- Spirosoma daeguensis sp. nov., isolated from beach soil
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Nabil Elderiny , Leonid N. Ten , Jae-Jin Lee , Seung-Yeol Lee , Sangkyu Park , Young-Je Cho , Myung Kyum Kim , Hee-Young Jung
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J. Microbiol. 2017;55(9):678-683. Published online September 2, 2017
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DOI: https://doi.org/10.1007/s12275-017-7211-z
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912
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A Gram-stain-negative, non-motile, non-spore-forming, rodshaped,
aerobic bacterium, designated 15J9-6T, was isolated
from beach soil on Jeju Island, South Korea. Strain 15J9-6T,
grew at 10–30°C (optimum growth at 25°C) and pH 7–8 (optimum
growth at pH 7) on R2A, NA, and TSA agar. Phylogenetically,
the strain was closely related to members of the
genus Spirosoma (92.3–90.1% 16S rRNA gene sequence similarities)
and showed highest sequence similarity to Spirosoma
panaciterrae DSM 21099T (92.3%). The G+C content
of the genomic DNA of strain 15J9-6T was 45.7 mol%. The
strain contained phosphatidylethanolamine, two unidentified
aminophospholipids, an unidentified phospholipid, and an
unidentified lipid as the major polar lipids; menaquinone
MK-7 as the predominant respiratory quinone and summed
feature 3 (C16:1 ω6c/C16:1 ω7c; 30.1%), C16:1 ω5c (23.1%), iso
C15:0 (13.3%), and C16:0 (8.4%) as the major fatty acids which
supported the affiliation of strain 15J9-6T to the genus Spirosoma.
The results of physiological and biochemical tests
allowed genotypic and phenotypic differentiation of strain
15J9-6T from recognized Spirosoma species. On the basis of
its phenotypic properties and phylogenetic distinctiveness,
strain 15J9-6T represents a novel species of the genus Spirosoma,
for which the name Spirosoma daeguensis sp. nov. is
proposed. The type strain is 15J9-6T (=KCTC 52036T =JCM
31995T)
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Citations
Citations to this article as recorded by  -
Spirosoma rhododendri sp. nov., isolated from a flower of royal azalea (Rhododendron schlippenbachii)
Miyoung Won, Seung-Beom Hong, Byeong-Hak Han, Soon-Wo Kwon
International Journal of Systematic and Evolutionary Microbiology
.2022;[Epub] CrossRef -
Spirosoma utsteinense sp. nov. isolated from Antarctic ice-free soils from the Utsteinen region, East Antarctica
Guillaume Tahon, Liesbeth Lebbe, Anne Willems
International Journal of Systematic and Evolutionary Microbiology
.2019;[Epub] CrossRef - Spirosoma humi sp. nov., Isolated from Soil in South Korea
Li Weilan, Jae-Jin Lee, Seung-Yeol Lee, Sangkyu Park, Leonid N. Ten, Hee-Young Jung
Current Microbiology.2018; 75(3): 328. CrossRef - List of new names and new combinations previously effectively, but not validly, published
Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology
.2017; 67(11): 4291. CrossRef
- Hymenobacter daeguensis sp. nov. isolated from river water
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Leonid N. Ten , Yeon-Hee Lee , Jae-Jin Lee , Su-Jin Park , Seung-Yeol Lee , Sangkyu Park , Dae Sung Lee , In-Kyu Kang , Hee-Young Jung
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J. Microbiol. 2017;55(4):253-259. Published online January 26, 2017
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DOI: https://doi.org/10.1007/s12275-017-6524-2
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930
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A Gram-stain-negative, non-motile, non-spore-forming, rod- shaped, aerobic bacterial strain, designated 16F3Y-2T, was isolated from the Han River, South Korea, and was charac-terized taxonomically using a polyphasic approach. Compa-rative 16S rRNA gene sequence analysis showed that strain 16F3Y-2T belonged to the family Cytophagaceae in the phy-lum Bacteroidetes and was most closely related to ‘Hymeno-bacter terrae’ DG7A (98.01%), H. soli PB17T (97.26%), H. glaciei VUG-A130T (96.78%), H. antarcticus VUG-A42aaT (96.72%), H. ruber PB156T (96.61%), and H. saemangeumensis GSR0100T (95.77%). The G+C content of the genomic DNA of strain 16F3Y-2T was 62.9 mol%. The isolate contained MK-7 as the predominant respiratory quinone, and summed fea-ture 3 (C16:1 ω7c/C16:1 ω6c; 35.5%), C15:0 iso (16.9%), C16:1 ω5c (10.9%), and C15:0 anteiso (9.9%) as major fatty acids. The ma-jor polar lipid was phosphatidylethanolamine. Phenotypic and chemotaxonomic data supported the affiliation of strain 16F3Y-2T with the genus Hymenobacter. However, strain 16F3Y-2T exhibited relatively low levels of DNA-DNA related-ness with 'H. terrae' KCTC 32554 (44.1%) and H. soli KCTC 12607T (24.3%), clearly indicating that the isolate constitutes a new genospecies. Strain 16F3Y-2T could be differentiated from its phylogenetic neighbors on the basis of several phe-notypic, genotypic, and chemotaxonomic features. Therefore, strain 16F3Y-2T represents a novel species in the genus Hy-menobacter, for which the name Hymenobacter daeguensis sp. nov. is proposed. The type strain is 16F3Y-2T (=KCTC 52537T =JCM 31654T).
