- Sala cibi gen. nov., sp. nov., an extremely halophilic archaeon isolated from solar salt
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Hye Seon Song , Juseok Kim , Yeon Bee Kim , Se Hee Lee , Tae Woong Whon , Seong Woon Roh
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J. Microbiol. 2022;60(9):899-904. Published online July 14, 2022
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DOI: https://doi.org/10.1007/s12275-022-2137-5
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 Abstract
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Two novel halophilic archaeal strains, CBA1133T and CBA-
1134, were isolated from solar salt in South Korea. The 16S
rRNA gene sequences of the isolates were identical to each
other and were closely related to the genera Natronomonas
(92.3–93.5%), Salinirubellus (92.2%), Halomarina (91.3–
92.0%), and Haloglomus (91.4%). The isolated strains were
coccoid, Gram-stain-negative, aerobic, oxidase-positive, and
catalase-negative. Growth occurred under temperatures of
25–50°C (optimum, 45°C), NaCl levels of 10–30% (optimum,
15%), pH levels of 6.0–8.5 (optimum, 7.0), and MgCl2 concentrations
of 0–500 mM (optimum, 100 mM). Digital DNADNA
hybridization values between the strains and related
genera ranged from 18.3% to 22.7%. The major polar lipids
of the strains were phosphatidyl glycerol, phosphatidyl glycerol
phosphate methyl ester, and phosphatidyl glycerol sulfate.
Genomic, phenotypic, physiological, and biochemical
analyses of the isolates revealed that they represent a novel
genus and species in the family Halobacteriaceae. The type
strain is CBA1133T (= KACC 22148T = JCM 34265T), for which
the name Sala cibi gen. nov., sp. nov. is proposed.
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Citations
Citations to this article as recorded by  - Dominance and diversity of archaea in food-grade salts: insights for histamine degradation in salt-fermented foods
Jing Hou, Ya-Ling Mao, Na Li, Xiao-Yan Yang, Chidiebele Nwankwo, Heng-Lin Cui
International Journal of Food Science and Technology.2024; 59(12): 9490. CrossRef - Congregibacter variabilis sp. nov. and Congregibacter brevis sp. nov. Within the OM60/NOR5 Clade, Isolated from Seawater, and Emended Description of the Genus Congregibacter
Hyeonsu Tak, Miri S. Park, Hyerim Cho, Yeonjung Lim, Jang-Cheon Cho
Journal of Microbiology.2024; 62(9): 739. CrossRef - Genome-based classification of genera Halosegnis and Salella, and description of four novel halophilic archaea isolated from a tidal flat
Yao Hu, Xue Ma, Shun Tan, Xin-Xin Li, Mu Cheng, Jing Hou, Heng-Lin Cui
Antonie van Leeuwenhoek.2024;[Epub] CrossRef - Assessing the impact of heavy metals on bacterial diversity in coastal regions of Southeastern India
Chandra Veluchamy, Avinash Sharma, Kalaivani Thiagarajan
Environmental Monitoring and Assessment.2024;[Epub] CrossRef - Proposal of Eoetvoesiella gen. nov., Paludihabitans gen. nov., Rivihabitans gen. nov. and Salella gen. nov. as replacement names for the illegitimate prokaryotic generic names Eoetvoesia, Paludicola, Rivicola and Sala, respectively
Umakant Bhoopati Deshmukh, Aharon Oren
International Journal of Systematic and Evolutionary Microbiology
.2023;[Epub] CrossRef - Validation List no. 209. Valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, Markus Göker
International Journal of Systematic and Evolutionary Microbiology
.2023;[Epub] CrossRef - Halorarius litoreus gen. nov., sp. nov., Halorarius halobius sp. nov., Haloglomus halophilum sp. nov., Haloglomus salinum sp. nov., and Natronomonas marina sp. nov., extremely halophilic archaea isolated from tidal flat and marine solar salt
Ya-Ping Sun, Bei-Bei Wang, Zhang-Ping Wu, Xi-Wen Zheng, Jing Hou, Heng-Lin Cui
Frontiers in Marine Science.2023;[Epub] CrossRef - Naming new taxa of prokaryotes in the 21st century
Aharon Oren
Canadian Journal of Microbiology.2023; 69(4): 151. CrossRef
- Brachybacterium kimchii sp. nov. and Brachybacterium halotolerans subsp. kimchii subsp. nov., isolated from the Korean fermented vegetables, kimchi, and description of Brachybacterium halotolerans subsp. halotolerans subsp. nov.
