Skip to main content

Lund University Publications

LUND UNIVERSITY LIBRARIES

Phylogenetic characterization of Bifidobacterium kimbladii sp. nov., a novel species from the honey stomach of the honeybee Apis mellifera

Modesto, M. ; Scarafile, D. ; Vásquez, A. LU ; Pukall, R. ; Neumann-Schaal, M. ; Pascarelli, S. ; Sgorbati, B. ; Ancora, M. ; Cammà, C. and Mattarelli, P. , et al. (2025) In Systematic and Applied Microbiology 48(1).
Abstract

Six novel Bifidobacterium strains H1HS16NT, Bin2N, Hma3N, H6bp22N, H1HS10N, and H6bp9N, were isolated from the honey stomach of Apis mellifera. Cells are Gram-positive, non-motile, non-sporulating, facultatively anaerobic, and fructose 6-phosphate phosphoketolase-positive. Optimal growth conditions occur at 37 °C in anaerobiosis in MRS medium added with 2 % fructose and 0.1 % L-cysteine. The 16S rRNA gene sequences analysis revealed clustering with Bifidobacterium species found in honeybees. Strains Hma3N, H6bp22N, and H1HS16NT showed significant similarity to Bifidobacterium polysaccharolyticum JCM 34588T, with an average similarity of 99.63 %. In contrast, strains Bin2N, H1HS10N, and H6bp9N were... (More)

Six novel Bifidobacterium strains H1HS16NT, Bin2N, Hma3N, H6bp22N, H1HS10N, and H6bp9N, were isolated from the honey stomach of Apis mellifera. Cells are Gram-positive, non-motile, non-sporulating, facultatively anaerobic, and fructose 6-phosphate phosphoketolase-positive. Optimal growth conditions occur at 37 °C in anaerobiosis in MRS medium added with 2 % fructose and 0.1 % L-cysteine. The 16S rRNA gene sequences analysis revealed clustering with Bifidobacterium species found in honeybees. Strains Hma3N, H6bp22N, and H1HS16NT showed significant similarity to Bifidobacterium polysaccharolyticum JCM 34588T, with an average similarity of 99.63 %. In contrast, strains Bin2N, H1HS10N, and H6bp9N were closely related to Bifidobacterium apousia JCM 34587T, with an average similarity of 99.22 %. Moreover, strains Hma3N and H6bp22N exhibited ANI values of 96.65 % and 96.53 % when compared to Bifidobacterium polysaccharolyticum JCM 34588T, while strains H1HS16NT, Bin2N, H6bp9N, and H1HS10N revealed ANI values of 94.18 %, 94.33 %, 94.22 %, and 95.50 % respectively when compared to B. apousia JCM 34587T. dDDH analysis confirmed that strains Hma3N and H6bp22N belong to B. polysaccharolyticum, whereas strains H1HS16NT, Bin2N, H6bp9N, and H1HS10N represent a novel species. The peptidoglycan of the novel species is of the A4α type (L-Lys-D-Asp). The main cellular fatty acids of the type strain H1HS16NT are C16:0, C14:0, C19:0 cyclo ω9c, and C18:1 ω9c. The DNA G + C content of the type strain is 60.8 mol%. Genome analyses of the strains were also conducted to determine their biosynthesis-related gene clusters, probiotic features, and ecological distribution patterns. Phenotypic and genotypic characterization show that strain H1HS16NT is distinct from the type strains of other recognized Bifidobacterium species. Thus, Bifidobacterium kimbladii sp. nov. (H1HS16NT = DSM 115187T = CCUG 76695T) is proposed as a novel Bifidobacterium species.