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International Journal of Systematic and Evolutionary Microbiology
.2023;[Epub] CrossRef - Description of Hymenobacter sediminicola sp. nov., isolated from contaminated sediment
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Antonie van Leeuwenhoek.2023; 116(8): 817. CrossRef - Hymenobacter pomorum sp. nov., Isolated from Apple Orchard Soil
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Current Microbiology.2019; 76(1): 117. CrossRef - Hymenobacter jeollabukensis sp. nov., isolated from soil
Leonid N. Ten, Young Eun Han, Kyeung Il Park, In-Kyu Kang, Jeung-Sul Han, Hee-Young Jung
Journal of Microbiology.2018; 56(7): 500. CrossRef -
Hymenobacter pedocola sp. nov., a novel bacterium isolated from soil
Soo-Jeong Lim, Leonid N. Ten, Byung-Oh Kim, In-Kyu Kang, Hee-Young Jung
International Journal of Systematic and Evolutionary Microbiology
.2018; 68(7): 2242. CrossRef - Hymenobacter rufus sp. nov., a bacterium isolated from soil
Jeong-Eun Ohn, Leonid N. Ten, Byung-Oh Kim, Young-Je Cho, Hee-Young Jung
International Journal of Systematic and Evolutionary Microbiology.2018; 68(9): 2983. CrossRef - Description of Hymenobacter daejeonensis sp. nov., isolated from grass soil, based on multilocus sequence analysis of the 16S rRNA gene, gyrB and tuf genes
Long Jin, Xuewen Wu, So-Ra Ko, Feng-Jie Jin, Taihua Li, Chi-Yong Ahn, Hee-Mock Oh, Hyung-Gwan Lee
Antonie van Leeuwenhoek.2018; 111(12): 2283. CrossRef - Hymenobacter segetis sp. nov., isolated from soil
Leonid N. Ten, Soo Jeong Lim, Byung-Oh Kim, In-Kyu Kang, Hee-Young Jung
Archives of Microbiology.2018; 200(8): 1167. CrossRef - Hymenobacter agri sp. nov., a novel bacterium isolated from soil
Jigon Han, Leonid N. Ten, Dong Hoon Lee, In-Kyu Kang, Hee-Young Jung
Antonie van Leeuwenhoek.2018; 111(10): 1815. CrossRef - Hymenobacter terrigena sp. nov., isolated from soil
Jeong-Eun Ohn, Leonid N. Ten, Kyeung Il Park, Byung-Oh Kim, Jeung-Sul Han, Hee-Young Jung
Journal of Microbiology.2018; 56(4): 231. CrossRef - List of novel names and novel combinations previously effectively, but not validly, published
Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology
.2017; 67(7): 2075. CrossRef
- Spirosoma luteolum sp. nov. isolated from water
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Jae-Jin Lee , Su-Jin Park , Yeon-Hee Lee , Seung-Yeol Lee , Sangkyu Park , Young-Je Cho , Myung Kyum Kim , Leonid N. Ten , Hee-Young Jung
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J. Microbiol. 2017;55(4):247-252. Published online March 13, 2017
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DOI: https://doi.org/10.1007/s12275-017-6455-y
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1,046
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Abstract
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A novel Gram-negative and rod-shaped bacterial strain, de-signated as 16F6ET, was isolated from a water sample. Cells were yellowish in color and catalase- and oxidase-positive. The strain grew at 10–37°C (optimum at 25°C) but not at 4 and 42°C, and pH 5–7 (optimum at pH 7). It showed mod-erate resistance to gamma-ray irradiation. Comparative phy-logenetic analysis showed that strain 16F6ET belonged to the family Cytophagaceae of the class Cytophagia. Furthermore, this isolate showed relatively low 16S rRNA gene sequence similarities (90.7–93.1%) to the members of the genus Spiro-soma. The major fatty acids were summed feature 3 (C16:1 ω7c/C16:1 ω6c), C16:1 ω5c, C16:0 N alcohol, and C16:0. The polar lipid profile indicated presence of phosphatidylethanolamine, unknown aminophospholipids, an unknown amino lipid, unknown phospholipids, and unknown polar lipids. The pre-dominant isoprenoid quinone was MK-7. The genomic DNA G+C content of strain 16F6ET was 56.5 mol%. Phenotypic, phylogenetic, and chemotaxonomic properties indicated that isolate 16F6ET represents a novel species within the genus Spirosoma, for which the name Spirosoma luteolum sp. nov. is proposed. The type strain is 16F6ET (=KCTC 52199T =JCM 31411T).
