Centre for the Analysis of Genome Evolution and Function

CAGEF is on a new publication!

Comparison of Co-housing and Littermate Methods for Microbiota Standardization in Mouse Models | CAGEF Centre for the Analysis of Genome Evolution & Function Susan J Robertson, Paul Lemire, Heather Maughan, Ashleigh Goethel, Williams Turpin, Larbi Bedrani, David S Guttman, Kenneth Croitoru, Stephen E Girardin, Dana J Philpott

CAGEF is reopening! Beginning Monday, June 22, CAGEF will resume operations, with some new protocols for contactless sample drop-off. Learn more at https://www.cagef.utoronto.ca/covid-19/

All our genomic, bioinformatics, and other services will be available. We're protecting our staff with reduced and modified scheduling, so your samples might take a little longer to process, but they'll be treated with the same care and diligence as ever. Visit our website to schedule a sample drop, discuss future experiments, or find out about the services we provide!

COVID-19 Update and Reopening | CAGEF Centre for the Analysis of Genome Evolution & Function CAGEF will be resuming reduced operations on Monday June 22. We have implemented all the necessary safety measures for our staff and customers. Please note that since we are operating at a reduced capacity, processing time for samples may be longer than normal.For internal ESC building clients, samp...

CAGEF is on a new publication!

Entropy and Information within Intrinsically Disordered Protein Regions | CAGEF Centre for the Analysis of Genome Evolution & Function Bioinformatics and biophysical studies of intrinsically disordered proteins and regions (IDRs) note the high entropy at individual sequence positions and in conformations sampled in solution. This prevents application of the canonical sequence-structure-function paradigm to IDRs and motivates the de...

CAGEF is on a new publication!

Limiting oxidative DNA damage reduces microbe-induced colitis-associated colorectal cancer. | CAGEF Centre for the Analysis of Genome Evolution & Function Inflammatory bowel disease patients have a greatly increased risk of developing colitis-associated colon cancer (CAC); however, the basis for inflammation-induced genetic damage requisite for neoplasia is unclear. Using three models of CAC, we find that sustained inflammation triggers 8-oxoguanine D...

CAGEF is on a new publication!

Tung Tree (Vernicia fordii) Genome Provides A Resource for Understanding Genome Evolution and Improved Oil Production. | CAGEF Centre for the Analysis of Genome Evolution & Function Zhang L, Liu M, Long H, D**g W, Pasha A, Esteban E, Li W, Yang X, Li Z, Song A, Ran D, Zhao G, Zeng Y, Chen H, Zou M, Li J, Liang F, Xie M, Hu J, Wang D, Cao H, Provart NJ, Zhang L, Tan X.

CAGEF is on a new publication!

An abscisic acid-responsive protein interaction network for sucrose non-fermenting related kinase1 in abiotic stress response | CAGEF Centre for the Analysis of Genome Evolution & Function Yeast Snf1 (Sucrose non-fermenting1), mammalian AMPK (5′ AMP-activated protein kinase) and plant SnRK1 (Snf1-Related Kinase1) are conserved heterotrimeric kinase complexes that re-establish energy homeostasis following stress. The hormone abscisic acid (ABA) plays a crucial role in plant stress re...

CAGEF is on a new publication!

QuiC2 represents a functionally distinct class of dehydroshikimate dehydratases identified in Listeria species including Listeria monocytogenes | CAGEF Centre for the Analysis of Genome Evolution & Function Many Listeria species including L. monocytogenes contain the pathway for the biosynthesis of protocatechuate from shikimate and quinate. The qui1 and qui2 operons within these Listeria spp. encode enzymes for this pathway. The diversion of shikimate pathway intermediates in some Listeria species to....

CAGEF is on a new publication!

Light-responsive expression atlas reveals the effects of light quality and intensity in Kalanchoë fedtschenkoi, a plant with crassulacean acid metabolism | CAGEF Centre for the Analysis of Genome Evolution & Function Jin Zhang, Rongbin Hu, Avinash Sreedasyam, Travis M Garcia, Anna Lipzen, Mei Wang, Pradeep Yerramsetty, Degao Liu, Vivian Ng, Jeremy Schmutz, John C Cushman, Anne M Borland, Asher Pasha, Nicholas J Provart, Jin-Gui Chen, Wellington Muchero, Gerald A Tuskan, Xiaohan Yang

CAGEF is on a new publication!

Transcriptomics at Maize Embryo/Endosperm Interfaces Identifies a Transcriptionally Distinct Endosperm Subdomain Adjacent to the Embryo Scutellum. | CAGEF Centre for the Analysis of Genome Evolution & Function Doll NM, Just J, Brunaud V, Caïus J, Grimault A, Depège-Fargeix N, Esteban E, Pasha A, Provart NJ, Ingram GC, Rogowsky PM, Widiez T

CAGEF is on a new publication!

The pan-genome effector-triggered immunity landscape of a host-pathogen interaction | CAGEF Centre for the Analysis of Genome Evolution & Function Effector-triggered immunity (ETI), induced by host immune receptors in response to microbial effectors, protects plants against virulent pathogens. However, a systematic study of ETI prevalence against species-wide pathogen diversity is lacking. We constructed the Pseudomonas syringae Type III Eff...

CAGEF is on a new publication!

Expression Atlas of Selaginella moellendorffii Provides Insights into the Evolution of Vasculature, Secondary Metabolism, and Roots. | CAGEF Centre for the Analysis of Genome Evolution & Function Selaginella moellendorffii is a representative of the lycophyte lineage that is studied to understand the evolution of land plant traits such as the vasculature, leaves, stems, roots, and secondary metabolism. However, only a few studies have investigated the expression and transcriptional coordina...

CAGEF is on a new publication!

A High-Throughput, Seedling Screen for Plant Immunity | CAGEF Centre for the Analysis of Genome Evolution & Function An understanding of how biological diversity affects plant-microbe interactions is becoming increasingly important, particularly with respect to components of the pathogen effector arsenal and the plant immune system. Although technological improvements have greatly advanced our ability to examine m...