(Less)
Please use this url to cite or link to this publication:
author
; ; ; ; ; ; ; ; and , et al. (More)
; ; ; ; ; ; ; ; ; and (Less)
organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
Apis mellifera, Bifidobacterium, Bifidobacterium kimbladii sp. nov., Honey stomach, New species
in
Systematic and Applied Microbiology
volume
48
issue
1
article number
126579
publisher
Elsevier
external identifiers
  • pmid:39764984
  • scopus:85214137054
ISSN
0723-2020
DOI
10.1016/j.syapm.2025.126579
language
English
LU publication?
yes
additional info
Publisher Copyright: © 2025 Elsevier GmbH
id
78b0f075-5c78-4814-be63-62925d59050d
date added to LUP
2025-03-19 12:35:10
date last changed
2025-07-23 22:29:03
@article{78b0f075-5c78-4814-be63-62925d59050d,
  abstract     = {{<p>Six novel Bifidobacterium strains H1HS16N<sup>T</sup>, Bin2N, Hma3N, H6bp22N, H1HS10N, and H6bp9N, were isolated from the honey stomach of Apis mellifera. Cells are Gram-positive, non-motile, non-sporulating, facultatively anaerobic, and fructose 6-phosphate phosphoketolase-positive. Optimal growth conditions occur at 37 °C in anaerobiosis in MRS medium added with 2 % fructose and 0.1 % L-cysteine. The 16S rRNA gene sequences analysis revealed clustering with Bifidobacterium species found in honeybees. Strains Hma3N, H6bp22N, and H1HS16N<sup>T</sup> showed significant similarity to Bifidobacterium polysaccharolyticum JCM 34588<sup>T</sup>, with an average similarity of 99.63 %. In contrast, strains Bin2N, H1HS10N, and H6bp9N were closely related to Bifidobacterium apousia JCM 34587<sup>T</sup>, with an average similarity of 99.22 %. Moreover, strains Hma3N and H6bp22N exhibited ANI values of 96.65 % and 96.53 % when compared to Bifidobacterium polysaccharolyticum JCM 34588<sup>T</sup>, while strains H1HS16N<sup>T</sup>, Bin2N, H6bp9N, and H1HS10N revealed ANI values of 94.18 %, 94.33 %, 94.22 %, and 95.50 % respectively when compared to B. apousia JCM 34587<sup>T</sup>. dDDH analysis confirmed that strains Hma3N and H6bp22N belong to B. polysaccharolyticum, whereas strains H1HS16N<sup>T</sup>, Bin2N, H6bp9N, and H1HS10N represent a novel species. The peptidoglycan of the novel species is of the A4α type (L-Lys-D-Asp). The main cellular fatty acids of the type strain H1HS16N<sup>T</sup> are C<sub>16:0</sub>, C<sub>14:0</sub>, C<sub>19:0</sub> cyclo ω9c, and C<sub>18:1</sub> ω9c. The DNA G + C content of the type strain is 60.8 mol%. Genome analyses of the strains were also conducted to determine their biosynthesis-related gene clusters, probiotic features, and ecological distribution patterns. Phenotypic and genotypic characterization show that strain H1HS16N<sup>T</sup> is distinct from the type strains of other recognized Bifidobacterium species. Thus, Bifidobacterium kimbladii sp. nov. (H1HS16N<sup>T</sup> = DSM 115187<sup>T</sup> = CCUG 76695<sup>T</sup>) is proposed as a novel Bifidobacterium species.</p>}},
  author       = {{Modesto, M. and Scarafile, D. and Vásquez, A. and Pukall, R. and Neumann-Schaal, M. and Pascarelli, S. and Sgorbati, B. and Ancora, M. and Cammà, C. and Mattarelli, P. and Olofsson, T. C.}},
  issn         = {{0723-2020}},
  keywords     = {{Apis mellifera; Bifidobacterium; Bifidobacterium kimbladii sp. nov.; Honey stomach; New species}},
  language     = {{eng}},
  number       = {{1}},
  publisher    = {{Elsevier}},
  series       = {{Systematic and Applied Microbiology}},
  title        = {{Phylogenetic characterization of Bifidobacterium kimbladii sp. nov., a novel species from the honey stomach of the honeybee Apis mellifera}},
  url          = {{http://dx.doi.org/10.1016/j.syapm.2025.126579}},
  doi          = {{10.1016/j.syapm.2025.126579}},
  volume       = {{48}},
  year         = {{2025}},
}