Farhan Ali

Translation Accuracy in E. coli

The paper quantifies amino acid substitution rates in E. coli, finding no significant differences in overall translation error rates among ribosomal variants but unique mistranslation profiles.

Shifts in the population-genetic landscape of the ciliate genus Paramecium

This study sequenced genomes of hundreds of Paramecium isolates worldwide to investigate population-genetic patterns, finding geographic differentiation and speciation driven by genetic isolation.

Evolutionary Dynamics of Paramecium Mitochondrial Genomes

This study analyzes mitochondrial genomes of Paramecium to explore evolutionary dynamics, revealing cryptic diversity, conserved genes, and patterns of molecular evolution.

Convergent Cellular Adaptation to Freeze-Thaw Stress via a Quiescence-like State in Yeast

This study shows yeast can evolve freeze-thaw tolerance through a quiescence-like state, increasing survival from 2% to 70% in 25 cycles.

PAN-INDIA 1000 SARS-CoV-2 RNA Genome Sequencing Reveals Important Insights into the Outbreak

The paper sequences 1000 SARS-CoV-2 genomes from India, revealing multiple circulating lineages, predominant A2a haplotype with D614G mutation, and geographic mutation clustering.

SARS-CoV-2 sequence typing, evolution and signatures of selection using CoVa, a Python-based command-line utility

The paper introduces CoVa, a Python-based tool for analyzing SARS-CoV-2 genomes, identifying selection signatures, and defining sequence typing, with findings on geographic variation and mutation rates.

Genome-wide mutational diversity in Escherichia coli population evolving in prolonged stationary-phase

This study examines mutations in E. coli during prolonged stationary-phase, finding increased genetic diversity and evidence of positive selection on regulatory mutations.