High-quality PacBio draft genome sequences of 17 free-living Bradyrhizobium and four related Nitrobacteraceae strains isolated from arid soils in the Santa Catalina Mountains of Southern Arizona.

Access microbiology Pub Date : 2025-02-13 eCollection Date: 2025-01-01 DOI:10.1099/acmi.0.000884.v3

Melanie R Kridler, Amanda Howe, Jimaree A Legins, Christina Guerrero, Ryan P Bartelme, Bridget Taylor, Paul Carini

{"title":"High-quality PacBio draft genome sequences of 17 free-living Bradyrhizobium and four related Nitrobacteraceae strains isolated from arid soils in the Santa Catalina Mountains of Southern Arizona.","authors":"Melanie R Kridler, Amanda Howe, Jimaree A Legins, Christina Guerrero, Ryan P Bartelme, Bridget Taylor, Paul Carini","doi":"10.1099/acmi.0.000884.v3","DOIUrl":null,"url":null,"abstract":"Non-symbiotic Bradyrhizobium are among the most abundant and ubiquitous microbes in bulk soils globally. Despite this, most available genomic resources for Bradyrhizobium are derived from plant-associated strains. We present high-quality draft genomes for 17 Bradyrhizobium and four Nitrobacteraceae cultures isolated from bulk semiarid soils in Arizona, USA. The genome sizes range from 5.99 to 10.4 Mbp. Phylogenomic analysis of the 21 genomes indicates they fall into four clades. Two of the clades are nested within the Bradyrhizobium genus. The other two clades were associated with Nitrobacteraceae outgroups basal to Bradyrhizobium. All genomes lack genes coding for molybdenum or vanadium nitrogenases, and nod genes that code for proteins involved in nodulation, suggesting these isolates are free-living, non-symbiotic and do not fix dinitrogen gas. These genomes offer new resources for investigating free-living Bradyrhizobium lineages.","PeriodicalId":94366,"journal":{"name":"Access microbiology","volume":"7 2","pages":""},"PeriodicalIF":0.0000,"publicationDate":"2025-02-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11825986/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Access microbiology","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.1099/acmi.0.000884.v3","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2025/1/1 0:00:00","PubModel":"eCollection","JCR":"","JCRName":"","Score":null,"Total":0}

引用次数: 0

Abstract

Non-symbiotic Bradyrhizobium are among the most abundant and ubiquitous microbes in bulk soils globally. Despite this, most available genomic resources for Bradyrhizobium are derived from plant-associated strains. We present high-quality draft genomes for 17 Bradyrhizobium and four Nitrobacteraceae cultures isolated from bulk semiarid soils in Arizona, USA. The genome sizes range from 5.99 to 10.4 Mbp. Phylogenomic analysis of the 21 genomes indicates they fall into four clades. Two of the clades are nested within the Bradyrhizobium genus. The other two clades were associated with Nitrobacteraceae outgroups basal to Bradyrhizobium. All genomes lack genes coding for molybdenum or vanadium nitrogenases, and nod genes that code for proteins involved in nodulation, suggesting these isolates are free-living, non-symbiotic and do not fix dinitrogen gas. These genomes offer new resources for investigating free-living Bradyrhizobium lineages.

查看原文本刊更多论文

高质量PacBio绘制了从亚利桑那州南部圣卡塔利娜山脉干旱土壤中分离的17个自由生长的慢生根瘤菌和4个相关的硝化杆菌科菌株的基因组序列。

非共生缓生根瘤菌是全球块状土壤中最丰富和普遍存在的微生物之一。尽管如此，大多数可用的慢生根瘤菌基因组资源来自植物相关菌株。我们提出了从美国亚利桑那州半干旱土壤中分离的17种慢生根瘤菌和4种硝基杆菌科培养物的高质量基因组草图。基因组大小从5.99到10.4 Mbp不等。对21个基因组的系统基因组学分析表明，它们可分为四个支系。其中两个分支嵌套在缓生根瘤菌属中。另外两个分支与基生到缓生根瘤菌的硝基菌科外群有关。所有的基因组都缺乏编码钼或钒氮酶的基因，以及编码结瘤蛋白的基因，这表明这些分离物是自由生活的，非共生的，不固定二氮气体。这些基因组为研究自由生长的慢生根瘤菌谱系提供了新的资源。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

Access microbiology

CiteScore

2.00

自引率

0.00%

发文量