The use of volatile organic compounds in preventing and managing invasive plant pests and pathogens DOI Creative Commons
Riccardo Favaro, Miroslav Berka, Martin Pettersson

et al.

Frontiers in Horticulture, Journal Year: 2024, Volume and Issue: 3

Published: Nov. 28, 2024

Invasive pests and plant pathogens pose a significant threat to ecosystems economies worldwide, prompting the need of anticipatory strategies. Preventing their introduction by detection at ports entry has been proven extremely difficult. This review explores potential biogenic volatile as reliable preventive solution. It underscores importance early rapid response integral components effective invasive pest management, it discusses limitations current control measures increasing globalization that facilitates spread pathogens. Through synthesis existing literature, this analyzes Volatile Organic Compound (VOC) emissions in five model species: three insects, Halyomorpha halys , Spodoptera frugiperda Helicoverpa armigera nematode, Bursaphelenchus xylophilus an oomycete, Phytophthora ramorum . The focuses on specific volatiles, released both organisms infested host plants. If available, volatiles emitted from similar species were considered for comparison. Ultimately, highlights shared Herbivore Induced Plant Volatiles (HIPVs) innovative solution detection. possible, candidate compounds are provided, whilst lack some emphasizes urge expanding information available.

Language: Английский

In silico prediction method for plant Nucleotide‐binding leucine‐rich repeat‐ and pathogen effector interactions DOI Creative Commons
Alicia Fick,

Jacobus Lukas Marthinus Fick,

Velushka Swart

et al.

The Plant Journal, Journal Year: 2025, Volume and Issue: 122(2)

Published: April 1, 2025

SUMMARY Plant Nucleotide‐binding leucine‐rich repeat (NLR) proteins play a crucial role in effector recognition and activation of Effector triggered immunity following pathogen infection. Genome sequencing advancements have led to the identification myriad NLRs numerous agriculturally important plant species. However, deciphering which recognize specific effectors remains challenging. Predicting NLR–effector interactions silico will provide more targeted approach for experimental validation, critical elucidating function, advancing our understanding NLR‐triggered immunity. In this study, protein complex structures were predicted using AlphaFold2‐Multimer all experimentally validated reported literature. Binding affinities‐ energies 97 machine learning models from Area‐Affinity. We show that acceptable accuracy can be used investigate . affinities 58 complexes ranged between −8.5 −10.6 log(K), binding −11.8 −14.4 kcal/mol −1 , depending on Area‐Affinity model used. For 2427 “forced” complexes, these estimates showed larger variability, enabling novel with 99% an Ensemble model. The narrow range energies‐ “true” suggest change Gibbs free energy, thus conformational change, is required NLR activation. This first study method predicting interactions, applicable pathosystems. Finally, NLR–Effector Interaction Classification (NEIC) resource streamline research efforts by identifying plant–pathogen resistance,

Language: Английский

Citations

0
The story of coffee: legend and truth DOI
A. Jesús Muñoz‐Pajares, Vítor Várzea, Maria do Céu Silva

et al.

Trends in Plant Science, Journal Year: 2023, Volume and Issue: 28(5), P. 501 - 504

Published: March 14, 2023

Language: Английский

Citations

6
Comparative-genomic analysis reveals dynamic NLR gene loss and gain across Apiaceae species DOI Creative Commons
Xiaohui Liang,

Dong Junming

Frontiers in Genetics, Journal Year: 2023, Volume and Issue: 14

Published: March 2, 2023

Introduction: Nucleotide-binding leucine-rich repeat (NLR) genes play a crucial role in green plants' responding to various pathogens. Genome-scale evolutionary studies of NLR are important for discovering and applying functional genes. However, little is known about the evolution Apiaceae family including agricultural medical plants. Methods: In this study, comparative genomic analysis was performed four species trace dynamic patterns during speciation family. Results: The results revealed different number these species, namely, Angelica sinensis (95), Coriandrum sativum (183), Apium graveolens (153) Daucus carota (149). Phylogenetic demonstrated that were derived from 183 ancestral lineages experienced levels gene-loss gain events. contraction pattern discovered D. carota, whereas after first expansion observed A. sinensis, C. graveolens. Discussion: Taken together, rapid gene content variation has shaped history species.

Language: Английский

Citations

4
Parental assigned chromosomes for cultivated cacao provides insights into genetic architecture underlying resistance to vascular streak dieback DOI Creative Commons
Peri A. Tobias, Jacob Downs,

P. Epaina

et al.

The Plant Genome, Journal Year: 2024, Volume and Issue: 17(4)

Published: Oct. 15, 2024

Diseases of Theobroma cacao L. (Malvaceae) disrupt cocoa bean supply and economically impact growers. Vascular streak dieback (VSD), caused by Ceratobasidium theobromae, is a new encounter disease currently contained to southeast Asia Melanesia. Resistance VSD has been tested with large progeny trials in Sulawesi, Indonesia, Papua New Guinea the identification informative quantitative trait loci (QTLs). Using susceptible tree (clone 26), derived from resistant parental cross, we assembled genome chromosome-level discriminated alleles inherited either or parents. The parentally phased genomes were annotated for all predicted genes then specifically resistance nucleotide-binding site leucine-rich repeat class (NLR). On investigation, determined presence NLR clusters other potential response gene candidates proximity QTLs. We identified structural variants within NLRs parentals. present first diploid, fully scaffolded, resource T. provide insights into genetics underlying susceptibility VSD.

