chain and EPR spectroscopy to determine the origin of semiquinone species previously assigned to mitochondrial complex I13
H3K27 modifiers regulate lifespan in C. elegans in a context-dependent manner13
Functional architecture underlying binocular coordination of eye position and velocity in the larval zebrafish hindbrain13
Crystal structure of the yeast heterodimeric ADAT2/3 deaminase13
A systematic sequencing-based approach for microbial contaminant detection and functional inference13
Using spatial genetics to quantify mosquito dispersal for control programs13
The C-terminal region of the oxidoreductase MIA40 stabilizes its cytosolic precursor during mitochondrial import13
Integrated omics unveil the secondary metabolic landscape of a basal dinoflagellate13
An essential vesicular-trafficking phospholipase mediates neutral lipid synthesis and contributes to hemozoin formation in Plasmodium falciparum13
Pancreatic and intestinal endocrine cells in zebrafish share common transcriptomic signatures and regulatory programmes13
Aerodynamics and motor control of ultrasonic vocalizations for social communication in mice and rats13
Single-cell transcriptomics reveals the effect of PD-L1/TGF-β blockade on the tumor microenvironment13
A cell-to-patient machine learning transfer approach uncovers novel basal-like breast cancer prognostic markers amongst alternative splice variants12
MATISSE: a method for improved single cell segmentation in imaging mass cytometry12
Single-cell spatial transcriptomic analysis reveals common and divergent features of developing postnatal granule cerebellar cells and medulloblastoma12
Vickermania gen. nov., trypanosomatids that use two joined flagella to resist midgut peristaltic flow within the fly host12
Divergent CPEB prion-like domains reveal different assembly mechanisms for a generic amyloid-like fold12
Prediction of the incubation period for COVID-19 and future virus disease outbreaks12
20E-mediated regulation of BmKr-h1 by BmKRP promotes oocyte maturation12
Experimental infection with the hookworm, Necator americanus, is associated with stable gut microbial diversity in human volunteers with relapsing multiple sclerosis12
Practical real-time MEG-based neural interfacing with optically pumped magnetometers12
Exposure to ethanol leads to midfacial hypoplasia in a zebrafish model of FASD via indirect interactions with the Shh pathway12
Nutritional status impacts dengue virus infection in mice12
A protocol for adding knowledge to Wikidata: aligning resources on human coronaviruses12
The relationship between sternum variation and mode of locomotion in birds12
Lack of drug-induced post-retrieval amnesia for auditory fear memories in rats12
DDX39B interacts with the pattern recognition receptor pathway to inhibit NF-κB and sensitize to alkylating chemotherapy12
Cell culture-based production and in vivo characterization of purely clonal defective interfering influenza virus particles12
CloneSifter: enrichment of rare clones from heterogeneous cell populations12
Phylogenomic analysis of Syngnathidae reveals novel relationships, origins of endemic diversity and variable diversification rates12
Both Conifer II and Gnetales are characterized by a high frequency of ancient mitochondrial gene transfer to the nuclear genome12
Automated identification of the mouse brain’s spatial compartments from in situ sequencing data12
Very long intergenic non-coding (vlinc) RNAs directly regulate multiple genes in cis and trans12
MIEF1/2 orchestrate mitochondrial dynamics through direct engagement with both the fission and fusion machineries12
TDP-43 promotes the formation of neuromuscular synapses through the regulation of Disc-large expression in Drosophila skeletal muscles12
The ESCRT-III isoforms CHMP2A and CHMP2B display different effects on membranes upon polymerization12
Regenerating zebrafish scales express a subset of evolutionary conserved genes involved in human skeletal disease12
The effect of calorie intake, fasting, and dietary composition on metabolic health and gut microbiota in mice12
Adipoclast: a multinucleated fat-eating macrophage11
PHOSPHO1 is a skeletal regulator of insulin resistance and obesity11
Malignant transformation and genetic alterations are uncoupled in early colorectal cancer progression11
Improving the usability and comprehensiveness of microbial databases11
Membrane and synaptic defects leading to neurodegeneration in Adar mutant Drosophila are rescued by increased autophagy11
Inheritance of the reduced mitochondria of Giardia intestinalis is coupled to the flagellar maturation cycle11
Temporospatial shifts within commercial laboratory mouse gut microbiota impact experimental reproducibility11
The roles of hybridization and habitat fragmentation in the evolution of Brazil’s enigmatic longwing butterflies, Heliconius nattereri and H. hermathena11
Single-cell DNA and RNA sequencing reveals the dynamics of intra-tumor heterogeneity in a colorectal cancer model11
Modular evolution of secretion systems and virulence plasmids in a bacterial species complex11
Verticillium dahliae CFEM proteins manipulate host immunity and differentially contribute to virulence11
Mutant resources for functional genomics in Dictyostelium discoideum using REMI-seq technology11
Sodium channels enable fast electrical signaling and regulate phagocytosis in the retinal pigment epithelium11
Unprecedented organelle genomic variations in morning glories reveal independent evolutionary scenarios of parasitic plants and the diversification of plant mitochondrial complexes11
Boundaries potentiate polycomb response element-mediated silencing11
Cotton D genome assemblies built with long-read data unveil mechanisms of centromere evolution and stress tolerance divergence11
The dorsoanterior brain of adult amphioxus shares similarities in expression profile and neuronal composition with the vertebrate telencephalon11
Ionotropic receptors in the turnip moth Agrotis segetum respond to repellent medium-chain fatty acids11
Mutation of amphioxus Pdx and Cdx demonstrates conserved roles for ParaHox genes in gut, anus and tail patterning11
Feedback inhibition of AMT1 NH4+-transporters mediated by CIPK15 kinase11
Differing effects of size and lifestyle on bone structure in mammals11
Genome-wide annotation of protein-coding genes in pig11
A heat-sensitive Osh protein controls PI4P polarity11
Retargeting azithromycin analogues to have dual-modality antimalarial activity11
Taxonomy-aware, sequence similarity ranking reliably predicts phage–host relationships11
Comparative 3D genome architecture in vertebrates11