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Variation between long-diverged species. Eukaryotes specialize to their environment in amazing ways. When a species from one niche differs radically from its relatives elsewhere, we would love to know the mechanism at play. In many cases the underlying adaptive alleles are a mystery, especially if they arose long ago. The main roadblock to date has been that most experimental tools in evolutionary genetics research are only applicable to comparison across strains, not species. Ongoing work in the lab is devoted to breaking through this limitation. We have developed RH-seq, a novel approach to map the genetic basis of differences between distantly related species. Our strategy is designed to reveal the nucleotide-level variants that a given species has used to adapt to its environment over evolutionary time. We piloted RH-seq using thermotolerance in Saccharomyces as a test case; current projects focus on other phenotypes in this model organism, other fungi, and in reproductively isolated mice.
Mapping genotype to phenotype in fungi. Most fungal genomes are poorly annotated, so we have no idea of the genetic architecture for many fungal traits of industrial and biomedical relevance. In published work, our lab has used variation across wild populations to find the molecular basis of morphology traits in the model fungi Saccharomyces and Neurospora; we have also developed genomic screening approaches to annotate candidate virulence islands in the plant pathogen Zymoseptoria and lipid metabolism genes in the oleaginous yeast Rhodosporidium. Our next project, now in progress, is focused on strain variation in virulence and stress resistance traits in the human pathogen Coccidioides.
Variation between long-diverged species. Eukaryotes specialize to their environment in amazing ways. When a species from one niche differs radically from its relatives elsewhere, we would love to know the mechanism at play. In many cases the underlying adaptive alleles are a mystery, especially if they arose long ago. The main roadblock to date has been that most experimental tools in evolutionary genetics research are only applicable to comparison across strains, not species. Ongoing work in the lab is devoted to breaking through this limitation. We have developed RH-seq, a novel approach to map the genetic basis of differences between distantly related species. Our strategy is designed to reveal the nucleotide-level variants that a given species has used to adapt to its environment over evolutionary time. We piloted RH-seq using thermotolerance in Saccharomyces as a test case; current projects focus on other phenotypes in this model organism, other fungi, and in reproductively isolated mice.
Mapping genotype to phenotype in fungi. Most fungal genomes are poorly annotated, so we have no idea of the genetic architecture for many fungal traits of industrial and biomedical relevance. In published work, our lab has used variation across wild populations to find the molecular basis of morphology traits in the model fungi Saccharomyces and Neurospora; we have also developed genomic screening approaches to annotate candidate virulence islands in the plant pathogen Zymoseptoria and lipid metabolism genes in the oleaginous yeast Rhodosporidium. Our next project, now in progress, is focused on strain variation in virulence and stress resistance traits in the human pathogen Coccidioides.
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Journal of Clinical Oncologyno. 16_suppl (2024)
bioRxiv the preprint server for biology (2024)
Medical Imaging 2024: Image Perception, Observer Performance, and Technology Assessment (2024)
Kenneth A. Wilson,Sudipta Bar,Eric B. Dammer,Enrique M. Carrera,Brian A. Hodge,Tyler A. U. Hilsabeck,Joanna Bons, George W. Brownridge,Jennifer N. Beck,Jacob Rose, Melia Granath-Panelo,Christopher S. Nelson, Grace Qi,Akos A. Gerencser,Jianfeng Lan,Alexandra Afenjar,Geetanjali Chawla,Rachel B. Brem,Philippe M. Campeau,Hugo J. Bellen,Birgit Schilling,Nicholas T. Seyfried,Lisa M. Ellerby,Pankaj Kapahi
NATURE COMMUNICATIONSno. 1 (2024)
FEMS YEAST RESEARCH (2024)
Hereditypp.1-9, (2024)
Lisa I Couper,Tristram O Dodge, James A Hemker,Bernard Y Kim, Moi Exposito-Alonso,Rachel B Brem,Erin A Mordecai,Mark C Bitter
bioRxiv the preprint server for biology (2024)
Journal of breast imagingno. 2 (2024): 166-174
bioRxiv : the preprint server for biology (2023)
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#Papers: 212
#Citation: 9813
H-Index: 46
G-Index: 98
Sociability: 6
Diversity: 4
Activity: 56
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