Language: Английский

Citations

1
Parental assigned chromosomes for cultivated cacao provides insights into genetic architecture underlying responses to Ceratobasidium theobromae DOI Creative Commons
Peri A. Tobias, Jacob Downs,

P. Epaina

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: May 31, 2024

Diseases of Theobroma cacao disrupt cocoa bean supply and have economic impacts to growers. Vascular streak dieback (VSD), caused by Ceratobasidium theobromae , is a new encounter disease currently contained southeast Asia Melanesia. Resistance VSD has been tested with large progeny trials in Sulawesi Papua New Guinea the identification informative quantitative trait loci (QTL). Using susceptible tree (clone 26), derived from resistant parental cross, we assembled genome chromosome-level discriminated alleles inherited either or parents. The parentally phased genomes were annotated for all predicted genes then specifically resistance nucleotide binding site leucine rich repeat class (NLR). On investigation, determined presence NLR clusters at QTLs, as well other potential response gene candidates. Understanding genetics underlying susceptibility will accelerate breeding cycle providing clear targets molecular screening. Additionally, provide first diploid, fully scaffolded resource L.

Language: Английский

Citations

0
What NLR you recognizing? Predicted binding affinities- and energies may be used to identify novel NLR-effector interactions DOI Creative Commons
Alicia Fick,

Jacobus Lukas Marthinus Fick,

Velushka Swart

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: July 27, 2024

Abstract Nucleotide binding Leucine-rich repeat (NLR) proteins play a crucial role in effector recognition and activation of Effector triggered immunity plants following pathogen infection. Advances genome sequencing have led to the identification myriad NLRs numerous agriculturally important plant species. However, deciphering which NLR recognize specific effectors remains challenge. Predicting NLR-effector interactions silico would provide more targeted approach for experimental validation, critical elucidating function, advancing our understanding NLR-triggered immunity. In this study, protein complex structures were predicted using AlphaFold2-Multimer all experimentally validated interactions. Binding affinities– energies 97 machine learning models from Area-affinity. We show that with an AlphaFold confidence score > 0.42 acceptable accuracy, can be used investigate . affinities 58 complexes ranged between –8.5 –10.6 log(K), –11.8 –14.4 kcal/mol, depending on Area-Affinity model used. For 2427 “forced” complexes, these estimates showed larger variability, enabling novel 99% accuracy Ensemble model. The narrow range energies– true suggest change Gibbs free energy, thus conformational change, is required activation. This first study method predicting interactions, applicable plant-pathogen Finally, NLR-Effector Interaction Classification (NEIC) resource streamline research efforts by identifying providing resistance against pathogens,

Language: Английский

Citations

0
Characterization and functional validation of a genomic region involved in resistance to rust race II in Coffea arabica DOI
Caroline Ariyoshi,

Suzana Tiemi Ivamoto-Suzuki,

Viviane Yumi Baba

et al.

Australasian Plant Pathology, Journal Year: 2024, Volume and Issue: 53(4), P. 363 - 373

Published: July 1, 2024

Language: Английский

Citations

0
Genomics to reveal divergence and convergence between coffee species DOI
Seyed Mehdi Jazayeri,

Reyhaneh Sadat Jazayeri,

Habib MotieGhader

et al.

Elsevier eBooks, Journal Year: 2024, Volume and Issue: unknown, P. 45 - 57

Published: Oct. 1, 2024

Language: Английский

Citations

0
The use of volatile organic compounds in preventing and managing invasive plant pests and pathogens DOI Creative Commons
Riccardo Favaro, Miroslav Berka, Martin Pettersson

et al.

Frontiers in Horticulture, Journal Year: 2024, Volume and Issue: 3

Published: Nov. 28, 2024

Invasive pests and plant pathogens pose a significant threat to ecosystems economies worldwide, prompting the need of anticipatory strategies. Preventing their introduction by detection at ports entry has been proven extremely difficult. This review explores potential biogenic volatile as reliable preventive solution. It underscores importance early rapid response integral components effective invasive pest management, it discusses limitations current control measures increasing globalization that facilitates spread pathogens. Through synthesis existing literature, this analyzes Volatile Organic Compound (VOC) emissions in five model species: three insects, Halyomorpha halys , Spodoptera frugiperda Helicoverpa armigera nematode, Bursaphelenchus xylophilus an oomycete, Phytophthora ramorum . The focuses on specific volatiles, released both organisms infested host plants. If available, volatiles emitted from similar species were considered for comparison. Ultimately, highlights shared Herbivore Induced Plant Volatiles (HIPVs) innovative solution detection. possible, candidate compounds are provided, whilst lack some emphasizes urge expanding information available.

Language: Английский

Citations

0