Zamanzadeh-Nasrabadi Seyyedeh Maryam, Mohammadiapanah Fatemeh, Sarikhan Sajjad, Shariati Vahid, Saghafi Kobra, Hosseini-Mazinani Mehdi
Pharmaceutial Biotechnology Lab, School of Biology and Center of Excellence in Phylogeny of Living Organisms, College of Science, University of Tehran, Tehran, 14155-6455 Iran.
Molecular Bank, Iranian Biological Resource Center (IBRC), ACECR, Tehran, Iran.
3 Biotech. 2023 Nov;13(11):347. doi: 10.1007/s13205-023-03755-0. Epub 2023 Sep 23.
The study presents the genome analysis of a new sp. (SWRIQ11), which can alleviate salinity stress effects on growth of olive seedlings in greenhouse study. The strain SWRIQ11 can tolerate salinity up to 6%, produce siderophores, indole acetic acid (IAA), aminocyclopropane-1-carboxylate (ACC) deaminase, and has the phosphate-solubilizing capability. The SWRIQ11 genome contained an assembly size of 6,196,390 bp with a GC content of 60.1%. According to derived indices based on whole-genome sequences for species delineation, including tetra nucleotide usage patterns (TETRA), genome-to-genome distance (GGDC), and average nucleotide identity (ANI), sp. SWRIQ11 can be considered a novel species candidate. The phylogenetic analysis revealed SWRIQ11 clusters with SWRI196 in the same clade. The SWRIQ11 genome was rich in genes related to stress sensing, signaling, and response, chaperones, motility, attachments, colonization, and enzymes for degrading plant-derived carbohydrates. Furthermore, the genes for production of exopolysaccharides, osmoprotectants, phytohormones, and ACC deaminase, ion homeostasis, nutrient acquisition, and antioxidant defenses were identified in the SWRIQ11 genome. The results of genome analysis (identification of more than 825 CDSs related to plant growth-promoting and stress-alleviating traits in the SWRIQ11 genome which is more than 15% of its total CDSs) are in accordance with laboratory and greenhouse experiments assigning the sp. SWRIQ11 as a halotolerant plant growth-promoting bacterium (PGPB). This research highlights the potential safe application of this new PGPB species in agriculture as a potent biofertilizer.
该研究展示了一种新菌株（SWRIQ11）的基因组分析结果，在温室研究中，该菌株可减轻盐分胁迫对橄榄幼苗生长的影响。菌株SWRIQ11能够耐受高达6%的盐分，产生铁载体、吲哚乙酸（IAA）、氨基环丙烷-1-羧酸（ACC）脱氨酶，并且具有解磷能力。SWRIQ11基因组的组装大小为6,196,390 bp，GC含量为60.1%。根据基于全基因组序列的物种划分衍生指标，包括四核苷酸使用模式（TETRA）、基因组到基因组距离（GGDC）和平均核苷酸同一性（ANI），菌株SWRIQ11可被视为一个新物种候选。系统发育分析表明，SWRIQ11与SWRI196聚集在同一进化枝中。SWRIQ11基因组富含与胁迫感知、信号传导和响应、伴侣蛋白、运动性、附着、定殖以及降解植物源碳水化合物的酶相关的基因。此外，在SWRIQ11基因组中还鉴定出了与胞外多糖、渗透保护剂、植物激素和ACC脱氨酶的产生、离子稳态、养分获取以及抗氧化防御相关的基因。基因组分析结果（在SWRIQ11基因组中鉴定出超过825个与促进植物生长和减轻胁迫性状相关的编码序列，占其总编码序列的15%以上）与实验室和温室实验结果一致，将菌株SWRIQ11归类为耐盐促植物生长细菌（PGPB）。本研究突出了这种新型PGPB物种作为一种高效生物肥料在农业中潜在的安全应用。