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Citations
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Scientific Reports.2023;[Epub] CrossRef -
Spirosoma rhododendri sp. nov., isolated from a flower of royal azalea (Rhododendron schlippenbachii)
Miyoung Won, Seung-Beom Hong, Byeong-Hak Han, Soon-Wo Kwon
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.2022;[Epub] CrossRef - Theoretical design of new organic compounds based on diketopyrrolopyrrole and phenyl for organic bulk heterojunction solar cell applications: DFT and TD-DFT study
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Materials Today: Proceedings.2021; 45: 7334. CrossRef -
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Guillaume Tahon, Liesbeth Lebbe, Anne Willems
International Journal of Systematic and Evolutionary Microbiology
.2019;[Epub] CrossRef - Spirosoma terrae sp. nov., Isolated from Soil from Jeju Island, Korea
Leonid N. Ten, Joseph Okiria, Jae-Jin Lee, Seung-Yeol Lee, Sangkyu Park, Dae Sung Lee, In-Kyu Kang, Myung Kyum Kim, Hee-Young Jung
Current Microbiology.2018; 75(4): 492. CrossRef -
Spirosoma harenae sp. nov., a Bacterium Isolated from a Sandy Beach
Leonid N. Ten, Nabil Elderiny, Jae-Jin Lee, Seung-Yeol Lee, Sangkyu Park, Dae Sung Lee, Myung Kyum Kim, Hee-Young Jung
Current Microbiology.2018; 75(2): 179. CrossRef - Spirosoma jeollabukense sp. nov., isolated from soil
Weilan Li, Leonid N. Ten, Seung-Yeol Lee, Dong Hoon Lee, Hee-Young Jung
Archives of Microbiology.2018; 200(3): 431. CrossRef - Spirosoma humi sp. nov., Isolated from Soil in South Korea
Li Weilan, Jae-Jin Lee, Seung-Yeol Lee, Sangkyu Park, Leonid N. Ten, Hee-Young Jung
Current Microbiology.2018; 75(3): 328. CrossRef - Spirosoma horti sp. nov., isolated from apple orchard soil
Weilan Li, Leonid N. Ten, Seung-Yeol Lee, In-Kyu Kang, Hee-Young Jung
International Journal of Systematic and Evolutionary Microbiology.2018; 68(3): 930. CrossRef - Spirosoma agri sp. nov., Isolated from Apple Orchard Soil
Weilan Li, Seung-Yeol Lee, In-Kyu Kang, Leonid N. Ten, Hee-Young Jung
Current Microbiology.2018; 75(6): 694. CrossRef - Spirosoma pomorum sp. nov., isolated from apple orchard soil
Weilan Li, Seung-Yeol Lee, In-Kyu Kang, Leonid N. Ten, Hee-Young Jung
Journal of Microbiology.2018; 56(2): 90. CrossRef -
Spirosoma metallilatum sp. nov., isolated from an automotive air conditioning system
Dong-Uk Kim, Hyosun Lee, Suyeon Lee, Sooyeon Park, Jung-Hoon Yoon, Jong-Ok Ka
International Journal of Systematic and Evolutionary Microbiology
.2018; 68(2): 523. CrossRef - Spirosoma migulaei sp. nov., isolated from soil
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Journal of Microbiology.2017; 55(12): 927. CrossRef - Spirosoma litoris sp. nov., a bacterium isolated from beach soil
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International Journal of Systematic and Evolutionary Microbiology.2017; 67(12): 4986. CrossRef - Spirosoma flavus sp. nov., a novel bacterium from soil of Jeju Island
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Journal of Microbiology.2017; 55(11): 850. CrossRef - Spirosoma koreense sp. nov., a species of the family Cytophagaceae isolated from beach soil
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International Journal of Systematic and Evolutionary Microbiology.2017; 67(12): 5198. CrossRef - Spirosoma daeguensis sp. nov., isolated from beach soil
Nabil Elderiny, Leonid N. Ten, Jae-Jin Lee, Seung-Yeol Lee, Sangkyu Park, Young-Je Cho, Myung Kyum Kim, Hee-Young Jung
Journal of Microbiology.2017; 55(9): 678. CrossRef - List of novel names and novel combinations previously effectively, but not validly, published
Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology
.2017; 67(7): 2075. CrossRef
- Deinococcus sedimenti sp. nov. isolated from river sediment
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Jae-Jin Lee , Yeon-Hee Lee , Su-Jin Park , Sangyong Lim , Sun-Wook Jeong , Seung-Yeol Lee , Sangkyu Park , Hyo-Won Choi , Myung Kyum Kim , Hee-Young Jung
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J. Microbiol. 2016;54(12):802-808. Published online November 26, 2016
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DOI: https://doi.org/10.1007/s12275-016-6361-8
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959
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A novel Gram-positive, oval-shaped, non-motile bacterium
designated strain 16F1LT was isolated from sediment collected
from the Han River in Seoul, Republic of Korea. Based on the
16S rRNA gene sequence (1,448 bp), this strain was identified
as a member of the genus Deinococcus that belongs to the class
Deinococci. Similarities in the 16S rRNA gene sequence were
shown with Deinococcus daejeonensis MJ27T (99.0%), D. grandis
DSM 3963T (98.1%), D. radiotolerans C1T (97.5%), and D.
caeni Ho-08T (97.2%). Strain 16F1LT was classified as a different
genomic species from closely related Deinococcus members,
based on less than 70% DNA-DNA relatedness. Genomic
DNA G+C content of strain 16F1LT was 67.2 mol%. Strain
16F1LT was found to grow at temperatures of 10–37°C (optimum
25°C) and pH 7–8 (optimum pH 7) on R2A medium,
and was catalase-positive and oxidase-negative. Strain 16F1LT
showed resistance to gamma radiation (D10 > 2 kGy). In addition,
this strain had the following chemotaxonomic characteristics:
the major fatty acids were C15:1 ω6c and C16:1 ω7c; the
polar lipid profile contained phosphoglycolipids, unknown
aminophospholipids, an unknown aminoglycolipid, unknown
aminolipids, an unknown glycolipid, an unknown phospholipid,
and an unknown polar lipid; the major quinone was
MK-8. Phylogenetic, genotypic, phenotypic, and chemotaxonomic
characteristics indicated that strain 16F1LT represents
a novel species within the genus Deinococcus, for which the
name Deinococcus sedimenti sp. nov. is proposed. The type
strain is 16F1LT (=KCTC 33796T =JCM 31405T).
