| Texto completo | |
| Autor(es): |
Pellegrinetti, Thierry Alexandre
;
Monteiro, Gabriel Gustavo Tavares Nunes
;
Lemos, Leandro Nascimento
;
dos Santos, Renato Augusto Correa
;
Barros, Artur Gomes
;
Mendes, Lucas William
Número total de Autores: 6
|
| Tipo de documento: | Artigo Científico |
| Fonte: | RHIZOSPHERE; v. 30, p. 9-pg., 2024-06-01. |
| Resumo | |
Identifying and comparing plant growth-promoting traits (PGPT) within whole-genome and metagenomic sequencing data can significantly advance agricultural research and promote sustainable crop production. This study introduces PGPgfinder, a comprehensive pipeline designed to annotate and compare PGPT from both whole-genome and metagenome sequencing datasets. This pipeline utilizes direct sequence annotation alongside de novo assembly methods to accurately detect PGPT. By cross-referencing sequences from the PLaBAse database, it identifies and quantifies the presence of these genes within the original datasets, facilitating an intuitive comparison of the abundance and distribution of PGPT across various samples. We evaluated the performance of PGPgfinder by analyzing genomes from five rhizobacterial strains: Paenibacillus vini, Paenibacillus polymyxa, Fictibacillus sp., Brevibacillus agri, and Bacillus cereus, and also metagenomic samples from bulk soils subjected to forest-to-pasture conversion in the Amazon rainforest. The genomic workflow revealed several genes associated with substrate utilization, abiotic stress neutralization, phosphate solubilization, and iron acquisition. It also identified genes unique to specific lineages, including those associated with colonization and plant-derived substrate usage in P. polymyxa, quorum sensing response and biofilm formation in P. vini, heavy metal detoxification and nitrogen acquisition in B. agri, and spore production and neutralizing biotic stress in B. cereus. The strain Fictibacillus sp. presented several unique genes related to surface attachment, stress response, xenobiotic degradation, phosphate solubilization, and phytohormone production. The use of PGPgfinder highlights its potential to uncover novel inoculants and strains. The metagenomic workflow distinguished plant-growth promotion gene profiles between soils from the Amazon rainforest and pasture, with the latter showing a profile more aligned with simple carbohydrate consumption, abiotic stress tolerance, motility and chemotaxis, and phosphorus mineralization. Native forests exhibited a profile associated with the degradation of complex organic matter, oxidative stress tolerance, xenobiotic degradation, bactericidal activity, iron acquisition, and volatile pathways. These findings underscore the effectiveness and sensitivity of PGPgfinder in accurately identifying and comparing PGPT genes, highlighting both commonalities and variations across samples. The application of this pipeline has the potential to significantly facilitate the identification of plant growth-promoting microbes. (AU) | |
| Processo FAPESP: | 23/07080-1 - Sistemas agroflorestais como alternativa para manutenção do potencial biológico de solos amazônicos |
| Beneficiário: | Gabriel Gustavo Tavares Nunes Monteiro |
| Modalidade de apoio: | Bolsas no Brasil - Mestrado |
| Processo FAPESP: | 19/16043-7 - Microbioma da rizosfera de feijão tolerante à seca |
| Beneficiário: | Lucas William Mendes |
| Modalidade de apoio: | Auxílio à Pesquisa - Programa de Pesquisa sobre Mudanças Climáticas Globais - Jovens Pesquisadores |
| Processo FAPESP: | 21/11057-0 - Identificação de módulos de genes co-expressos com novos fatores de transcrição envolvidos na biossíntese de hemicelulose em gramíneas C4 |
| Beneficiário: | Renato Augusto Corrêa dos Santos |
| Modalidade de apoio: | Bolsas no Brasil - Pós-Doutorado |
| Processo FAPESP: | 23/11133-3 - Integração de metataxonômica e dados de transcriptômica do hospedeiro em milho |
| Beneficiário: | Renato Augusto Corrêa dos Santos |
| Modalidade de apoio: | Bolsas no Exterior - Estágio de Pesquisa - Pós-Doutorado |