Isolation and identification of grapevine endophytic bacteria with antagonistic potential against Fomitiporia mediterranea, a pathogen involved in grapevine trunk disease

Vaghari Souran, Seyedeh Elham; Shekariesfahlan, Azam; Ashrafi, Fatemeh; Naeimi, Shahram; Ghasemi, Abolghasem

doi:10.1007/s41348-023-00788-8

J Plant Dis Prot

2023

DOI: 10.1007/s41348-023-00788-8

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Isolation and identification of grapevine endophytic bacteria with antagonistic potential against Fomitiporia mediterranea, a pathogen involved in grapevine trunk disease

Seyedeh Elham Vaghari Souran,

Azam Shekariesfahlan,

Fatemeh Ashrafi

et al.

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2024

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Cited by 3 publications

References 61 publications

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Quantitative intra- and intergeneric taxonomic relationships among Micrococcaceae strains reveal contradictions in the historical assignments of the strains and indicate the need for species reclassification

Shchyogolev,

Dykman,

Sokolov

et al. 2024

Arch Microbiol

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We report phylogenetic studies of a bacterial isolate (Isolate SG) recovered from a suspension culture of Arabidopsis thaliana (L.) Heynh. In doing this, we use the known results acquired by whole genome sequencing of the DNA of Micrococcaceae strains closely related to Isolate SG in the 16S rRNA gene test and we evaluate the intra-and intergeneric taxonomic relationships between them using a set of five whole genome tests (ANI, AAI, MiGA, GTDB-Tk, and AAIprofiler). Quantitative analysis of the clustering of the proteomes of these strains by the average amino acid identity (AAI)-based test showed the need to clarify (with possible renaming) the generic assignment of the strains both within and between the identified monophyletic groups. The need for such reclassification was also shown by the AAI-profiler test (Medlar et al., 2018) against the UniProt database (250 million records) with the proteome of Rothia sp. ND6WE1A -a strain most evolutionarily similar to Isolate SG. The contradictions in the historically given names of strains and metagenomic objects at the genus and family levels, which were identified by using sets of the genomes and proteomes of the strains related to Isolate SG, can be eliminated with appropriate reclassification of the objects by using quantitative criteria in the AAI-based tests.

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Quantitative intra- and intergeneric taxonomic relationships among Micrococcaceae strains reveal contradictions in the historical assignments of the strains and indicate the need for species reclassification

Shchyogolev,

Dykman,

Sokolov

et al. 2024

Arch Microbiol

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Can biocontrol be the game-changer in integrated pest management? A review of definitions, methods and strategies

Galli,

Feldmann,

Vogler

et al. 2024

J Plant Dis Prot

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Global agriculture is heavily dependent on sustainable plant protection. Worldwide, the concept of integrated pest management (IPM) is being followed. IPM utilizes a range of strategies, with chemical synthetic pesticides being employed only as a last resort. However, in agricultural practice, farmers continue to rely primarily on this option. To further reduce this dependence, new strategies are being sought to strengthen the use of biological control within the IPM approach including the identification of novel non-synthetic natural compounds. Here, we discuss and report on the state of the art in biological control research in areas such as biocontrol agents and application of ecological principles. These practices can help to establish sustainable plant protection systems, with the greatest impact achieved when they are used in appropriate combinations. We highlight the conditions that currently prevent or hinder the increased use of biocontrol measures. On the background of agroecological experiences, we discuss why additional advancements in plant protection practices are imperative to more effectively break the life cycles of pests, diseases and weeds. We emphasize the significance of a judicious application of chemical control technologies, adapted to local conditions. Additionally, we highlight the key role and expertise of operators in implementing these practices and their knowledge thereof.

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Next-generation sequencing-based comparative mapping and culture-based screening of bacterial rhizobiome in Phytophthora capsici-resistant and susceptible Piper species

Hima Parvathy,

Santhoshkumar,

Soniya

2024

Front. Microbiol.

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Black pepper (Piper nigrum L.), a highly valued spice crop, is economically significant as one of the most widely traded spices in the world. The global yield and quality of black pepper (Piper nigrum L.) are affected by foot rot-causing soil-borne oomycete pathogen Phytophthora capsici. To gain initial insights toward developing an approach that utilizes microbial genetic resources for controlling foot rot disease in black pepper, we mapped the rhizobiome communities in susceptible Piper nigrum L. and wild-resistant Piper colubrinum. The analysis showed compositional differences in the rhizobiome of two Piper species, which revealed higher diversity and the presence of more differentially abundant genera in P. colubrinum. Furthermore, P. colubrinum rhizobiome had a significantly higher abundance of known anti-oomycete genera, such as Pseudomonas, and a higher differential abundance of Janthinobacterium, Variovorax, and Comamonas, indicating their probable contribution to pathogen resistance. Predictive functional profiling in P. colubrinum rhizobiome showed highly enriched functional gene orthologs (KOs), particularly chemotaxis proteins, osmoprotectants, and other transport systems that aid in pathogen resistance. Similarly, pathways such as phenylpropanoid biosynthesis and other antimicrobial synthesis were enriched in P. colubrinum rhizobiome. The culturable diversity of the resistant root endosphere, which harbors efficient biocontrol agents such as Pseudomonas, strengthens the possible role of root microbiome in conferring resistance against soil-borne pathogens. Our results depicted a clear distinction in the rhizobiome architecture of resistant and susceptible Piper spp., suggesting its influence in recruiting bacterial communities that probably contribute to pathogen resistance.

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Isolation and identification of grapevine endophytic bacteria with antagonistic potential against Fomitiporia mediterranea, a pathogen involved in grapevine trunk disease

Cited by 3 publications

References 61 publications

Quantitative intra- and intergeneric taxonomic relationships among Micrococcaceae strains reveal contradictions in the historical assignments of the strains and indicate the need for species reclassification

Quantitative intra- and intergeneric taxonomic relationships among Micrococcaceae strains reveal contradictions in the historical assignments of the strains and indicate the need for species reclassification

Can biocontrol be the game-changer in integrated pest management? A review of definitions, methods and strategies

Next-generation sequencing-based comparative mapping and culture-based screening of bacterial rhizobiome in Phytophthora capsici-resistant and susceptible Piper species

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