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Updated: Nov 2, 2025
Multipronged Phenotyping Approaches to Characterize Sugarcane Root Systems
Published on: August 17, 2022
Herbaspirillum seropedicae strain HRC54 expression profile in response to sugarcane apoplastic fluid
Daniella Duarte Villarinho Pessoa1,2, Carlos Magno Dos-Santos2, Marcia Soares Vidal2
1Programa de Pós-Graduação em Biotecnologia Vegetal, Centro de Ciências da Saúde, UFRJ, Rio de Janeiro, RJ 21941-590 Brazil.
Abstract:
Bacterial transcriptome profiling in the presence of plant fluids or extracts during microbial growth may provide relevant information on plant-bacteria interactions. Here, RNA sequencing (RNA-Seq) was used to determine the transcriptomic profile of Herbaspirillum seropedicae strain HRC54 at the early stages of response to sugarcane apoplastic fluid. Differentially expressed gene (DEG) analysis was performed using the DESeq2 and edgeR packages, followed by functional annotation using Blast2GO and gene ontology enrichment analysis using the COG and KEGG databases. After 2 h of sugarcane apoplastic fluid addition to the H. seropedicae HRC54 culture, respectively, 44 and 45 genes were upregulated and downregulated. These genes were enriched in bacterial metabolism (e.g., oxidoreductase and transferase), ABC transporters, motility, secretion systems, and signal transduction. RNA-Seq expression profiles of 12 genes identified in data analyses were verified by RT-qPCR. The results suggested that H. seropedicae HRC54 recognized sugarcane apoplastic fluid as the host signal, and some DEGs were closely involved at the early stages of the establishment of plant-bacteria interactions.
Supplementary Information:
The online version contains supplementary material available at 10.1007/s13205-021-02848-y.