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Citations
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Draft genome sequence of
Deinococcus
sp. ME38 isolated from sediment of the Esmeralda Lake of the Parque Nacional Lagunas De Montebello
Alejandra Osorio-González, Betsy Anaid Peña-Ocaña, Nancy Abril Martínez-López, José Humberto Castañón-González, Roberto Marín-Paredes, Ricardo Jasso-Chávez, Víctor Manuel Ruíz-Valdiviezo, Vanja Klepac-Ceraj
Microbiology Resource Announcements.2025;[Epub] CrossRef - Insights into the radiation and oxidative stress mechanisms in genus Deinococcus
Nirjara Singhvi, Chandni Talwar, Shekhar Nagar, Helianthous Verma, Jasvinder Kaur, Nitish Kumar Mahato, Nabeel Ahmad, Krishnendu Mondal, Vipin Gupta, Rup Lal
Computational Biology and Chemistry.2024; 112: 108161. CrossRef - Deinococcus fonticola sp. nov., isolated from a radioactive thermal spring in Hungary
Judit Makk, Nóra Tünde Enyedi, Erika Tóth, Dóra Anda, Attila Szabó, Tamás Felföldi, Peter Schumann, Judit Mádl-Szőnyi, Andrea K. Borsodi
International Journal of Systematic and Evolutionary Microbiology.2019; 69(6): 1724. CrossRef -
Deinococcus arcticus sp. nov., isolated from Silene acaulis rhizosphere soil of the Arctic tundra
Xin-Peng Wang, Chang-Ming Li, Yong Yu, Hui-Rong Li, Zong-Jun Du, Da-shuai Mu
International Journal of Systematic and Evolutionary Microbiology
.2019; 69(11): 3437. CrossRef - Removal of Pb(II) by Pellicle-Like Biofilm-Producing Methylobacterium hispanicum EM2 Strain from Aqueous Media
Sun-Wook Jeong, Hyo Kim, Jung Yang, Yong Choi
Water.2019; 11(10): 2081. CrossRef - List of new names and new combinations previously effectively, but not validly, published
Aharon Oren, George M Garrity
International Journal of Systematic and Evolutionary Microbiology
.2017; 67(5): 1095. CrossRef
- Deinococcus seoulensis sp. nov., a bacterium isolated from sediment at Han River in Seoul, Republic of Korea
-
Jae-Jin Lee , Yeon-Hee Lee , Su-Jin Park , Sangyong Lim , Sun-Wook Jeong , Seung-Yeol Lee , Young-Je Cho , Myung Kyum Kim , Hee-Young Jung
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J. Microbiol. 2016;54(8):537-542. Published online August 2, 2016
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DOI: https://doi.org/10.1007/s12275-016-6253-y
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1,036
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Strain 16F1ET was isolated from a 3-kGy-irradiated sediment
sample collected at Han River in Seoul, Republic of Korea.
Cells of this strain were observed to be Gram-positive, pililike
structure, and short rod shape, and colonies were red in
color. The strain showed the highest degree of 16S rRNA gene
sequence similarity to Deinococcus aquaticus PB314T (98.8%),
Deinococcus depolymerans TDMA-24T (98.1%), Deinococcus
caeni Ho-08T (98.0%), and Deinococcus grandis DSM 3963T
(97.0%). 16S rRNA gene sequence analysis identified this
strain as a member of the genus Deinococcus (Family: Deinococcaceae).
The genomic DNA G+C content of strain 16F1ET
was 66.9 mol%. The low levels of DNA-DNA hybridization
(< 56.2%) with the species mentioned above identified strain
16F1ET as a novel Deinococcus species. Its oxidase and catalase
activities as well as the production of acid from glucose
were positive. Growth of the strain was observed at 10–37°C
(optimum: 20–30°C) and pH 4–10 (optimum: pH 7–8). The
cells tolerated less than 5% NaCl and had low resistance to
gamma radiation (D10 < 4 kGy). Strain 16F1ET possessed the
following chemotaxonomic characteristics: C16:0, C15:1 ω6c,
and C16:1 ω7c as the major fatty acids; phosphoglycolipid as
the predominant polar lipid; and menaquinone-8 as the predominant
respiratory isoprenoid quinone. Based on the polyphasic
evidence, as well as the phylogenetic, genotypic, phenotypic,
and chemotaxonomic characterization results, strain
16F1ET (=KCTC 33793T =JCM 31404T) is proposed to represent
the type strain of a novel species, Deinococcus seoulensis
sp. nov.
