In the present study, the taxonomic positions of five strains (C, 17-2, LMG 10779T, LMG 18969 and LMG 11483) of Leuconostoc pseudomesenteroides were re-evaluated by a polyphasic approach, including the analyses of 16S rRNA, pheS and rpoA gene sequences, cellular fatty acids, average nucleotide and amino acid identities (ANI and AAI), digital DNA–DNA hybridization (dDDH), and phenotypic features. Based on rpoA sequence analysis, the five strains and L. pseudomesenteroides LMG 11482T were divided into two groups: strains C, LMG 10779T and LMG 18969; strains 17-2, LMG 11483 and LMG 11482T. Each of the two groups had almost identical rpoA sequences. The rpoA sequence similarity between strain LMG 10779T and L. pseudomesenteroides LMG 11482T was 95.6 %. Strains LMG 11483 and 17-2 had 98.1 and 97.2 % ANI values, 83.5 and 73.2 % dDDH values, and a 97.0 % AAI value with L. pseudomesenteroides LMG 11482T, greater than the threshold for species demarcation, indicating that strains LMG 11483 and 17-2 belong to L. pseudomesenteroides. Strains LMG 18969 and C shared 97.1 and 98.2 % ANI values, 73.4 and 83.2 % dDDH values, and 96.9 and 96.6 % AAI values with strain LMG 10779T, greater than the threshold for species demarcation, indicating that strains LMG 10779T, LMG 18969 and C represent the same species. The ANI, dDDH and AAI values between strain LMG 10779T and the type strains of phylogenetically related species were 75.2–92.5, 20.0–48.2 and 75.3–93.9 %, respectively, below the thresholds for species demarcation, indicating that strain LMG 10779T represents a novel species within the genus Leuconostoc. On the basis of the results presented here, (i) strains 17-2 and LMG 11483 belong to L. pseudomesenteroides, and (ii) strains LMG 10779T, LMG 18969 and C are considered to represent a novel species within the genus Leuconostoc, for which the name Leuconostoc falkenbergense sp. nov. is proposed with the type strain LMG 10779T (=CCUG 27119T).
LudwigW,
SchleiferKH,
WhitmanWB et al. Taxonomic outline of the phylum Firmicutes
. In
De VosP,
GarrityG,
JonesD,
KriegNR,
LudwigW et al.
(editors) Bergey’s Manual of Systematic Bacteriology New York: Springer; 2009 pp 15–17
ZhengJ,
WittouckS,
SalvettiE,
FranzCMAP,
HarrisHMB et al. A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae
. Int J Syst Evol Microbiol2020; 70:2782–2858 [View Article]
De BruyneK,
SchillingerU,
CarolineL,
BoehringerB,
CleenwerckI et al.Leuconostoc holzapfelii sp. nov., isolated from Ethiopian coffee fermentation and assessment of sequence analysis of housekeeping genes for delineation of Leuconostoc species. Int J Syst Evol Microbiol2007; 57:2952–2959 [View Article]
NaserSM,
ThompsonFL,
HosteB,
GeversD,
DawyndtP et al. Application of multilocus sequence analysis (MLSA) for rapid identification of Enterococcus species based on rpoA and pheS genes. Microbiology2005; 151:2141–2150 [View Article]
KishinoH,
HasegawaM.
Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea. J Mol Evol1989; 29:170–179 [View Article]
NaserSM,
DawyndtP,
HosteB,
GeversD,
VandemeulebroeckeK et al. Identification of lactobacilli by pheS and rpoA gene sequence analyses. Int J Syst Evol Microbiol2007; 57:2777–2789 [View Article]
De BruyneK,
FranzCMAP,
VancanneytM,
SchillingerU,
MozziF et al.Pediococcus argentinicus sp. nov. from Argentinean fermented wheat flour and identification of Pediococcus species by pheS, rpoA and atpA sequence analysis. Int J Syst Evol Microbiol2008; 58:2909–2916 [View Article]
BankevichA,
NurkS,
AntipovD,
GurevichAA,
DvorkinM et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol2012; 19:455–477 [View Article]
LeeI,
Ouk KimY,
ParkS-C,
ChunJ.
OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol2016; 66:1100–1103 [View Article]
YoonS-H,
HaS-min,
LimJ,
KwonS,
ChunJ.
A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie Van Leeuwenhoek2017; 110:1281–1286 [View Article]
GorisJ,
KonstantinidisKT,
KlappenbachJA,
CoenyeT,
VandammeP et al. DNA–DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol2007; 57:81–91 [View Article]
RichterM,
Rosselló-MóraR.
Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A2009; 106:19126–19131 [View Article]
ChunJ,
OrenA,
VentosaA,
ChristensenH,
ArahalDR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol2018; 68:461–466 [View Article]
AuchAF,
von JanM,
KlenkH-P,
GökerM.
Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison. Stand Genomic Sci2010; 2:117–134 [View Article]
StackebrandtE,
GoebelBM.
Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol1994; 44:846–849 [View Article]
BesemerJ,
LomsadzeA,
BorodovskyM.
GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions. Nucleic Acids Res2001; 29:2607–2618 [View Article]
ParksDH,
ImelfortM,
SkennertonCT,
HugenholtzP,
TysonGW.
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res2015; 25:1043–1055 [View Article]
MattarelliP,
HolzapfelW,
FranzCMAP,
EndoA,
FelisGE et al. Recommended minimal standards for description of new taxa of the genera Bifidobacterium, Lactobacillus and related genera. Int J Syst Evol Microbiol2014; 64:1434–1451 [View Article]
TakEJ,
KimHS,
LeeJ-Y,
KangW,
HyunD-W et al.Vagococcus martis sp. nov., isolated from the small intestine of a marten, Martes flavigula
. Int J Syst Evol Microbiol2017; 67:3398–3402 [View Article]