Comparative genomics of plant growth promoting phosphobacteria isolated from acidic soils

Carlos Cortés-Albayay, Mabel Delgado-Torres, Giovanni Larama, Cecilia Paredes-Negron, María de la Luz Mora, Paola Durán, Patricio Javier Barra
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Abstract

Despite being one of the most abundant elements in soil, phosphorus (P) often becomes a limiting macronutrient for plants due to its low bioavailability, primarily locked away in insoluble organic and inorganic forms. Phosphate solubilizing and mineralizing bacteria, also called phosphobacteria, isolated from P-deficient soils have emerged as a promising biofertilizer alternative, capable of converting these recalcitrant P forms into plant-available phosphates. Three such phosphobacteria strains—Serratia sp. RJAL6, Klebsiella sp. RCJ4, and Enterobacter sp. 198—previously demonstrated their particular strength as plant growth promoters for wheat, ryegrass, or avocado under abiotic stresses and P deficiency. Comparative genomic analysis of their draft genomes revealed several genes encoding key functionalities, including alkaline phosphatases, isonitrile secondary metabolites, enterobactin biosynthesis and genes associated to the production of indole-3-acetic acid (IAA) and gluconic acid. Moreover, overall genome relatedness indexes (OGRIs) revealed substantial divergence between Serratia sp. RJAL6 and its closest phylogenetic neighbours, Serratia nematodiphila and Serratia bockelmanii. This compelling evidence suggests that RJAL6 merits classification as a novel species. This in silico genomic analysis provides vital insights into the plant growth-promoting capabilities and provenance of these promising PSRB strains. Notably, it paves the way for further characterization and potential application of the newly identified Serratia species as a powerful bioinoculant in future agricultural settings.

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从酸性土壤中分离出的植物生长促进磷细菌的比较基因组学。
磷(P)是土壤中含量最丰富的元素之一,但由于其生物利用率低,主要以不溶于水的有机和无机形式存在,因此经常成为限制植物生长的主要营养元素。从缺磷土壤中分离出来的磷酸盐溶解和矿化细菌(又称磷细菌)能够将这些难溶解的磷酸盐转化为植物可利用的磷酸盐,是一种很有前途的生物肥料替代品。三株这样的磷细菌--Serratia sp.RJAL6、Klebsiella sp.RCJ4和Enterobacter sp.198--之前已经证明了它们在非生物胁迫和缺钾条件下作为小麦、黑麦草或鳄梨的植物生长促进剂的特殊优势。对它们的草拟基因组进行的比较基因组分析发现了几个编码关键功能的基因,包括碱性磷酸酶、异腈次生代谢物、肠杆菌素生物合成以及与产生吲哚-3-乙酸(IAA)和葡萄糖酸有关的基因。此外,总体基因组亲缘关系指数(OGRIs)显示,RJAL6 沙雷氏菌与其系统发育关系最近的邻近沙雷氏菌(Serratia nematodiphila 和 Serratia bockelmanii)之间存在很大差异。这一令人信服的证据表明,RJAL6 值得归类为一个新物种。通过这项硅基因组分析,我们可以深入了解这些有潜力的 PSRB 菌株的植物生长促进能力和来源。值得注意的是,它为新鉴定的沙雷氏菌种的进一步特征描述和在未来农业环境中作为一种强大的生物接种剂的潜在应用铺平了道路。
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来源期刊
CiteScore
5.60
自引率
11.50%
发文量
104
审稿时长
3 months
期刊介绍: Antonie van Leeuwenhoek publishes papers on fundamental and applied aspects of microbiology. Topics of particular interest include: taxonomy, structure & development; biochemistry & molecular biology; physiology & metabolic studies; genetics; ecological studies; especially molecular ecology; marine microbiology; medical microbiology; molecular biological aspects of microbial pathogenesis and bioinformatics.
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