Jeffrey A. Kimbrel

This study shows selenium deficiency in mice increases viral mutation diversity and generates mutations seen in SARS-CoV-2 pandemic variants.

This study examines how fluctuating redox conditions affect microbial communities and carbon cycling in tropical soils, finding that microbial communities adapt to dynamic redox conditions and distinct carbon compounds are cycled under varying redox regimes.

This study uses SIP-viromics to distinguish newly produced from persistent virions in soil, revealing that most virions persist without replication, linked to dominant bacterial groups.

This study shows that reduced winter precipitation lowers microbial growth efficiency and shifts soil organic carbon composition in a California grassland.

The paper introduces SIPdb, a database and analysis tool for linking microbial amplicon sequences to metabolic activity using SIP data, showing it recovers 70.1% of reported incorporators and validates known degraders.

This study identifies direct and diffuse cross-kingdom interactions between fungi and bacteria in plant microbiomes, showing their significant contribution to community structure.

The paper quantifies glycolate metabolism by marine bacteria and shows cross-feeding enhances carbon transfer efficiency.

The paper measures microbial growth rates in soil habitats to test if specialists grow faster than generalists, finding specialists do, with fungal responses differing due to life-history strategies.

This study identifies a bacterium that contributes to diatom population collapse in outdoor algal ponds and explores its interactions with other microbes.

This study shows phosphate amendment alters RNA virus community composition in soil after rewetting, with 60% of responding viruses belonging to unknown clades and significant impacts on bacterial populations.

This paper develops a high-throughput method to assess biofertilizer persistence in synthetic soil communities and evaluates its ecological impact on native microbial consortia.

This study examines how soil redox conditions influence viral communities and virus-host interactions in tropical rainforest soils, revealing distinct viral populations and their roles in carbon degradation.

The paper shows that passaging SARS-CoV-2 viral stocks under antiserum selection pressure increases genetic diversity and antibody escape mutations, making them more representative of circulating viruses.

The paper quantifies viral carbon and nitrogen assimilation by coastal bacteria and protists using isotope-labeled viruses and flow cytometry, showing biotic processes significantly enhance virus removal.

The paper introduces a data standard (MISIP) to improve reproducibility and reuse of stable isotope probing (SIP) sequencing data by defining essential metadata fields.

The paper introduces multiPhATE2, a tool for functional annotation and comparative genomics of bacteriophage genomes, with improved scalability and additional search algorithms.

The paper introduces the ModelSEED biochemistry database, which integrates metabolic annotations and supports the reconstruction and analysis of metabolic models for plants, fungi, and microbes.

multiPhATE is a pipeline for annotating phage genomes, demonstrating its use on Yersinia pestis phage genomes and providing open-source tools for scalable phage annotation.

The paper reannotates 27 bacterial genomes using multiple functional annotation tools, significantly increasing the coverage of metabolic annotations.