TY  - CHAP
AU  - Choudhary, Manoj
AU  - Paret, Mathews
AU  - Obradović, Aleksa
AU  - Gašić, Katarina
AU  - Jeff, Jones
PY  - 2022
UR  - https://plantarum.izbis.bg.ac.rs/handle/123456789/763
AB  - Crop yield loss due to bacterial plant pathogens need to be reduced to increase global food production demand. Currently available disease management strategies involving copper-based bactericides and antibiotics are losing efficacy due to development of resistance in bacteria. There is long familiar demand of environmentally friendly and sustainable strategies to control bacterial diseases. Bacteriophages are virus that kill target bacteria without affecting another microorganism and environment. Bacteriophage efficiency on phyllosphere is mainly affected by ultraviolet (UV) light. Use of combination of phage, mixture with phage carrier bacteria and optimizing time of application helps in persistence of bacteriophage. There are several bacteriophage products already available in the market to control destructive bacterial diseases. Unlike chemical based traditional control measure, bacteriophage mixture can be easily amended to reduce resistance development in bacteria. In this chapter, the authors discuss from phage isolation to interaction with bacteria and control mechanism of plant diseases.
PB  - Burleigh Dodds Science Publishing
T2  - In: Microbial bioprotectants for plant disease management (eds. Köhl, J and Ravensberg, W.), Burleigh Dodds Science Publishing, Sawston, Cambridge, UK, pp: 473-506.
T1  - Bacteriophages for plant disease control
EP  - 506
SP  - 473
DO  - 10.19103/AS.2021.0093.18
ER  - 

@inbook{
author = "Choudhary, Manoj and Paret, Mathews and Obradović, Aleksa and Gašić, Katarina and Jeff, Jones",
year = "2022",
abstract = "Crop yield loss due to bacterial plant pathogens need to be reduced to increase global food production demand. Currently available disease management strategies involving copper-based bactericides and antibiotics are losing efficacy due to development of resistance in bacteria. There is long familiar demand of environmentally friendly and sustainable strategies to control bacterial diseases. Bacteriophages are virus that kill target bacteria without affecting another microorganism and environment. Bacteriophage efficiency on phyllosphere is mainly affected by ultraviolet (UV) light. Use of combination of phage, mixture with phage carrier bacteria and optimizing time of application helps in persistence of bacteriophage. There are several bacteriophage products already available in the market to control destructive bacterial diseases. Unlike chemical based traditional control measure, bacteriophage mixture can be easily amended to reduce resistance development in bacteria. In this chapter, the authors discuss from phage isolation to interaction with bacteria and control mechanism of plant diseases.",
publisher = "Burleigh Dodds Science Publishing",
journal = "In: Microbial bioprotectants for plant disease management (eds. Köhl, J and Ravensberg, W.), Burleigh Dodds Science Publishing, Sawston, Cambridge, UK, pp: 473-506.",
booktitle = "Bacteriophages for plant disease control",
pages = "506-473",
doi = "10.19103/AS.2021.0093.18"
}

Choudhary, M., Paret, M., Obradović, A., Gašić, K.,& Jeff, J.. (2022). Bacteriophages for plant disease control. in In: Microbial bioprotectants for plant disease management (eds. Köhl, J and Ravensberg, W.), Burleigh Dodds Science Publishing, Sawston, Cambridge, UK, pp: 473-506.
Burleigh Dodds Science Publishing., 473-506.
https://doi.org/10.19103/AS.2021.0093.18

Choudhary M, Paret M, Obradović A, Gašić K, Jeff J. Bacteriophages for plant disease control. in In: Microbial bioprotectants for plant disease management (eds. Köhl, J and Ravensberg, W.), Burleigh Dodds Science Publishing, Sawston, Cambridge, UK, pp: 473-506.. 2022;:473-506.
doi:10.19103/AS.2021.0093.18 .

Choudhary, Manoj, Paret, Mathews, Obradović, Aleksa, Gašić, Katarina, Jeff, Jones, "Bacteriophages for plant disease control" in In: Microbial bioprotectants for plant disease management (eds. Köhl, J and Ravensberg, W.), Burleigh Dodds Science Publishing, Sawston, Cambridge, UK, pp: 473-506. (2022):473-506,
https://doi.org/10.19103/AS.2021.0093.18 . .

