TraDIS Sequence data for the study: "Identifying genes involved in plant root colonisation by the biocontrol agent <i>Pseudomonas protegens</i> Pf-5"

Plant growth-promoting bacteria can confer a range of health benefits to plants, and are increasingly being used in agriculture as bioinoculants to enhance crop performance and prevent diseases. However, within complex rhizosphere communities, their success as bioinoculants depends heavily on their capacity to competitively colonise root systems. Here, we uncover genetic determinants of root colonisation by the biocontrol agent <i>Pseudomonas protegens</i> Pf-5, known for its ability to suppress multiple plant diseases. Using Transposon-Directed Insertion Site Sequencing (TraDIS), we systematically assayed the entire <i>P. protegens</i> Pf-5 genome to determine genes involved in colonising the rhizoplane of two key agricultural crops, cotton (n=153 Pf-5 genes) and wheat (n=110 Pf-5 genes). We find a large overlap of 80 <i>P. protegens</i> Pf-5 genes which are important for colonisation fitness in both plants suggesting that these encode core traits linked to root colonisation. In depth functional annotation of these genes, leveraging both protein sequence and structure, reveals key traits that promote <i>P. protegens</i> Pf-5 rhizoplane fitness, including biofilm formation, surface motility, nucleotide and amino acid biosynthesis, sugar catabolism, iron uptake, low-oxygen growth, and stress response mechanisms. These findings can help guide future design and selection of microbial inoculants with improved capacity for competitive root colonisation.植物促生细菌（Plant growth-promoting bacteria）可赋予植物多种健康益处，且正日益在农业中作为生物菌剂（bioinoculants）用于提升作物表现、防控病害。然而，在复杂的根际（rhizosphere）群落中，这类菌株作为生物菌剂的应用成效，很大程度上取决于其竞争性定殖植物根系的能力。本研究针对可抑制多种植物病害的生防菌剂（biocontrol agent）——产蛋白酶假单胞菌（*Pseudomonas protegens*）Pf-5的根系定殖遗传决定因子展开解析。研究采用转座子定向插入位点测序（Transposon-Directed Insertion Site Sequencing, TraDIS）技术，系统性检测了*Pseudomonas protegens* Pf-5的全基因组，以筛选参与两种主要农作物根表（rhizoplane）定殖的基因：棉花（共筛选得到153个*Pseudomonas protegens* Pf-5相关基因）与小麦（共筛选得到110个*Pseudomonas protegens* Pf-5相关基因）。研究发现，有80个*Pseudomonas protegens* Pf-5基因在两种作物的定殖适合度中均发挥关键作用，二者存在高度重叠，这表明这些基因编码了与根系定殖相关的核心性状。结合蛋白质序列与结构信息对上述基因开展深度功能注释后，本研究揭示了可提升*Pseudomonas protegens* Pf-5根表定殖适合度的关键性状，包括生物膜形成、表面运动、核苷酸与氨基酸生物合成、糖类分解代谢、铁摄取、低氧生长以及应激响应机制。本研究结果可为未来设计、筛选具备更强竞争性根系定殖能力的微生物菌剂提供指导。

搜集汇总

背景与挑战

背景概述

该数据集包含TraDIS测序数据，用于研究生物防治剂Pseudomonas protegens Pf-5在棉花和小麦根际定殖中的关键基因。通过系统分析基因组，识别出与生物膜形成、代谢和应激反应等相关的核心基因，旨在为改进微生物接种剂的设计提供依据。数据包括6个fastq文件，总大小约318 MB，发布于2025年，适用于微生物遗传学研究。