Paraburkholderia atlantica sp. nov. and Paraburkholderia franconis sp. nov., two new nitrogen-fixing nodulating species isolated from Atlantic forest soils in Brazil

• Published in: Archives of microbiology Vol. 202; no. 6; pp. 1369 - 1380
• Main Authors: Paulitsch, Fabiane, Dall’Agnol, Rebeca Fuzinatto, Delamuta, Jakeline Renata Marçon, Ribeiro, Renan Augusto, da Silva Batista, Jesiane Stefania, Hungria, Mariangela
• Format: Journal Article
• Language: English
• Published: Berlin/Heidelberg Springer Berlin Heidelberg 01.08.2020; Springer Nature B.V
• Subjects: Archives & records; Bacteria; Base Composition - genetics; Biochemistry; Biomedical and Life Sciences; Biotechnology; Brazil; Burkholderiaceae - classification; Burkholderiaceae - genetics; Burkholderiaceae - isolation & purification; Cell Biology; Deoxyribonucleic acid; DNA; DNA, Bacterial - genetics; Ecology; Forest soils; Forests; Gene sequencing; Genes; Genes, Essential - genetics; Genetic diversity; genetic variation; Genomes; Hybridization; Legumes; Life Sciences; Microbial Ecology; Microbiology; Mimosa - microbiology; Mimosa pudica; Multilocus Sequence Typing; New species; Nitrogen; Nitrogen fixation; Nitrogen-Fixing Bacteria - classification; Nitrogen-Fixing Bacteria - genetics; Nitrogen-Fixing Bacteria - isolation & purification; Nitrogenation; nucleic acid hybridization; Nucleotides; Original Paper; Paraburkholderia tuberum; Phaseolus - microbiology; Phaseolus vulgaris; phenotype; Phylogenetics; Phylogeny; RecA protein; RNA, Ribosomal, 16S - genetics; rRNA 16S; Sequence analysis; Sequence Analysis, DNA; Soil; Soil Microbiology; Soils; Strains (organisms); Brazil; MLSA; dDDH; Phylogeny; Biological nitrogen fixation; ANI; Taxonomy
• ISSN: 0302-8933; 1432-072X; 1432-072X
• DOI: 10.1007/s00203-020-01843-w

A polyphasic study was conducted with 11 strains trapped by Mimosa pudica and Phaseolus vulgaris grown in soils of the Brazilian Atlantic Forest. In the phylogenetic analysis of the 16S rRNA gene, one clade of strains (Psp1) showed higher similarity with Paraburkholderia piptadeniae STM7183 T (99.6%), whereas the second (Psp6) was closely related to Paraburkholderia tuberum STM678 T (99%). An MLSA (multilocus sequence analysis) with four ( recA , gyrB , trpB and gltB ) housekeeping genes placed both Psp1 and Psp6 strains in new clades, and BOX-PCR profiles indicated high intraspecific genetic diversity within each clade. Values of digital DNA–DNA hybridization (dDDH) and average nucleotide identity (ANI) of the whole genome sequences were of 56.9 and 94.4% between the Psp1 strain CNPSo 3157 T and P. piptadeniae ; and of 49.7% and 92.7% between the Psp6 strain CNPSo 3155 T and P. tuberum , below the threshold for species delimitation. In the nodC analysis, Psp1 strains clustered together with P. piptadeniae, while Psp6 did not group with any symbiotic Paraburkholderia . Other phenotypic, genotypic and symbiotic properties were evaluated. The polyphasic analysis supports that the strains represent two novel species, for which the names Paraburkholderia franconis sp. nov. with type strain CNPSo 3157 T (= ABIP 241, = LMG 31644) and Paraburkholderia atlantica sp. nov. with type strain CNPSo 3155 T (= ABIP 236, = LMG 31643) are proposed.