-
Citations
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Scientific Reports.2026;[Epub] CrossRef - Insights into the radiation and oxidative stress mechanisms in genus Deinococcus
Nirjara Singhvi, Chandni Talwar, Shekhar Nagar, Helianthous Verma, Jasvinder Kaur, Nitish Kumar Mahato, Nabeel Ahmad, Krishnendu Mondal, Vipin Gupta, Rup Lal
Computational Biology and Chemistry.2024; 112: 108161. CrossRef -
Complete Genome Sequence of Deinococcus aquaticus Type Strain PB314, a Non-Extremophile Representative of the Genus
Deinococcus
Chad Albert, Jonathan Hill, Leilani Boren, Stacy Scholz-Ng, Nahid Fatema, Ryan Grosso, Erica Soboslay, James Tuohy, David A. Baltrus
Microbiology Resource Announcements.2023;[Epub] CrossRef -
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Seokhyeon Bae, Heeyoung Kang, Haneul Kim, Kiseong Joh
International Journal of Systematic and Evolutionary Microbiology
.2022;[Epub] CrossRef - Deinococcus taeanensis sp. nov., a Radiation-Resistant Bacterium Isolated from a Coastal Dune
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Frontiers in Microbiology.2020;[Epub] CrossRef -
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Xin-Peng Wang, Chang-Ming Li, Yong Yu, Hui-Rong Li, Zong-Jun Du, Da-shuai Mu
International Journal of Systematic and Evolutionary Microbiology
.2019; 69(11): 3437. CrossRef - Specific Members of the Gut Microbiota are Reliable Biomarkers of Irradiation Intensity and Lethality in Large Animal Models of Human Health
Franck Carbonero, Alba Mayta, Mathilde Bolea, Jiang-Zhou Yu, Matt Lindeblad, Alex Lyubimov, Flavia Neri, Erzsebet Szilagyi, Brett Smith, Lisa Halliday, Amelia Bartholomew
Radiation Research.2018; 191(1): 107. CrossRef - Deinococcus rufus sp. nov., isolated from soil near an iron factory
Qian Wang, Yali Song, Lina Choi, Hongyu Liu, Gejiao Wang, Mingshun Li
International Journal of Systematic and Evolutionary Microbiology.2018; 68(5): 1622. CrossRef - Deinococcus knuensis sp. nov., a bacterium isolated from river water
Jae-Jin Lee, Yeon-Hee Lee, Su-Jin Park, Seung-Yeol Lee, Sangkyu Park, Dae Sung Lee, In-Kyu Kang, Leonid N. Ten, Hee-Young Jung
Antonie van Leeuwenhoek.2017; 110(3): 407. CrossRef - List of new names and new combinations previously effectively, but not validly, published
Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology
.2016; 66(11): 4299. CrossRef
- Hymenobacter sedentarius sp. nov., isolated from a soil
-
Jae-Jin Lee , Myung-Suk Kang , Eun Sun Joo , Hee-Young Jung , Myung Kyum Kim
-
J. Microbiol. 2016;54(4):283-289. Published online April 1, 2016
-
DOI: https://doi.org/10.1007/s12275-016-5386-3
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1,187
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A novel Gram-negative and red-pinkish bacterium designated
DG5BT was isolated from a dry soil. Cells were rods that were
catalase- and oxidase-positive, and non-motile. The strain was
found to grow at temperatures from 10 to 30°C (optimum
25°C) and pH 6.0–8.0, (optimum pH 7) on R2A broth. 16S
rRNA gene sequence (1,452 bp) analysis of this strain identified
it as a member of the genus Hymenobacter that belongs
to the class Cytophagia. The highest gene sequence similarities
were with Hymenobacter arizonensis OR362-8T (98.3%),
Hymenobacter humi DG31AT (97.6%), and Hymenobacter
glaciei VUG-A130T (96.6%). Strain DG5BT exhibited <70%
DNA-DNA relatedness with H. arizonensis (34.7 ± 7.0%; reciprocally,
29.7 ± 1.2%) and H. humi (39.4 ± 4.3%; reciprocally,
39.5 ± 3.3%) as a different genomic species, and its
genomic DNA G+C content was 59.8%. Strain DG5BT had the
following chemotaxonomic characteristics: the major fatty
acids are iso-C15:0, anteiso-C15:0, C16:1 ω5c, and summed feature
3 (C16:1 ω7c / C16:1 ω6c); polar lipid profile contained phosphatidylethanolamine
(PE), unknown aminophospholipid
(APL), unknown glycolipids (GL), unknown phospholipids
(PL), and unknown polar lipids (L); the major quinone is MK-
7. The absorbance peak of pigment is at 481.0 nm. Strain
DG5BT showed low-level resistance to gamma-ray irradiation.
Phenotypic, chemotaxonomic, and genotypic properties
indicated that isolate DG5BT represents a novel species
within the genus Hymenobacter for which the name Hymenobacter
sedentarius sp. nov. is proposed. The type strain is
DG5BT (=KCTC 32524T =JCM 19636T).
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Citations
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Seona Park, M. K. Kim, S. Srinivasan
Antonie van Leeuwenhoek.2026;[Epub] CrossRef -
Hymenobacter canadensis sp. nov., isolated from freshwater of the pond in Cambridge Bay, Canada
Woohyun Kim, Seonghan Jang, Namyi Chae, Mincheol Kim, Jung-Yong Yeh, Sanghee Kim, Yung Mi Lee
International Journal of Systematic and Evolutionary Microbiology
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International Journal of Systematic and Evolutionary Microbiology
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Minji Bang, Sathiyaraj Srinivasan, Gayathri Sathiyaraj
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Marina García-López, Jan P. Meier-Kolthoff, Brian J. Tindall, Sabine Gronow, Tanja Woyke, Nikos C. Kyrpides, Richard L. Hahnke, Markus Göker
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Myung Kyum Kim, Myung-Suk Kang, Sathiyaraj Srinivasan, Do Hee Lee, Seung-Yeol Lee, Hee-Young Jung
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Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology
.2016; 66(11): 4299. CrossRef
- Spirosoma pulveris sp. nov., a bacterium isolated from a dust sample collected at Chungnam province, South Korea
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Eun Sun Joo , Jae-Jin Lee , Seho Cha , Weonhwa Jheong , Taegun Seo , Sangyong Lim , Sun-wook Jeong , Sathiyaraj Srinivasan
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J. Microbiol. 2015;53(11):750-755. Published online October 28, 2015
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DOI: https://doi.org/10.1007/s12275-015-5263-5
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911
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Strain JSH 5-14T, a Gram-negative, non-motile, and curved
rod-shaped bacterium, was isolated from a dust sample collected
at Nonsan, Chungnam province, South Korea, and
was characterized to determine its taxonomic position. Phylogenetic
analysis based on the 16S rRNA gene sequence of
strain JSH 5-14T revealed that it belongs to the genus Spirosoma,
family Cytophagaceae, class Cytophagia. The highest
degree of sequence similarities of strain JSH 5-14T were found
with Spirosoma liguale DSM 74T (97.8%) and Spirosoma endophyticum
EX 36T (96.2%). The predominant fatty acids were
summed feature 3 (composed of C16:1 ω7c/C16:1 ω6c) and
C16:1ω5c. The major polar lipid was phosphatidylethanolamine,
and the predominant respiratory quinone was MK-7.
