Laura M. Carroll

Hiding in plain sight: rare Bacillus cereus group species are present among unassembled metagenomic samples in public databases

The paper identifies rare Bacillus cereus group species in unassembled metagenomic samples, revealing their potential geographic distribution and genomic diversity.

The insecticidal potential of Bacillus cereus group strains from insect-dense regions of the United Kingdom

The paper identifies novel insecticidal B. cereus group strains from UK insect-dense regions, revealing Cry toxin genes and uncharacterized biosynthetic gene clusters with potential for biopesticide development.

Antimicrobial Resistance Profiling and Phenotypic Characterization of Archived Clinical Bacillus paranthracis Strains

This study characterizes 20 archived B. paranthracis clinical strains, highlighting phenotypic similarities and differences with B. anthracis and assessing MinION sequencing for antimicrobial resistance detection.

NheABC is a pH-dependent cytotoxin that contributes to the virulence of Bacillus cereus

This study identifies NheABC as a pH-dependent cytotoxin in B. cereus that enhances colonization and causes cell death in mammalian cells.

Large-scale insights into the biosynthetic potential of the Bacillus cereus group

The paper analyzes the biosynthetic potential of the Bacillus cereus group using genomic data, identifying many novel biosynthetic gene clusters.

Scalable and interpretable secretion system annotation with Sismis

Sismis is a machine learning tool that accurately detects and classifies secretion systems in bacterial (meta)genomes, identifying many previously unknown systems.

PyOrthoANI, PyFastANI, and Pyskani: a suite of Python libraries for computation of average nucleotide identity

The paper introduces Python libraries for computing average nucleotide identity, matching existing tools' results and integrating with BioPython for workflow use.

Scalable single-cell metagenomic analysis with Bascet and Zorn

This paper introduces Bascet and Zorn, tools for scalable single-cell metagenomic analysis, demonstrating their utility on mock and human saliva samples.

Fast, flexible gene cluster family delineation with IGUA

IGUA is a fast and scalable method for delineating gene cluster families in prokaryotic genomes, outperforming existing tools in speed without sacrificing accuracy.

Exposure assessment suggests some cytotoxic Bacillus cereus group genotypes can grow over 3 logs in HTST milk throughout the shelf life at temperature abuse conditions

This study develops an exposure assessment model to predict B. cereus group growth in HTST milk under temperature abuse conditions, showing some genotypes can reach 105 CFU/mL by day 35 of storage.

AllTheBacteria: a community resource empowers biology and discovers novel peptide antibiotics

A uniformly processed set of 2,440,377 bacterial and archaeal genomes with search tools and annotations, plus an AI-mined peptide set yielding ATB20, active in a mouse skin infection model.

Comparison of the performance of multiple whole-genome sequence-based tools for the identification of Bacillus cereus sensu stricto biovar Thuringiensis

This study evaluates four bioinformatics tools for detecting crystal protein-encoding genes in Bacillus cereus s.s. biovar Thuringiensis using whole-genome sequencing data, finding IDOPS performs best overall.

Accurate de novo identification of biosynthetic gene clusters with GECCO

A linear conditional random field over ordered protein-domain annotations finds biosynthetic gene clusters de novo more precisely than DeepBGC and runs over three times faster on one CPU.