Javier F. Tabima

Draft genome assembly of the green-bronze dung beetle, Onthophagus orpheus

The paper presents a high-quality genome assembly for the green-bronze dung beetle, Onthophagus orpheus, and annotates its genes for future ecological and genetic studies.

Unraveling the Genomic and Phylogenetic Complexity of the understudied microfungus Basidiobolus: Insights from 19 Newly Sequenced Genomes

This study sequenced 19 Basidiobolus genomes, revealing two major clades and cryptic species, along with diverse biosynthetic gene clusters.

Characterization of a core fungal community and captivity-induced "mycobiome" change in Fowler's Toad (Anaxyrus fowleri)

This study characterizes the core fungal community and captivity-induced changes in the mycobiome of Fowler's Toad using metabarcoding of fungal communities.

Effects of urbanization on the microbial fungal communities from water, sediment, and amphibian hosts across a rural-to-urban waterway in Worcester, Massachusetts

The paper examines how urbanization affects fungal communities in water, sediment, and amphibian hosts across a rural-to-urban waterway, identifying fungal taxa sensitive to urban stressors as potential ecosystem health indicators.

Phylogenomic analyses of non-Dikarya fungi supports horizontal gene transfer driving diversification of secondary metabolism in the amphibian gastrointestinal symbiont, Basidiobolus

The paper identifies SM gene clusters in non-Dikarya fungi, particularly Basidiobolus, and shows horizontal gene transfer contributes to SM diversification in amphibian gut symbionts.

Genomic investigation of the strawberry pathogen Phytophthora fragariae indicates pathogenicity is associated with transcriptional variation in three key races

This paper investigates the genomic variation in Phytophthora fragariae to identify pathogenicity-associated genes and finds that transcriptional variation, not sequence polymorphisms, is linked to race-specific avirulence.

effectR: An expandable R package to predict candidate effectors

effectR predicts candidate effectors in oomycete genomes using regular expressions and hidden Markov models, validated on published genomes.

Whole genome sequences of the raspberry and strawberry pathogens Phytophthora rubi and P. fragariae

The paper reports draft genome sequences of Phytophthora rubi and P. fragariae to study genomic processes underlying host adaptation in these plant pathogens.