D.-K. Niu

Optimizing Phylogenetic Eigenvector Regression: Union Eigenvectors, Robust Estimation, and Flexible Application to Comparative Analyses

This paper optimizes phylogenetic eigenvector regression by improving eigenvector selection, robustness to evolutionary shifts, and flexibility in model complexity.

Bacterial defenses and their trade-off with growth are not ubiquitous but depend on ecological contexts

This study examines how bacterial defenses and growth rates vary across ecological contexts, finding that defense systems are not universally present and depend on factors like habitat and nutrient availability.

Investigating the relationship between CRISPR-Cas content and growth rate in bacteria

This study examines the relationship between CRISPR-Cas content and bacterial growth rate, finding a positive correlation between spacer numbers and minimal doubling time, and a negative correlation with prophage occurrence.

Dependent variable selection in phylogenetic generalized least squares regression analysis under Pagel's lambda model

The paper evaluates criteria for selecting the dependent variable in PGLS regression under Pagel's lambda model and finds that Pagel's lambda, Blomberg's K, and estimated lambda perform best.

Relationship between prokaryotic GC content and environmental salinity

This study examines the relationship between prokaryotic GC content and environmental salinity, finding significant positive correlations in bacteria but not archaea, and challenges existing hypotheses about photoprotection.

Desiccation Does Not Drastically Increase the Accessibility of Foreign DNA to the Nuclear Genomes: Evidence from the Frequency of Endosymbiotic DNA Transfer

The paper investigates whether desiccation increases foreign DNA integration into nuclear genomes by analyzing NUMT and NUPT abundance in desiccation-tolerant and sensitive organisms, finding no significant increase.

Aerobiosis is not associated with GC content and G to T mutations are not the signature of oxidative stress in prokaryotic evolution

The paper examines the relationship between aerobiosis, GC content, and G to T mutations in prokaryotes, finding no significant association between oxygen requirement and GC content or mutation rates.