Zhang Lei, Chen Wenbo, Jiang Qiuyue, Fei Zhangjun, Xiao Ming
Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, Shanghai, 200234, China.
Boyce Thompson Institute, Cornell University, Ithaca, NY, 14853, USA.
Microbiol Res. 2020 Aug;237:126483. doi: 10.1016/j.micres.2020.126483. Epub 2020 May 1.
Pseudomonas chlororaphis subsp. aurantiaca strain JD37 is a plant growth-promoting rhizobacterium (PGPR), which has important biotechnological features such as plant growth promotion, rhizosphere colonization and biocontrol activities. In present study, the genome sequence of JD37 was obtained and comparative genomic analysis were performed to explore unique features of the JD37 genome and its relationship with other Pseudomonas PGPR: P. chlororaphis PA23, P. protegens Pf-5 and P. aeruginosa M18. JD37 possessed a single circular chromosome of 6,702,062 bp in length with an average GC content of 62.75 %. No plasmid was detected in JD37. A total of 5003 functional proteins of JD37 were predicted according to the clusters of orthologous groups (COGs) database. The JD37 genome consisted of various genes involved in plant growth promotion, biocontrol activities and defense responses. Genes involved in the rhizosphere colonization and motility were also found in the genome of JD37, suggesting the common plant growth-promoting traits in PGPR. The identified resistance genes (e.g. those related to metal resistance, antibiotics, and osmotic and temperature-shock) and secondary metabolite biosynthesis revealed the pathways for metabolites it produced. Data presented in present study further provided valuable information on its molecular genetics and adaptive capacity in the rhizosphere niche.
橙黄假单胞菌氯生亚种菌株JD37是一种促进植物生长的根际细菌（PGPR），具有促进植物生长、定殖根际和生物防治等重要生物技术特性。在本研究中，获得了JD37的基因组序列，并进行了比较基因组分析，以探索JD37基因组的独特特征及其与其他假单胞菌属PGPR（氯生假单胞菌PA23、类产碱假单胞菌Pf-5和铜绿假单胞菌M18）的关系。JD37拥有一条长度为6,702,062 bp的单环状染色体，平均GC含量为62.75%。在JD37中未检测到质粒。根据直系同源基因簇（COGs）数据库预测，JD37共有5003个功能蛋白。JD37基因组由参与植物生长促进、生物防治和防御反应的各种基因组成。在JD37的基因组中也发现了参与根际定殖和运动的基因，表明PGPR具有共同的促进植物生长的特性。已鉴定的抗性基因（如与金属抗性、抗生素以及渗透压和温度休克相关的基因）和次生代谢物生物合成揭示了其产生的代谢物的途径。本研究提供的数据进一步为其分子遗传学及其在根际生态位的适应能力提供了有价值的信息。
