Q. Tao

NK Cell Exhaustion in Wilson's Disease Revealed by Single-cell RNA Sequencing Predicts the Prognosis of Cholecystitis

This study uses single-cell RNA sequencing to show NK cell exhaustion in Wilson's disease is linked to worse cholecystitis outcomes.

Differential substrate affinity and catabolite repression enable preferential use of urea by ammonia-oxidizing bacteria

The paper shows that ammonia-oxidizing microorganisms use different regulatory strategies for ammonia and urea, enabling coexistence by minimizing competition.

Regulation of metal homeostasis by two F-group bZIP transcription factors bZIP48 and bZIP50 in rice

This paper identifies OsbZIP48 and OsbZIP50 as regulators of metal homeostasis in rice, showing their role in Zn, Fe, and Cu content under deficiency.

A novel order-level lineage of ammonia-oxidizing Thaumarchaeota is widespread in marine and terrestrial environments

The paper identifies a new AOA order, Nitrosomirales, widespread in marine and terrestrial environments, showing metabolic versatility and horizontal gene transfer.

A burns and COVID-19 shared stress responding gene network deciphers CD1C-CD141- DCs as the key cellular components in septic prognosis

The paper identifies a stress-response gene network linked to CD1C-CD141 dendritic cells that correlates with prognosis in burns and COVID-19.

Near-atomic Structure of the Cytoplasmic Ring of the Xenopus laevis Nuclear Pore Complex

The paper presents near-atomic cryo-EM structures of the Xenopus laevis nuclear pore complex cytoplasmic ring, revealing its scaffold composition and organization.

Cryo-EM structure of the Inner Ring from Xenopus laevis Nuclear Pore Complex

The paper presents a cryo-EM structure of the inner ring subunit from Xenopus laevis NPC, revealing its composition and interactions.

Data-driven speciation tree prior for better species divergence times in calibration-poor molecular phylogenies

This paper introduces a data-driven birth-death tree prior to improve Bayesian node age estimates in calibration-poor phylogenies, reducing the need for many well-constrained calibrations.

Biomechanical control of meiotic chromosomal bouquet and germ cell morphogenesis by the zygotene cilium

This study identifies a zygotene cilium in zebrafish oocytes that mechanically regulates chromosomal bouquet formation and germ cell morphogenesis, essential for fertility.

An evolutionary portrait of the progenitor SARS-CoV-2 and its dominant offshoots in COVID-19 pandemic

The paper reconstructs the progenitor SARS-CoV-2 genome and traces its evolution and spread globally, showing multiple dominant strains and lineage replacements in different regions.

Molecular architecture of the luminal ring of the Xenopus laevis nuclear pore complex

The paper reports the cryo-ET structure of the luminal ring of the Xenopus laevis nuclear pore complex and identifies key structural features confirmed by cryo-EM.

Structure of the Cytoplasmic Ring of the Xenopus laevis Nuclear Pore Complex

The paper presents a high-resolution cryo-EM structure of the Xenopus laevis nuclear pore complex cytoplasmic ring, revealing new structural features and interactions.

Relative efficiencies of simple and complex substitution models in estimating divergence times in phylogenomics

This study compares simple and complex substitution models for divergence time estimation, finding that simple models can produce similar results to complex ones in many datasets.

Reliable confidence intervals for RelTime estimates of evolutionary divergence times

The paper introduces a new method to calculate reliable confidence intervals for divergence times estimated using the RelTime method, showing good coverage probabilities in simulations.

Molecular dating for phylogenies containing a mix of populations and species

This study evaluates molecular dating methods for phylogenies with mixed populations and species, finding that RelTime performs well compared to Bayesian approaches.

A new method for detecting autocorrelation of evolutionary rates in large phylogenies

This paper introduces a machine learning method to detect evolutionary rate autocorrelation in large phylogenies, finding it common across multiple taxa.

RelTime relaxes the strict molecular clock throughout the phylogeny

This paper clarifies that RelTime does not enforce a strict molecular clock, and discusses the impact of rate equality options and prior assumptions on divergence time estimation.

Theoretical foundation of the RelTime method for estimating divergence times from variable evolutionary rates

This paper provides a formal mathematical foundation for the RelTime method, which estimates divergence times by relaxing the strict molecular clock assumption and incorporating relative rate comparisons.