Open AccessPseudomonas edaphica sp. nov., isolated from rhizospheric soil of Cistus ladanifer L. in Spain
Author(s) -
Martha Helena Ramírez-Bahena,
Sergio Miguel Salazar,
Primitivo Julio Santín,
Juan Antonio Sánchez-Rodríguez,
Mercedes FernándezPascual,
José Mariano Igual,
Ignacio SantaRegina,
Álvaro Péix
Publication year - 2019
Publication title -
international journal of systematic and evolutionary microbiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.925
H-Index - 173
eISSN - 1466-5034
pISSN - 1466-5026
DOI - 10.1099/ijsem.0.003603
Subject(s) - biology , 16s ribosomal rna , rpob , pseudomonas , housekeeping gene , phylogenetic tree , botany , strain (injury) , microbiology and biotechnology , soil microbiology , genomic dna , bacteria , gene , genetics , gene expression , anatomy
During a study on biodiversity of bacteria inhabiting rhizospheric soil of rockrose ( Cistus ladanifer L.), we isolated a strain coded RD25 T in a soil from Northern Spain. The 16S rRNA gene sequence showed 99.5 % identity with respect to the closest related species Pseudomonas brenneri DSM15294 T , and 99.4 % with respect to P. paralactis WS4672 T . The following related Pseudomonas species showed 99.3 % or less identity, and therefore RD25 T was classified within genus Pseudomonas . The phylogenetic analysis of 16S rRNA and the housekeeping genes rpoB , rpoD and gyrB suggested that this strain could be a novel species. The strain RD25 T has several polar-subpolar flagella. It can grow at 36 °C, at 0-6 % NaCl concentration and a range of pH 5-9. Positive for arginine dihydrolase and urease production, and negative for reduction of nitrate. The strain is catalase and oxidase positive. Major fatty acids are C 16 : 1 ω7 c / C 16 : 1 ω6 c in summed feature 3, C 16 : 0 , and C 18 : 1 ω7 c / C 18 : 1 ω6 c in summed feature 8. The respiratory ubiquinone is Q9. The DNA G+C content was 59.9 mol%. The digital DNA-DNA hybridisation average values (dDDH) ranged between 30-61.2 % relatedness and the ANIb values ranged between 93.9-80.5 % with respect to the type strains of the closely related species. Therefore, the genotypic, genomic, phenotypic and chemotaxonomic data support the classification of strain RD25 as a novel species of genus Pseudomonas , for which the name P. edaphica sp. nov. is proposed. The type strain is RD25 T (=LMG 30152 T =CECT 9373 T ).