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Yujin Kim , Yeon Bee Kim , Juseok Kim , Joon Yong Kim , Tae Woong Whon , Won-Hyong Chung , Eun-Ji Song , Young-Do Nam , Se Hee Lee , Seong Woon Roh
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J. Microbiol. 2022;60(7):678-688. Published online July 4, 2022
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DOI: https://doi.org/10.1007/s12275-022-1581-6
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Abstract
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Two Gram-stain-positive, oxidase-negative, catalase-positive,
and coccus-shaped bacterial strains, designated CBA3104T
and CBA3105T, were isolated from kimchi. Strain CBA3104T
and CBA3105T grew at 10–35°C (optimum, 25°C and 30°C,
respectively), at pH 6.0–8.5 (optimum, pH 6.5), and in the
presence of 0–15% (w/v) NaCl (optimum, 5%). A phylogenetic
analysis based on 16S rRNA gene sequences revealed
that strain CBA3104T formed a distinct phylogenetic lineage
within the genus Brachybacterium whereas strain CBA3105T
was closely positioned with Brachybacterium halotolerans
MASK1Z-5T. The 16S rRNA gene sequence similarity between
strains CBA3104T and CBA3105T was 99.9%, but ANI
and dDDH values between strains CBA3104T and CBA3105T
were 93.61% and 51.5%, respectively. Strain CBA3104T showed
lower ANI and dDDH values than species delineation against
three closely related strains and type species of the genus
Brachybacterium, however, strain CBA3105T showed 96.63%
ANI value and 69.6% dDDH value with Brachybacterium
halotolerans MASK1Z-5T. Among biochemical analysis results,
strain CBA3104T could uniquely utilize bromo-succinic
acid whereas only strain CBA3105T was positive for alkaline
phosphatase and α-fucosidase among two novel strains, closely
related strains, and type species of the genus Brachybacterium.
Compared with strain CBA3105T and Brachybacterium
halotolerans JCM 34339T, strain CBA3105T was differentially
positive for acid production of D-arabinose, D-adonitol, and
potassium 5-ketogluconate and enzyme activity of β-glucuronidase.
Both strains contained menaquinone-7 as the dominant
quinone. The cell-wall peptidoglycan of two novel
strains contained meso-diaminopimelic acid. The major fatty
acids of strains CBA3104T and CBA3105T were anteiso-C15:0,
anteiso-C17:0, and iso-C16:0. The major polar lipids of both
strains were phosphatidylglycerol and diphosphatidylglycerol.
Strain CBA3104T possessed a uniquely higher abundance of
tRNA (97 tRNAs) than four Brachybacterium strains used for
comparative taxonomic analysis (54–62 tRNAs). Both the
CBA3104T and CBA3105T strain harbored various oxidoreductase,
transferase, hydrolase, and lyase as strain-specific
functional genes compared to closely related strains and Brachybacterium
type species. The results of biochemical/physiological,
chemotaxonomic, and genomic analyses demonstrated
that strains CBA3104T and CBA3105T represent a novel species
of the genus Brachybacterium and a novel subspecies of
B. halotolerans, respectively, for which the names Brachybacterium
kimchii sp. nov. and B. halotolerans subsp. kimchii
subsp. nov. are proposed. The type strains of the novel
species and the novel subspecies are CBA3104T (= KCCM
43417T = JCM 34759T) and CBA3105T (= KCCM 43418T =
JCM 34760T), respectively.
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Citations
Citations to this article as recorded by - Metagenomic Insights into the Taxonomic and Functional Features of Traditional Fermented Milk Products from Russia
Alexander G. Elcheninov, Kseniya S. Zayulina, Alexandra A. Klyukina, Mariia K. Kremneva, Ilya V. Kublanov, Tatiana V. Kochetkova
Microorganisms.2023; 12(1): 16. CrossRef - Validation List no. 208. Valid publication of new names and new combinations effectively published outside the IJSEM
Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology
.2022;[Epub] CrossRef -
Complete Genome Sequence of
Brachybacterium
sp. Strain NBEC-018, Isolated from Nematode-Infected Potatoes
Ling Chen, Yueying Wang, Nanxi Liu, Lei Zhu, Yong Min, Yimin Qiu, Yuxi Tian, Xiaoyan Liu, David Rasko
Microbiology Resource Announcements.2022;[Epub] CrossRef
- Paracoccus jeotgali sp. nov., isolated from Korean salted and fermented shrimp
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Juseok Kim , Joon Yong Kim , Hye Seon Song , In-Tae Cha , Seong Woon Roh , Se Hee Lee
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J. Microbiol. 2019;57(6):444-449. Published online May 27, 2019
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DOI: https://doi.org/10.1007/s12275-019-8704-8
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Abstract
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A Gram-stain-negative and facultatively aerobic bacterium,
designated as strain CBA4604T, was isolated from a traditional
Korean salted and fermented shrimp food (saeu-jeot).
