Publications

CAGEF has contributed to over 360 publications.

Ca to the rescue – Cachannels and signaling in plant immunity

Posted by on Feb 4, 2019 in Publications | Comments Off on Ca to the rescue – Cachannels and signaling in plant immunity

Moeder W, Phan V, Yoshioka K Plant Sci. 2019 Feb;279:19-26 PMID: 30709488
Abstract: Ca is a universal second messenger in many signaling pathways in all eukaryotes including plants. Transient changes in [Ca]cyt are rapidly generated upon a diverse range of stimuli such as drought, heat, wounding, and biotic stresses (infection by pathogenic and symbiotic microorganisms), as well as developmental cues. It has been known for a while that [Ca]cyt transient signals play crucial roles to activate plant immunity and recently significant progresses...

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Penicillin binding protein 3 is a common adaptive target among Pseudomonas aeruginosa isolates from adult cystic fibrosis patients treated with β-lactams

Posted by on Jan 23, 2019 in Publications | Comments Off on Penicillin binding protein 3 is a common adaptive target among Pseudomonas aeruginosa isolates from adult cystic fibrosis patients treated with β-lactams

Clark ST, Sinha U, Zhang Y, Wang PW, Donaldson SL, Coburn B, Waters VJ, Yau YCW, Tullis DE, Guttman DS, Hwang DM Int. J. Antimicrob. Agents 2019 Jan; PMID: 30664925
Abstract: Determining the mechanisms that modulate β-lactam resistance in clinical P. aeruginosa isolates can be challenging, as the molecular profiles identified in mutation- or expression-based resistance determinant screens may not correlate with in vitro phenotypes. One of the lesser studied resistance mechanisms in P. aeruginosa is the modification of penicillin binding...

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A genome-wide association analysis reveals a potential role for recombination in the evolution of antimicrobial resistance in Burkholderia multivorans

Posted by on Jan 21, 2019 in Publications | Comments Off on A genome-wide association analysis reveals a potential role for recombination in the evolution of antimicrobial resistance in Burkholderia multivorans

Diaz Caballero J, Clark ST, Wang PW, Donaldson SL, Coburn B, Tullis DE, Yau YCW, Waters VJ, Hwang DM, Guttman DS PLoS Pathog. 2018 Dec;14(12):e1007453 PMID: 30532201
Abstract: Cystic fibrosis (CF) lung infections caused by members of the Burkholderia cepacia complex, such as Burkholderia multivorans, are associated with high rates of mortality and morbidity. We performed a population genomics study of 111 B. multivorans sputum isolates from one CF patient through three stages of infection including an early incident isolate, deep sampling of a...

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Identifying Type III Secreted Effector Function via a Yeast Genomic Screen

Posted by on Jan 21, 2019 in Publications | Comments Off on Identifying Type III Secreted Effector Function via a Yeast Genomic Screen

Huei-Yi Lee A, Bastedo DP, Youn JY, Lo T, Middleton MA, Kireeva I, Lee JY, Sharifpoor S, Baryshnikova A, Zhang J, Wang PW, Peisajovich SG, Costanzo M, Andrews BJ, Boone CM, Desveaux D, Guttman DS G3 (Bethesda) 2018 Dec; PMID: 30573466
Abstract: Gram-negative bacterial pathogens inject type III secreted effectors (T3SEs) directly into host cells to promote pathogen fitness by manipulating host cellular processes. Despite their crucial role in promoting virulence, relatively few T3SEs have well-characterized enzymatic activities or host targets....

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Recombination of ecologically and evolutionarily significant loci maintains genetic cohesion in the Pseudomonas syringae species complex

Posted by on Jan 7, 2019 in Publications | Comments Off on Recombination of ecologically and evolutionarily significant loci maintains genetic cohesion in the Pseudomonas syringae species complex

Dillon MM, Thakur S, Almeida RND, Wang PW, Weir BS, Guttman DS Genome Biol. 2019 Jan;20(1):3 PMID: 30606234
Abstract: BACKGROUND: Pseudomonas syringae is a highly diverse bacterial species complex capable of causing a wide range of serious diseases on numerous agronomically important crops. We examine the evolutionary relationships of 391 agricultural and environmental strains using whole-genome sequencing and evolutionary genomic analyses. RESULTS: We describe the phylogenetic distribution of all 77,728 orthologous gene families in the...