Based on the phylogenetic, chemotaxonomic, and phenotypic
data, we propose the strain JSH 5-14T (=KCTC 42550T =JCM
30688T =KEMB 9004-165T) should be classified as a type
strain of a novel species, for which the name Spirosoma pulveris
sp. nov., is proposed.
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Citations
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Microbiology and Biotechnology Letters.2024; 52(2): 208. CrossRef -
Spirosoma oryzicola sp. nov., isolated from dried rice husk
Miyoung Won, Jun Heo, Hang-Yeon Weon, Daseul Lee, Byeong-Hak Han, Seung-Beom Hong, Soon-Wo Kwon
International Journal of Systematic and Evolutionary Microbiology
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Spirosoma rhododendri sp. nov., isolated from a flower of royal azalea (Rhododendron schlippenbachii)
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International Journal of Systematic and Evolutionary Microbiology
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Spirosoma telluris sp. nov. and Spirosoma arboris sp. nov. isolated from soil and tree bark, respectively
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Complete Genome Sequence of
Spirosoma
sp. Strain KCTC 42546, Isolated from a Reservoir in South Korea
Pokchut Kusolkumbot, Song-Gun Kim, Chatrudee Suwannachart, Kenneth M. Stedman
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International Journal of Systematic and Evolutionary Microbiology
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- Spirosoma montaniterrae sp. nov., an ultraviolet and gamma radiation-resistant bacterium isolated from mountain soil
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Jae-Jin Lee , Myung-Suk Kang , Eun Sun Joo , Myung Kyum Kim , Wan-Taek Im , Hee-Young Jung , Sathiyaraj Srinivasan
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J. Microbiol. 2015;53(7):429-434. Published online June 27, 2015
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DOI: https://doi.org/10.1007/s12275-015-5008-5
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1,053
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21
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Abstract
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A Gram-negative, yellow-pigmented, long-rod shaped bacterial
strain designated DY10T was isolated from a soil sample
collected at Mt. Deogyusan, Jeonbuk province, South Korea.
Optimum growth observed at 30°C and pH 7. No growth was
observed above 1% (w/v) NaCl. Comparative 16S rRNA gene
sequence analysis showed that strain DY10T belonged to the
genus Spirosoma and was distantly related to Spirosoma arcticum
R2-35T (91.0%), Spirosoma lingual DSM 74T (90.8%),
Spirosoma endophyticum EX36T (90.7%), Spirosoma panaciterrae
DSM 21099T (90.5%), Spirosoma rigui WPCB118T
(90.2%), Spirosoma spitsbergense DSM 19989T (89.8%), Spirosoma
luteum DSM 19990T (89.6%), Spirosoma oryzae RHs22T
(89.6%), and Spirosoma radiotolerans DG5AT (89.1%). Strain
DY10T showed resistance to gamma and ultraviolet radiation.
The chemotaxonomic characteristics of strain DY10T were
consistent with those of the genus Spirosoma, with the quinone
system with MK-7 as the predominant menaquinone,
iso-C15:0, C16:1 ω5c, and summed feature3 (C16:1 ω7c/C16:1 ω6c),
and phosphatidylethanolamine as the major polar lipid. The
G+C content of the genomic DNA was 53.0 mol%. Differential
phenotypic properties with the closely related type
strains clearly distinguished strain DY10T from previously
described members of the genus Spirosoma and represents
a novel species in this genus, for which the name Spirosoma
montaniterrae sp. nov. is proposed. The type strain is DY10T
(=KCTC 23999T =KEMB 9004-162T =JCM 18492T).
-
Citations
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Microbiology and Biotechnology Letters.2024; 52(2): 208. CrossRef - Characterization of radiation-resistance mechanism in Spirosoma montaniterrae DY10T in terms of transcriptional regulatory system
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Ideonella oryzae sp. nov., isolated from soil, and Spirosoma liriopis sp. nov., isolated from fruits of Liriope platyphylla
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International Journal of Systematic and Evolutionary Microbiology
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Seon Hwa Jeon, Myung-Suk Kang, Eun Sun Joo, Eun Bit Kim, Sangyong Lim, Sun-wook Jeong, Hee-Young Jung, Sathiyaraj Srinivasan, Myung Kyum Kim
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- Paenibacillus swuensis sp. nov., a Bacterium Isolated from Soil
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Jae-Jin Lee , Da-Hye Yang , Ye-Sil Ko , Jae-Kyoung Park , Eun-Young Im , Ju-Yeon Kim , Ka-Young Kwon , Yu-Jung Lee , Hyung-Mi Kim , Myung Kyum Kim
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J. Microbiol. 2014;52(2):106-110. Published online February 1, 2014
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DOI: https://doi.org/10.1007/s12275-014-3546-x
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994
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6
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Abstract
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Strain DY6T, a Gram-positive endospore-forming motile rodshaped bacterium, was isolated from soil in South Korea and characterized to determine its taxonomic position. Phylogenetic analyses based on the 16S rRNA gene sequence of strain DY6T revealed that strain DY6T belongs to the genus Paenibacillus in the family Paenibacillaceae in the class Bacilli. The highest degree of sequence similarities of strain DY6T were found with Paenibacillus gansuensis B518T (97.9%), P. chitinolyticus IFO 15660T (95.3%), P. chinjuensis WN9T (94.7%), and P. rigui WPCB173T (94.7%). Chemotaxonomic data revealed that the predominant fatty acids were anteiso-C15:0 (38.7%) and C16:0 (18.0%). A complex polar lipid profile consisted of major amounts of diphosphatidylglycerol, phosphatidylethanolamine, and phosphatidylglycerol. The predominant respiratory quinone was MK-7. Based on these phylogenetic, chemotaxonomic, and phenotypic data, strain DY6T (=KCTC 33026T =JCM 18491T) should be classified as a type strain of a novel species, for which the name Paenibacillus swuensis sp. nov. is proposed.
