D. B. Sloan

Photosynthetic demands on translational machinery drive retention of redundant tRNA metabolism in plant organelles

The paper investigates how photosynthetic demands in plastids influence the retention of redundant tRNA metabolism enzymes in plant organelles, showing that plastid function drives retention while mitochondria are more flexible.

Aminoacyl-tRNA synthetase evolution within the dynamic tripartite translation system of plant cells

This study examines aminoacyl-tRNA synthetase (aaRS) evolution in plants, finding that organellar aaRSs are slightly more conserved than cytosolic ones, likely due to high translational demands in chloroplasts.

Dynamics of organelle DNA segregation in Arabidopsis development and reproduction revealed with tissue-specific heteroplasmy profiling and stochastic modelling

This study uses stochastic modeling and tissue-specific heteroplasmy profiling to analyze oDNA segregation dynamics in Arabidopsis development and reproduction, revealing mechanisms involving MSH1 and gene conversion.

Global patterns of subgenome evolution in organelle-targeted genes of sixallotetraploid angiosperms

The paper examines subgenome evolution in organelle-targeted genes of six allotetraploid angiosperms and finds no global effects of cytonuclear incompatibilities on paternal homoeologs.

Sorting of mitochondrial and plastid heteroplasmy in Arabidopsis is extremely rapid and depends on MSH1 activity

This study tracks the inheritance of mitochondrial and plastid mutations in Arabidopsis, finding rapid heteroplasmic sorting and a role for MSH1 in accelerating this process.

Organellar transcripts dominate the cellular mRNA pool across plants of varying ploidy levels

The paper analyzes mRNA transcript abundance in polyploid and diploid plants, finding that organellar genomes produce most transcripts despite having fewer genes.

Variation in cytonuclear expression accommodation among allopolyploid plants

This study examines cytonuclear expression accommodation in six allopolyploid plant lineages, finding variable maternal preferences and expression biases that do not consistently resolve nuclear-cytoplasmic incompatibilities.

Iterative deletion of gene trees detects extreme biases in distance-based phylogenomic coalescent analyses

The paper introduces PCBL, a method to assess gene tree influence in distance-based coalescent analyses, revealing biases that affect phylogenetic inference.

Rewiring of aminoacyl-tRNA synthetase localization and interactions in plants with extensive mitochondrial tRNA gene loss

The paper examines how aminoacyl-tRNA synthetase localization and interactions evolve in plants with extensive mitochondrial tRNA gene loss, finding some aaRSs retarget to mitochondria while others maintain cytosolic localization despite tRNA replacement.

Gene duplication and rate variation in the evolution of plastid ACCase and Clp genes in angiosperms

This study examines gene duplication and rate variation in plastid ACCase and Clp genes in angiosperms, showing that duplicated genes exhibit increased sequence evolution rates.

Rapid sequence evolution is associated with genetic incompatibilities in the plastid Clp complex

The paper investigates rapid sequence evolution in the plastid Clp complex by replacing the clpP1 gene in tobacco with variants from Silene species, finding that accelerated evolution leads to functional incompatibilities.

Rapid shifts in mitochondrial tRNA import in a plant lineage with extensive mitochondrial tRNA gene loss

The paper investigates mitochondrial tRNA import in plants with extensive mt-tRNA gene loss, finding that nuclear-encoded tRNAs replace mitochondrial ones even after recent gene loss.

Nuclear-cytoplasmic balance: whole genome duplications induce elevated organellar genome copy number

This study investigates how whole genome duplications affect nuclear and organellar genome copy numbers in plants, finding that polyploids maintain cytonuclear stoichiometry through elevated organellar genome copy numbers.

Hopeful monsters: Unintended sequencing of famously malformed mite mitochondrial tRNAs reveals widespread expression and processing of sense-antisense pairs

The paper sequenced mite mitochondrial tRNAs, confirming their expression and revealing widespread sense-antisense tRNA pairs.

Genome-wide signatures of plastid-nuclear coevolution point to repeated perturbations of plastid proteostasis systems across angiosperms

The paper identifies nuclear genes coevolving with plastid genes in angiosperms, highlighting roles in proteostasis and suggesting repeated rewiring of plastid maintenance systems.

Divergence-based introgression polarization

This paper introduces DIP, a method to determine the directionality of introgression in a four-taxon system without requiring additional taxa.

Assessing mitochondrial function in angiosperms with highly divergent mitochondrial genomes

The paper develops a protocol to assess mitochondrial function in Silene species with rapidly evolving and fragmented mt genomes, finding similar respiratory flux contributions to previously studied angiosperms.

Extreme variation in rates of evolution in the plastid Clp protease complex

The paper investigates extreme evolutionary rates in the plastid-encoded clpP1 gene across green plants, finding frequent accelerated evolution and functional expression despite apparent pseudogene assumptions.

Intraspecific Polymorphism for the Presence and Absence of Entire Mitochondrial Chromosomes

The paper examines mitochondrial chromosome presence and absence variation in Silene species, finding rapid chromosome loss and no recombination between haplotypes.