Sphingobacterium pedocola sp. nov. a novel halotolerant bacterium isolated from agricultural soil

Ákos Tóth,Judit Kosztik,Gábor Kovács,Ildikó Bata-Vidács,Rózsa Máté,József Kukolya,András Táncsics,István Nagy,Erika Tóth,József Kutasi,Károly Bóka

doi:10.1007/s10482-021-01623-6

Abstract

A Gram-reaction-negative halotolerant bacterial strain, designated Ka21T, was isolated from agricultural soil and characterised using a polyphasic approach to determine its taxonomic position. On the basis of 16S rRNA gene sequence analysis, highest similarity was found with Sphingobacterium alkalisoli Y3L14T (96.72%). Cells were observed to be aerobic, non-motile rods. The isolate was found to be able to grow between 0 and 10% of NaCl concentration. The assembled genome of strain Ka21T has a total length of 5.2 Mb with a G + C content of 41.0 mol%. According to the genome analysis, Ka21T encodes several glycoside hydrolases that may play a role in the degradation of accumulated plant biomass in the soil. Based on phenotypic characteristics and phylogenetic analysis, it is concluded that strain Ka21T represents a novel species in the Sphingobacterium genus for which the name Sphingobacterium pedocola sp. nov. is proposed. The type strain of the species is strain Ka21T (= LMG 31575T = NCAIM B.02636T).

Highlights

Based on phenotypic characteristics and phylogenetic analysis, it is concluded that strain Ka21T represents a novel species in the Sphingobacterium genus for which the name Sphingobacterium pedocola sp. nov
The genus Sphingobacterium was proposed by Yabuuchi et al (1983), and it belongs to the family Sphingobacteriaceae, order Sphingobacteriales, class Sphingobacteriia, phylum ‘Bacteroidetes’ (Steyn et al 1998)
The comparative genome analysis for Sphingobacterium pedocola Ka21T, Sphingobacterium alkalisoli Y3L14T, Sphingobacterium olei HAL-9T and Sphingobacterium composti DSM 18850T revealed that the strains form 4264 clusters, 2051 orthologous clusters and 2213 single-copy gene clusters (Fig. 2)

Summary

Introduction

The genus Sphingobacterium was proposed by Yabuuchi et al (1983), and it belongs to the family Sphingobacteriaceae, order Sphingobacteriales, class Sphingobacteriia, phylum ‘Bacteroidetes’ (Steyn et al 1998). Based on phenotypic characteristics and phylogenetic analysis, it is concluded that strain Ka21T represents a novel species in the Sphingobacterium genus for which the name Sphingobacterium pedocola sp. The comparative genome analysis for Sphingobacterium pedocola Ka21T, Sphingobacterium alkalisoli Y3L14T, Sphingobacterium olei HAL-9T and Sphingobacterium composti DSM 18850T revealed that the strains form 4264 clusters, 2051 orthologous clusters (at least contains two species) and 2213 single-copy gene clusters (Fig. 2).

Results

Conclusion