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Citations
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- Deinococcus swuensis sp. nov., a Gamma-Radiation-Resistant Bacterium Isolated from Soil
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Jae-Jin Lee , Hyun Ji Lee , Gi Seon Jang , Ja Myoung Yu , Ji Yoon Cha , Su Jeong Kim , Eun Bit Lee , Myung Kyum Kim
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J. Microbiol. 2013;51(3):305-311. Published online June 28, 2013
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DOI: https://doi.org/10.1007/s12275-013-3023-y
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1,071
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Strain DY59T, a Gram-positive non-motile bacterium, was isolated from soil in South Korea, and was characterized to determine its taxonomic position. Phylogenetic analysis based on the 16S rRNA gene sequence of strain DY59T revealed that the strain DY59T belonged to the family Deinococcaceae in the class Deinococci. The highest degree of sequence similarities of strain DY59T were found with Deinococcus radiopugnans KACC 11999T (99.0%), Deinococcus marmoris KACC 12218T (97.9%), Deinococcus saxicola KACC 12240T (97.0%), Deinococcus aerolatus KACC 12745T (96.2%), and Deinococcus frigens KACC 12220T (96.1%). Chemotaxonomic data revealed that the predominant fatty acids were iso-C15:0 (19.0%), C16:1 ω7c (17.7%), C15:1 ω6c (12.6%), iso-C17:0 (10.3%), and iso-C17:1 ω9c (10.3%). A complex polar lipid profile consisted of a major unknown phosphoglycolipid. The predominant respiratory quinone is MK-8. The cell wall peptidoglycan contained D-alanine, L-glutamic acid, glycine, and L-ornithine (di-amino acid). The novel strain showed resistance to gamma radiation, with a D10 value (i.e. the dose required to reduce the bacterial population by 10-fold) in excess of 5 kGy. Based on the phylogenetic, chemotaxonomic, and phenotypic data, strain DY59T (=KCTC 33033T =JCM 18581T) should be classified as a type strain of a novel species, for which the name Deinococcus swuensis sp. nov. is proposed.
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Citations
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A. Oren, G. M. Garrity
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Myung Kyum Kim, Sathiyaraj Srinivasan, Chang-Gi Back, Eun Sun Joo, Seung-Yeol Lee, Hee-Young Jung
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Gundlapally Sathyanarayana Reddy, Ferran Garcia-Pichel
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Jae-Jin Lee, Da-Hye Yang, Ye-Sil Ko, Jae-Kyoung Park, Eun-Young Im, Ju-Yeon Kim, Ka-Young Kwon, Yu-Jung Lee, Hyung-Mi Kim, Myung Kyum Kim
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Deinococcus citri sp. nov., isolated from citrus leaf canker lesions
Iftikhar Ahmed, Saira Abbas, Takuji Kudo, Muhammad Iqbal, Toru Fujiwara, Moriya Ohkuma
International Journal of Systematic and Evolutionary Microbiology
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- Microlunatus terrae sp. nov., a Bacterium Isolated from Soil
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Jae-Jin Lee , Myung Kyum Kim
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J. Microbiol. 2012;50(3):547-552. Published online June 30, 2012
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DOI: https://doi.org/10.1007/s12275-012-1623-6
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Strain BS6T, a Gram-positive non-motile bacterium, was isolated from soil in South Korea and characterized to determine its taxonomic position. Phylogenetic analyses based on the 16S rRNA gene sequence revealed that strain BS6T belonged to the family Propionibacteriaceae in the class Actinobacteria. Strain BS6T showed the highest 16S rRNA gene sequence similarity with Microlunatus soli CC-012602T (98.6%) and high sequence similarities with Microlunatus species (94.5–98.6%). Chemotaxonomic data revealed that the predominant fatty acids were anteiso-C17:0, anteiso-C15:0, summed feature 8 (C18:1 ω7c/ω6c), and iso-C16:0. The cell wall peptidoglycan contained LL-diaminopimelic acid, and the major polar lipids were diphosphatidylglycerol, and phosphatidylglycerol. Based on these data, BS6T (=KCTC 19858T =JCM 17661T =CCARM 9244T =KEMC 9004-079T) should be classified as a type strain of a novel species, for which the name Microlunatus terrae sp. nov. is proposed.