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Arabidopsis ETHYLENE RESPONSE FACTOR 8 (ERF8) has dual functions in ABA signaling and immunity

Posted by on Oct 1, 2018 in Publications | Comments Off on Arabidopsis ETHYLENE RESPONSE FACTOR 8 (ERF8) has dual functions in ABA signaling and immunity

Cao FY, DeFalco TA, Moeder W, Li B, Gong Y, Liu XM, Taniguchi M, Lumba S, Toh S, Shan L, Ellis B, Desveaux D, Yoshioka K BMC Plant Biol. 2018 Sep;18(1):211 PMID: 30261844
Abstract: BACKGROUND: ETHYLENE RESPONSE FACTOR (ERF) 8 is a member of one of the largest transcription factor families in plants, the APETALA2/ETHYLENE RESPONSIVE FACTOR (AP2/ERF) superfamily. Members of this superfamily have been implicated in a wide variety of processes such as development and environmental stress responses. RESULTS: In this study we demonstrated that ERF8...

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Chloroplast sequence variation and the efficacy of peptide nucleic acids for blocking host amplification in plant microbiome studies

Posted by on Aug 20, 2018 in Publications | Comments Off on Chloroplast sequence variation and the efficacy of peptide nucleic acids for blocking host amplification in plant microbiome studies

Fitzpatrick CR, Lu-Irving P, Copeland J, Guttman DS, Wang PW, Baltrus DA, Dlugosch KM, Johnson MTJ Microbiome 2018 Aug;6(1):144 PMID: 30121081
Abstract: BACKGROUND: The ability to efficiently characterize microbial communities from host individuals can be limited by co-amplification of host organellar sequences (mitochondrial and/or plastid), which share a common ancestor and thus sequence similarity with extant bacterial lineages. One promising approach is the use of sequence-specific peptide nucleic acid (PNA) clamps, which bind to, and block...

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Population genomics of bacterial host adaptation

Posted by on Jul 6, 2018 in Publications | Comments Off on Population genomics of bacterial host adaptation

Sheppard SK, Guttman DS, Fitzgerald JR Nat. Rev. Genet. 2018 Jul; PMID: 29973680
Abstract: Some bacteria can transfer to new host species, and this poses a risk to human health. Indeed, an estimated 60% of all human pathogens have originated from other animal species. Similarly, human-to-animal transitions are recognized as a major threat to sustainable livestock production, and emerging pathogens impose an increasing burden on crop yield and global food security. Recent advances in high-throughput sequencing technologies have enabled...

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Epidemiology of Clonal Pseudomonas aeruginosa Infection in a Canadian Cystic Fibrosis Population

Posted by on Jun 20, 2018 in Featured Publications, Publications | Comments Off on Epidemiology of Clonal Pseudomonas aeruginosa Infection in a Canadian Cystic Fibrosis Population

Middleton MA, Layeghifard M, Klingel M, Stanojevic S, Yau YCW, Zlosnik JEA, Coriati A, Ratjen FA, Tullis ED, Stephenson A, Wilcox P, Freitag A, Chilvers M, McKinney M, Lavoie A, Wang PW, Guttman DS, Waters VJ Ann Am Thorac Soc 2018 Jun; PMID: 29911888
Abstract: RATIONALE: The extent of the genetic relatedness among Pseudomonas aeruginosa isolates and its impact on clinical outcomes in the cystic fibrosis (CF) population is poorly understood. OBJECTIVES: The objectives of this study were to determine the prevalence of clonal P. aeruginosa...

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Structural and biochemical approaches uncover multiple evolutionary trajectories of plant quinate dehydrogenases

Posted by on Jun 12, 2018 in Publications | Comments Off on Structural and biochemical approaches uncover multiple evolutionary trajectories of plant quinate dehydrogenases

Gritsunov A, Peek J, Diaz Caballero J, Guttman D, Christendat D Plant J. 2018 Jun; PMID: 29890023
Abstract: Quinate is produced and used by many plants in the biosynthesis of chlorogenic acids (CGA). CGA are astringent which serves as deterrents of herbivory. They also function as antifungal agents and have potent antioxidant properties. Quinate is produced at a branch point of shikimate biosynthesis by the enzyme, quinate dehydrogenase (QDH). However, little information exists on the identity and biochemical properties of plant QDHs. In this...

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