S. B. Gould

Performance of localization prediction algorithms decreases rapidly with the evolutionary distance to the training set increasing

The paper evaluates localization prediction algorithms across evolutionary distances and finds performance drops significantly, especially for plant mitochondria.

A molecular atlas of plastid and mitochondrial evolution from algae to angiosperms

The paper analyzes proteome and genome data to trace evolutionary changes in plastid and mitochondrial biology across eukaryotes, identifying unique protein families and molecular adaptations linked to major evolutionary transitions.

A mysterious cloak: the peptidoglycan layer of algal and plant plastids

This study investigates the presence and evolution of the peptidoglycan layer in plastids across Chloroplastida using phylogenomic data, revealing its conservation in some lineages and loss in others.

Hemi Manganese Exchangers 1 and 2 enable manganese import at the plasma membrane in cyanobacteria

This study identifies Hmx1 and Hmx2 as Mn importers in cyanobacteria, showing they enable Mn uptake at the plasma membrane and are ancestral to eukaryotic UPF0016 proteins.

Loss of plastid developmental genes coincides with a reversion to monoplastidy in hornworts

The paper identifies the loss of ARC3 and FtsZ2 genes in hornworts as the cause of their monoplastidic phenotype through genomic and transcriptomic analysis.

The asgardarchaeal-unique contribution to protein families of the eukaryotic common ancestor was 0.3%

The paper analyzes the contribution of asgardarchaea to eukaryotic protein families and finds it accounts for only 0.3% of conserved eukaryotic protein families.

More than just a ticket canceller: The mitochondrial processing peptidase matures complex precursor proteins at internal cleavage sites

The paper shows that mitochondrial processing peptidase (MPP) cleaves precursor proteins at internal sites, not just N-terminal presequences, using the Arg5,6 polyprotein as a model.

Major changes in plastid protein import and the origin of the Chloroplastida

The paper compares plastid protein import mechanisms across archaeplastidal groups and finds that the green lineage evolved unique features enabling efficient high-light stress response and land colonization.

Gene duplications trace mitochondria to the onset of eukaryote complexity

The paper identifies gene duplication events in the last eukaryote common ancestor (LECA) that suggest mitochondrial gene transfer preceded the onset of eukaryotic complexity.

Anomalous phylogenetic behavior of ribosomal proteins in metagenome assembled genomes

The paper shows that Asgard and CPR metagenome assembled genomes (MAGs) fail to meet basic phylogenetic criteria due to their anomalous ribosomal protein evolutionary histories, suggesting they are binning artifacts.

Adaptation to life on land at 21% O2 via transition from ferredoxin- to NADH-dependent redox balance

The paper shows algae maintain anaerobic metabolism enzymes at 21% O2, while land plants and animals shifted to NADH-based redox balance during terrestrialization.

The monoplastidic bottleneck in algae and plant evolution

This study investigates the monoplastidic bottleneck in algae and plants, finding that loss of MinD and MinE genes from the plastid genome is a prerequisite for multiple plastids per nucleus.