Yangia mangrovi sp. nov., a novel member of the Roseobacter clade isolated from mangrove soil and emended description of Yangia pacifica Dai et al. 2006

Abstract

During a study of the bacterial diversity of mangrove habitats, a novel Gram-stain-negative, rod-shaped bacterium designated as SAOS 153DT was isolated. Sequence alignment and molecular phylogenetic analyses based on 16S rRNA and core gene sequence of strain SAOS 153DT with closely related taxa revealed a sequence identity of 99.4 % and clustering with Yangia pacifica DX5-10T. The fatty acids summed feature 8 (C18:1 ω7c/C18:1 ω6c) and the lipids phosphatidylglycerol, phosphatidylethanolamine and an unknown phospholipid were the major components of the cell wall. The only ubiquinone type present was Q-10. The genomic DNA G+C content of the strain calculated from whole genome sequencing was 66.9 mol%. These chemotaxonomic and genomic characteristics supported the molecular phylogenetic analysis and placed the strain well within the radiation of the genus Yangia . The overall genome related indices using digital DNA–DNA hybridization (35.4 %) and ortho-average nucleotide identity (88.1 %) values were much lower than the recommended thresholds for species delineation, which further consolidated the novel species status of strain SAOS 153DT within the genus Yangia as Yangia mangrovi sp. nov. The type strain is SAOS 153DT (=JCM 31345T=KCTC 52280T=MTCC 12749T).

Proposal of Thalassovita gen. nov. and Alloyangia gen. nov. as replacement names for the illegitimate prokaryotic generic names Thalassobius and Yangia, respectively

“…in 2006 [15] and emended by Verma et al . in 2021 [16]. According to the information available in the List of Prokaryotes with Standing in Nomenclature website (https://lpsn.dsmz.de/genus/yangia; accessed 12 March 2023), the genus currently contains two species with validly published and correct names: Yangia pacifica (the type species) and Yangia mangrovi ; however, the status of Yangia mangrovi is doubtful, as explained below.…”

“…In accordance with Rule 54, we here propose a replacement name, conserving the meaning of the illegitimate name as originally published. The description of the species is as given for Yangia pacifica [15,16].…”

“…gen. n. mangrovi, of a mangrove). The description of the species is as given for Yangia mangrovi [16].…”

Geoalkalibacter halelectricus SAP‐1 sp. nov. possessing extracellular electron transfer and mineral‐reducing capabilities from a haloalkaline environment

“…The 16S rRNA gene and whole-genome sequencingbased phylogenetic approaches were used to identify and classify the isolated haloalkaliphilic microbial strain. In 16S rRNA sequencing-based approach, the 16S rRNA gene amplification, purification and sequencing of the fragment was performed using universal eubacterial primers 27F and 1492R as mentioned earlier by Verma et al (2021). The resulting sequence was used as query in the NCBI standard genomic (GenBank) database, by the BLAST sequence alignment tool (https://blast.ncbi.nlm.nih.gov/Blast.cgi?PROGRAM= blastn-&PAGE_TYPE=BlastSearch&LINK_LOC= blasthome) for highly similar sequences (megablast).…”