Genomic and Metabolic Insights into Denitrification, Sulfur Oxidation, and Multidrug Efflux Pump Mechanisms in the Bacterium Rhodoferax sediminis sp. nov

• Published in: Microorganisms (Basel) Vol. 8; no. 2; p. 262
• Main Authors: Jin, Chun-Zhi, Zhuo, Ye, Wu, Xuewen, Ko, So-Ra, Li, Taihua, Jin, Feng-Jie, Ahn, Chi-Yong, Oh, Hee-Mock, Lee, Hyung-Gwan, Jin, Long
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI 15.02.2020; MDPI AG
• Subjects: denitrification; rhodoferax; rhodoferax sediminis; rnd efflux systems; sulfur oxidation; Rhodoferax sediminis; sulfur oxidation; RND efflux systems; Rhodoferax; denitrification
• ISSN: 2076-2607; 2076-2607
• DOI: 10.3390/microorganisms8020262

This genus contains both phototrophs and nonphototrophic members. Here, we present a high-quality complete genome of the strain CHu59-6-5 , isolated from a freshwater sediment. The circular chromosome (4.39 Mbp) of the strain CHu59-6-5 has 64.4% G+C content and contains 4240 genes, of which a total of 3918 genes (92.4%) were functionally assigned to the COG (clusters of orthologous groups) database. Functional genes for denitrification ( , and q ) were identified on the genomes of the strain CHu59-6-5 , except for N O reductase ( ) genes for the final step of denitrification. Genes ( ) for encoding sulfur oxidation proteins were identified, and the and genes encoding the monomeric flavoproteins which have sulfide dehydrogenase activities were also detected. Lastly, genes for the assembly of two different RND (resistance-nodulation division) type efflux systems and one ABC (ATP-binding cassette) type efflux system were identified in the CHu59-6-5 . Phylogenetic analysis based on 16S rRNA sequences and Average Nucleotide Identities (ANI) support the idea that the strain CHu59-6-5 has a close relationship to the genus A polyphasic study was done to establish the taxonomic status of the strain CHu59-6-5 . Based on these data, we proposed that the isolate be classified to the genus as sp. nov. with isolate CHu59-6-5 .