Phylogenetic analysis based on 16S rRNA gene sequences
showed that strain CBA4604T formed a clearly distinct phyletic
lineage from closely related species within the genus
Paracoccus. Strain CBA4604T was the most closely related to
P. koreensis Ch05T (97.5% 16S rRNA gene sequence similarity)
and other type strains (≤ 97.0%). The genome comprised a
chromosome and two plasmids of 3,299,166 bp with 66.5%
G+C content. The DNA-DNA relatedness values between
strain CBA4604T and P. koreensis Ch05T, P. alcaliphilus DSM
8512T, and P. stylophorae KTW-16T were 30.5%, 22.9%, and
16.7%, respectively. Cells of the strain were short rod-shaped
and oxidase- and catalase-positive. The growth of strain CBA-
4604T was observed at 10–40°C (optimum, 37°C), pH 6.0–10.0
(optimum, pH 7.0), and in the presence of 0–8.0% (w/v) NaCl
(optimum, 0–2.0%). Strain CBA4604T contained ubiquinone
10 as the sole isoprenoid quinone and summed feature 8 (C18:1
ω7c/C18:1 ω6c) and C18:0 as the major cellular fatty acids. The
polar lipids consisted of phosphatidylcholine, phosphatidylglycerol,
diphosphatidylglycerol, phospholipid, an unidentified
aminolipid, an unidentified glycolipid, and three unidentified
lipids. Based on its phylogenetic, genomic, phenotypic,
and chemotaxonomic features, we concluded that strain CBA-
4604T represents a novel species in the genus Paracoccus and
we propose the name Paracoccus jeotgali sp. nov. The type
strain is CBA4604T (= KACC 19579T = JCM 32510T).
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Citations
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Juseok Kim, Hye Seon Song, Joon Yong Kim, Tae Woong Whon, Won-Hyong Chung, Young-Do Nam, Yoon-E Choi, Seong Woon Roh
International Journal of Systematic and Evolutionary Microbiology.2023;[Epub] CrossRef - ODFM, an omics data resource from microorganisms associated with fermented foods
Tae Woong Whon, Seung Woo Ahn, Sungjin Yang, Joon Yong Kim, Yeon Bee Kim, Yujin Kim, Ji-Man Hong, Hojin Jung, Yoon-E Choi, Se Hee Lee, Seong Woon Roh
Scientific Data.2021;[Epub] CrossRef - Flaviflexus ciconiae sp. nov., isolated from the faeces of the oriental stork, Ciconia boyciana
Jae-Yun Lee, Woorim Kang, Pil Soo Kim, So-Yeon Lee, Na-Ri Shin, Hojun Sung, June-Young Lee, Ji-Hyun Yun, Yun-Seok Jeong, Jeong Eun Han, Mi-Ja Jung, Dong-Wook Hyun, Hyun Sik Kim, Euon Jung Tak, Jin-Woo Bae
International Journal of Systematic and Evolutionary Microbiology.2020; 70(10): 5439. CrossRef -
Paracoccus aeridis sp. nov., an indole-producing bacterium isolated from the rhizosphere of an orchid, Aerides maculosa
Anusha Rai, Smita N, Suresh G, Shabbir A, Deepshikha G, Sasikala Ch, Ramana Ch.V
International Journal of Systematic and Evolutionary Microbiology
.2020; 70(3): 1720. CrossRef - Pectin Degradation is an Important Determinant for Alfalfa Silage Fermentation through the Rescheduling of the Bacterial Community
Bing Wang, Zhiqiang Sun, Zhu Yu
Microorganisms.2020; 8(4): 488. CrossRef - Iodobacter ciconiae sp. nov., a bacterium isolated from feces of oriental stork, Ciconia boyciana
Jae-Yun Lee, Woorim Kang, Pil Soo Kim, So-Yeon Lee, Na-Ri Shin, Hojun Sung, June-Young Lee, Ji-Hyun Yun, Yun-Seok Jeong, Jeong Eun Han, Mi-Ja Jung, Dong-Wook Hyun, Hyun Sik Kim, Euon Jung Tak, Myung-Suk Kang, Ki-Eun Lee, Byoung-Hee Lee, Jin-Woo Bae
International Journal of Systematic and Evolutionary Microbiology.2019; 69(9): 2948. CrossRef
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