Phylogenomic insights into a psychrotolerant, plant growth-promoting strain of Pseudomonas marginalis isolated from Xinantécatl volcano

IF 1.2 Q4 GENETICS & HEREDITY

Gene Reports Pub Date : 2025-12-01 Epub Date: 2025-10-14 DOI:10.1016/j.genrep.2025.102356

José Germán Serrano-Gamboa , José Tomás Tavarez-Arriaga , Mario L. Iza-Arteaga , Martín Romualdo Ide-Pérez , Irán Tapia-Vázquez , Jorge L. Folch-Mallol

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Abstract

A novel strain of the genus Pseudomonas was isolated from a high-altitude volcano in Toluca, Mexico. This isolate, designed as Pseudomonas marginalis BMH-2007, could grow at 4 °C, whereas other microbes usually stop growth at this temperature. The fact of its isolation from snow implies that the population was big enough to thrive at low temperature, making it a psychrotolerant bacterium.

Previous characterization of BMH-2007 revealed interesting characteristics related to plant growth promotion, including auxin production, siderophore production, and phosphate solubilization capacity. In this work, the ability of BMH-2007 to stimulate the early development of Capsicum annuum plants without signs of phytopathogenicity was proven. A thorough whole-genome analysis revealed that isolate BMH-2007 belongs to the Pseudomonas fluorescens species complex, specifically to the species P. marginalis, with a Mash distance of 0.0118927 from the closest reference genome (RefSeq: GCF_007858175.1).

The phylogenomic evidence allowed us to confirm the new strain designation. Notably, its genomic features were consistent with those of plant growth-promoting traits, and we observed coding sequences for IAA biosynthesis and iron and phosphate transport, among others. As it is a species associated with phytopathogenicity, the virulence factors encoded by the genome were analyzed, which revealed the presence of a type VI secretion system associated with both biological control and plant growth promotion.

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xinantacatl火山分离的一株促植物生长的耐寒边缘假单胞菌的系统基因组学研究

一种假单胞菌属的新菌株从墨西哥托卢卡的一座高海拔火山中分离出来。这种分离物被设计为边缘假单胞菌BMH-2007，它可以在4°C下生长，而其他微生物通常在这个温度下停止生长。它与雪隔绝的事实表明，它的数量足够大，可以在低温下茁壮成长，这使它成为一种耐寒细菌。先前对BMH-2007的表征揭示了与植物生长促进有关的有趣特性，包括生长素产生、铁载体产生和磷酸盐溶解能力。在这项工作中，BMH-2007能够刺激无植物致病性迹象的辣椒植株的早期发育。全基因组分析表明，分离物BMH-2007属于荧光假单胞菌种复合体，与最近参考基因组（RefSeq: GCF_007858175.1）的Mash distance为0.0118927。系统基因组学的证据使我们能够确认新的菌株名称。值得注意的是，它的基因组特征与植物生长促进性状一致，我们观察到IAA生物合成和铁和磷酸盐运输等编码序列。由于它是一个与植物致病性相关的物种，我们分析了基因组编码的毒力因子，发现它存在一个与生物防治和促进植物生长相关的VI型分泌系统。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Gene Reports Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

3.30

自引率

7.70%

发文量

246

审稿时长

49 days

期刊介绍： Gene Reports publishes papers that focus on the regulation, expression, function and evolution of genes in all biological contexts, including all prokaryotic and eukaryotic organisms, as well as viruses. Gene Reports strives to be a very diverse journal and topics in all fields will be considered for publication. Although not limited to the following, some general topics include: DNA Organization, Replication & Evolution -Focus on genomic DNA (chromosomal organization, comparative genomics, DNA replication, DNA repair, mobile DNA, mitochondrial DNA, chloroplast DNA). Expression & Function - Focus on functional RNAs (microRNAs, tRNAs, rRNAs, mRNA splicing, alternative polyadenylation) Regulation - Focus on processes that mediate gene-read out (epigenetics, chromatin, histone code, transcription, translation, protein degradation). Cell Signaling - Focus on mechanisms that control information flow into the nucleus to control gene expression (kinase and phosphatase pathways controlled by extra-cellular ligands, Wnt, Notch, TGFbeta/BMPs, FGFs, IGFs etc.) Profiling of gene expression and genetic variation - Focus on high throughput approaches (e.g., DeepSeq, ChIP-Seq, Affymetrix microarrays, proteomics) that define gene regulatory circuitry, molecular pathways and protein/protein networks. Genetics - Focus on development in model organisms (e.g., mouse, frog, fruit fly, worm), human genetic variation, population genetics, as well as agricultural and veterinary genetics. Molecular Pathology & Regenerative Medicine - Focus on the deregulation of molecular processes in human diseases and mechanisms supporting regeneration of tissues through pluripotent or multipotent stem cells.