title: Bradyrhizobium valentinum sp. nov., isolated from effective nodules of Lupinus mariae-josephae, a lupine endemic of basic-lime soils in Eastern Spain.
abstract: Bacterial strains isolated from nitrogen-fixing nodules of Lupinus mariae-josephae have been characterized following genetic, phenotypic and symbiotic approaches. Analysis of 16S rRNA genes placed them in a group together with Bradyrhizobium elkanii USDA 76(T), B. pachyrhizi PAC48(T), B. jicamae PAC68(T), 'B. retamae' Ro19(T) and B. lablabi CCBAU 23086(T) with over 99.0% identity. Phylogenetic analysis of concatenated housekeeping genes, recA, atpD and glnII, suggested that L. mariae-josephae strains represent a new Bradyrhizobium species, closely related to B. lablabi CCBAU 23086(T), B. jicamae PAC68(T) and 'B. retamae' Ro19(T) with 92.1, 91.9 and 90.8% identity, respectively. These results are consistent with overall genomic identities calculated as Average Nucleotide Identity (ANIm) using draft genomic sequences obtained for relevant strains. While L. mariae-josephae strains LmjM3(T)/LmjM6 exhibited a 99.2% ANIm value, they were significantly distant (<93% ANIm) from type strains of their closest species ('B. retamae' Ro19(T), B. lablabi CCBAU 23086(T) and B. jicamae PAC68(T)). Whole-cell matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (WC-MALDI-TOF-MS) analysis of proteomic patterns of the same strains was consistent with these results. The symbiosis-related genes nodC, nodA and nifH genes from strains nodulating L. mariae-josephae were phylogenetically related to those from 'B. retamae' Ro19(T), but divergent from those of strains that nodulate other lupine species. Based on genetic, genomic, proteomic and phenotypic data presented in this study, L. mariae-josephae nodulating strains LmjM3(T), LmjM6 and LmjM2 should be grouped within a new species for which the name Bradyrhizobium valentinum sp. nov. is proposed (type strain LmjM3(T)=CECT 8364(T), LMG 2761(T)).
authors: Centro de Biotecnología y Genómica de Plantas (CBGP) and Departamento de Biotecnología (ETSI Agrónomos), Campus de Montegancedo, Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcón, Madrid, Spain.
authors: David
authors: D
authors: Durán
authors: Centro de Biotecnología y Genómica de Plantas (CBGP) and Departamento de Biotecnología (ETSI Agrónomos), Campus de Montegancedo, Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcón, Madrid, Spain.
authors: Luis
authors: L
authors: Rey
authors: VAERSA, Centro para la Investigación y Experimentación Forestal (CIEF), Servicio de Vida Silvestre, Conselleria de Infraestructuras, Territorio y Medio Ambiente, Generalitat Valenciana. Avda. Comarques del Pais Valencià, 114, 46930 Quart de Poblet, Valencia, Spain.
authors: Albert
authors: A
authors: Navarro
authors: Microbiología, Departament de Biología, Universitat de les Illes Balears, 07122 Palma de Mallorca, Spain.
authors: Antonio
authors: A
authors: Busquets
authors: Centro de Biotecnología y Genómica de Plantas (CBGP) and Departamento de Biotecnología (ETSI Agrónomos), Campus de Montegancedo, Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcón, Madrid, Spain; CSIC, Spain.
authors: Juan
authors: J
authors: Imperial
authors: Centro de Biotecnología y Genómica de Plantas (CBGP) and Departamento de Biotecnología (ETSI Agrónomos), Campus de Montegancedo, Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcón, Madrid, Spain. Electronic address: t.ruizargueso@upm.es.
authors: Tomás
authors: T
authors: Ruiz-Argüeso
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics; D015373:Bacterial Typing Techniques; D020369:Bradyrhizobium / Q000737:chemistry / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification*; D016000:Cluster Analysis; D003600:Cytosol / Q000737:chemistry; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D004275:DNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D031297:Lupinus / Q000382:microbiology*; D058885:Multilocus Sequence Typing; D010802:Phylogeny; D020543:Proteome / Q000032:analysis; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D053204:Root Nodules, Plant / Q000382:microbiology*; D013030:Spain; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
chemical_list: D001426:Bacterial Proteins; D004269:DNA, Bacterial; D004275:DNA, Ribosomal; D020543:Proteome; D012336:RNA, Ribosomal, 16S
keywords: ANIm; Average nucleotide identity; Genomics; MALDI-TOF; Phylogenetic analysis; Taxonomy