Cupriavidus necator UYPR2.512 is a rhizobial strain that belongs to the Beta-subclass of proteobacteria, able to establish successful symbiosis with Mimosoid legumes. The initial steps of rhizobium-legumes symbioses involve the reciprocal recognition by chemical signals, being luteolin one of the molecules involved. However, there is a lack of information on the effect of luteolin in beta-rhizobia. In this work, we used long-read sequencing to complete the genome of UYPR2.512 providing evidence for the existence of four closed circular replicons. We used an RNA-Seq approach to analyse the response of UYPR2.512 to luteolin. One hundred and forty-five genes were differentially expressed, with similar numbers of downregulated and upregulated genes. Most repressed genes were mapped to the main chromosome, while the upregulated genes were overrepresented among pCne512e, containing the symbiotic genes. Induced genes included the nod operon and genes implicated in exopolysaccharides and flagellar biosynthesis. We identified many genes involved in iron, copper and other heavy metals metabolism. Among repressed genes, we identified genes involved in basal carbon and nitrogen metabolism. Our results suggest that in response to luteolin, C. necator strain UYPR2.512 reshapes its metabolism in order to be prepared for the forthcoming symbiotic interaction.

中文翻译：

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木犀草素对 β-根瘤菌菌株 Cupriavidus necator UYPR2.512 影响的基因组学和转录组学见解

鹧鸪UYPR2.512 是一种根瘤菌菌株，属于变形菌的 Beta 亚类，能够与 Mimosoid 豆科植物建立成功的共生关系。根瘤菌-豆科植物共生的初始步骤涉及化学信号的相互识别，木犀草素是参与的分子之一。然而，缺乏关于木犀草素对 β-根瘤菌的影响的信息。在这项工作中，我们使用长读长测序完成了 UYPR2.512 的基因组，为存在四个闭合环状复制子提供了证据。我们使用 RNA-Seq 方法分析 UYPR2.512 对木犀草素的反应。145 个基因差异表达，下调和上调基因的数量相似。大多数被抑制的基因被定位到主染色体，而上调的基因在 pCne512e 中被过度表达，含有共生基因。诱导基因包括nod操纵子和与胞外多糖和鞭毛生物合成有关的基因。我们鉴定了许多参与铁、铜和其他重金属代谢的基因。在被抑制的基因中，我们确定了参与基础碳和氮代谢的基因。我们的结果表明，作为对木犀草素的反应，C。necator菌株 UYPR2.512 重塑其新陈代谢，以便为即将到来的共生相互作用做好准备。