TY  - JOUR
AU  - Newberry, Eric
AU  - Ebrahim, Mohamed
AU  - Timilsina, Sujan
AU  - Zlatković, Nevena
AU  - Obradović, Aleksa
AU  - Bull, Carolee
AU  - Goss, Erica
AU  - Huguet Tapia, Jose
AU  - Paret, Mathews
AU  - Jones, Jeffrey
AU  - Potnis, Neha
PY  - 2019
UR  - https://plantarum.izbis.bg.ac.rs/handle/123456789/960
AB  - Pseudomonas syringae sensu strict , (phylogroup 2; referred to as P. syringae) consists of an environmentally ubiquitous bacterial population associated with diseases of numerous plant species. Recent studies using multilocus sequence analysis have indicated the clonal expansion of several P. syringae lineages, located in phylogroups 2a and 2b, in association with outbreaks of bacterial spot disease of watermelon, cantaloupe, and squash in the United States. To investigate the evolutionary processes that led to the emergence of these epidemic lineages, we sequenced the genomes of six P. syringae strains that were isolated from cucurbits grown in the United States, Europe, and China over a period of more than a decade, as well as eight strains that were isolated from watermelon and squash grown in six different Florida counties during the 2013 and 2014 seasons. These data were subjected to comparative analyses along with 42 previously sequenced genomes of P. syringae stains collected from diverse plant species and environments available from GenBank. Maximum likelihood reconstruction of the P. syringae core genome revealed the presence of a hybrid phylogenetic group, comprised of cucurbit strains collected in Florida, Italy, Serbia, and France, which emerged through genome-wide homologous recombination between phylogroups 2a and 2b. Functional analysis of the recombinant core genome showed that pathways involved in the ATP-dependent transport and metabolism of amino acids, bacterial motility, and secretion systems were enriched for recombination. A survey of described virulence factors indicated the convergent acquisition of several accessory type 3 secreted effectors (T3SEs) among phylogenetically distinct lineages through integrative and conjugative element and plasmid loci. Finally, pathogenicity assays on watermelon and squash showed qualitative differences in virulence between strains of the same clonal lineage, which correlated with T3SEs acquired through various mechanisms of horizontal gene transfer (HGT). This study provides novel insights into the interplay of homologous recombination and HGT toward pathogen emergence and highlights the dynamic nature of P. syringae sensu lato genomes.
PB  - Frontiers Media Sa, Lausanne
T2  - Frontiers in Microbiology
T1  - Inference of Convergent Gene Acquisition Among Pseudomonas syringae Strains Isolated From Watermelon, Cantaloupe, and Squash
EP  - 18
SP  - 1
VL  - 10
DO  - 10.3389/fmicb.2019.00270
ER  - 

@article{
author = "Newberry, Eric and Ebrahim, Mohamed and Timilsina, Sujan and Zlatković, Nevena and Obradović, Aleksa and Bull, Carolee and Goss, Erica and Huguet Tapia, Jose and Paret, Mathews and Jones, Jeffrey and Potnis, Neha",
year = "2019",
abstract = "Pseudomonas syringae sensu strict , (phylogroup 2; referred to as P. syringae) consists of an environmentally ubiquitous bacterial population associated with diseases of numerous plant species. Recent studies using multilocus sequence analysis have indicated the clonal expansion of several P. syringae lineages, located in phylogroups 2a and 2b, in association with outbreaks of bacterial spot disease of watermelon, cantaloupe, and squash in the United States. To investigate the evolutionary processes that led to the emergence of these epidemic lineages, we sequenced the genomes of six P. syringae strains that were isolated from cucurbits grown in the United States, Europe, and China over a period of more than a decade, as well as eight strains that were isolated from watermelon and squash grown in six different Florida counties during the 2013 and 2014 seasons. These data were subjected to comparative analyses along with 42 previously sequenced genomes of P. syringae stains collected from diverse plant species and environments available from GenBank. Maximum likelihood reconstruction of the P. syringae core genome revealed the presence of a hybrid phylogenetic group, comprised of cucurbit strains collected in Florida, Italy, Serbia, and France, which emerged through genome-wide homologous recombination between phylogroups 2a and 2b. Functional analysis of the recombinant core genome showed that pathways involved in the ATP-dependent transport and metabolism of amino acids, bacterial motility, and secretion systems were enriched for recombination. A survey of described virulence factors indicated the convergent acquisition of several accessory type 3 secreted effectors (T3SEs) among phylogenetically distinct lineages through integrative and conjugative element and plasmid loci. Finally, pathogenicity assays on watermelon and squash showed qualitative differences in virulence between strains of the same clonal lineage, which correlated with T3SEs acquired through various mechanisms of horizontal gene transfer (HGT). This study provides novel insights into the interplay of homologous recombination and HGT toward pathogen emergence and highlights the dynamic nature of P. syringae sensu lato genomes.",
publisher = "Frontiers Media Sa, Lausanne",
journal = "Frontiers in Microbiology",
title = "Inference of Convergent Gene Acquisition Among Pseudomonas syringae Strains Isolated From Watermelon, Cantaloupe, and Squash",
pages = "18-1",
volume = "10",
doi = "10.3389/fmicb.2019.00270"
}

Newberry, E., Ebrahim, M., Timilsina, S., Zlatković, N., Obradović, A., Bull, C., Goss, E., Huguet Tapia, J., Paret, M., Jones, J.,& Potnis, N.. (2019). Inference of Convergent Gene Acquisition Among Pseudomonas syringae Strains Isolated From Watermelon, Cantaloupe, and Squash. in Frontiers in Microbiology
Frontiers Media Sa, Lausanne., 10, 1-18.
https://doi.org/10.3389/fmicb.2019.00270

Newberry E, Ebrahim M, Timilsina S, Zlatković N, Obradović A, Bull C, Goss E, Huguet Tapia J, Paret M, Jones J, Potnis N. Inference of Convergent Gene Acquisition Among Pseudomonas syringae Strains Isolated From Watermelon, Cantaloupe, and Squash. in Frontiers in Microbiology. 2019;10:1-18.
doi:10.3389/fmicb.2019.00270 .

Newberry, Eric, Ebrahim, Mohamed, Timilsina, Sujan, Zlatković, Nevena, Obradović, Aleksa, Bull, Carolee, Goss, Erica, Huguet Tapia, Jose, Paret, Mathews, Jones, Jeffrey, Potnis, Neha, "Inference of Convergent Gene Acquisition Among Pseudomonas syringae Strains Isolated From Watermelon, Cantaloupe, and Squash" in Frontiers in Microbiology, 10 (2019):1-18,
https://doi.org/10.3389/fmicb.2019.00270 . .