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Yuan-Guo Xie, Bao-Zhu Fang, Ming-Xian Han, Lan Liu, Jian-Yu Jiao, Xiao-Tong Zhang, Min Xiao, Wen-Jun Li
Antonie van Leeuwenhoek.2020; 113(1): 117. CrossRef - Microlunatus endophyticus sp. nov., an endophytic actinobacterium isolated from bark of Bruguiera sexangula
Li Tuo, Jing Li, Shao-Wei Liu, Yang Liu, Lin Hu, Li Chen, Ming-Guo Jiang, Cheng-Hang Sun
International Journal of Systematic and Evolutionary Microbiology.2016; 66(1): 481. CrossRef - Friedmanniella endophytica sp. nov., an endophytic actinobacterium isolated from bark of Kandelia candel
Li Tuo, Zhen Pan, Fei-Na Li, Inchio Lou, Min Guo, Simon Ming-Yuen Lee, Li Chen, Lin Hu, Cheng-Hang Sun
International Journal of Systematic and Evolutionary Microbiology.2016; 66(8): 3057. CrossRef
- Pigmentiphaga soli sp. nov., a Bacterium Isolated from Soil
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Jae-Jin Lee , Sathiyaraj Srinivasan , Myung Kyum Kim
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J. Microbiol. 2011;49(5):857-861. Published online November 9, 2011
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DOI: https://doi.org/10.1007/s12275-011-1375-8
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715
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11
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Strain BS12T, a Gram-negative motile bacterium, was isolated from soil in South Korea and characterized to determine its taxonomic position. Phylogenetic analyses based on the 16S rRNA gene sequence revealed that the strain belonged to the family Alcaligenaceae in the class Betaproteobacteria. The highest degree of sequence similarities of strain BS12T were found with Pigmentiphaga litoralis JSM 061001T (98.3%), Pigmentiphaga daeguensis K110T (98.2%), and Pigmentiphaga kullae K24T (98.1%). Chemotaxonomic data revealed that strain BS12T possessed ubiquinone-8, which is common in the family Alcaligenaceae, and the predominant fatty acids were C16:0, C17:0 cyclo, summed feature 3 (C16:1 ω6c/ω7c), and summed feature 8 (C18:1 ω6c/ω7c). The major polar lipids of strain BS12T were phosphatidylethanolamine and phosphatidylglycerol. Based on these data, BS12T (=KCTC 23577T =JCM 17666T =KEMB 9004-082T) should be classified as a type strain of a novel species, for which the name Pigmentiphaga soli sp. nov. is proposed.
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Hui Huang, Hao Wu, Minbo Qi, Haixia Wang, Zhenmei Lu, Victor Gonzalez, Reid Simmer
Microbiology Spectrum.2023;[Epub] CrossRef - Bacterial Diversity in a Sri Lankan Geothermal Spring Assessed by Culture-Dependent and Culture-Independent Approaches
Supun N. Samarasinghe, Rasika P. Wanigatunge, Dhammika N. Magana-Arachchi
Current Microbiology.2021; 78(9): 3439. CrossRef - A rare case of tympanostomy tube otorrhea: Pigmentiphaga
Samuel J. Rubin, Claire M. Lawlor, Gi Soo Lee
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PLOS ONE.2019; 14(10): e0223747. CrossRef -
Pigmentiphaga humi sp. nov., isolated from soil amended with humic acid
Peter Kämpfer, Hans-Jürgen Busse, Alexis Criscuolo, Chantal Bizet, Dominique Clermont, John A. McInroy, Stefanie P. Glaeser
International Journal of Systematic and Evolutionary Microbiology
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Tamás Felföldi, Róbert Dezső Fikó, Anikó Mentes, Erika Kovács, István Máthé, Peter Schumann, Erika Tóth
International Journal of Systematic and Evolutionary Microbiology.2017; 67(11): 4742. CrossRef -
Draft Whole-Genome Sequences for Two
Pigmentiphaga
Isolates Recovered from Human Clinical Materials
Anne-Marie Bernier, Kathryn Bernard
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Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology
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Natalie Bridger, Steven Drews, Tamara Burdz, Deborah Wiebe, Ana Luisa Pacheco, Betty Ng, Kathryn Bernard
Journal of Medical Microbiology
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Expedito K. A. Camboim, Arthur P. Almeida, Michelle Z. Tadra-Sfeir, Felício G. Junior, Paulo P. Andrade, Chris S. McSweeney, Marcia A. Melo, Franklin Riet-Correa
The Scientific World Journal.2012; 2012: 1. CrossRef
- Sphingomonas rosea sp. nov. and Sphingomonas swuensis sp. nov., Rosy Colored β-Glucosidase-Producing Bacteria Isolated from Soil
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Sathiyaraj Srinivasan , Jae-Jin Lee , Myung Kyum Kim
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J. Microbiol. 2011;49(4):610-616. Published online September 2, 2011
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DOI: https://doi.org/10.1007/s12275-011-1017-1
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821
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Abstract
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Two strains PB196T and PB62T of Gram-negative, non-motile, and non-spore-forming bacteria, were isolated
from soil in South Korea and characterized to determine their taxonomic positions. 16S rRNA gene sequence
analysis showed that the two strains belonged to the genus Sphingomonas. The highest degree of sequence
similarity of strain PB196T was found with PB62T (98.9%), Sphingomonas humi PB323T (98.9%), Sphingomonas
kaistensis PB56T (98.2%), and Sphingomonas astaxanthinifaciens TDMA-17T (98.0%). The highest degree
of sequence similarity of strain PB62T was found with Sphingomonas humi PB323T (98.8%), Sphingomonas
astaxanthinifaciens TDMA-17T (98.2%), and Sphingomonas kaistensis PB56T (98.1%). Chemotaxonomic data
revealed that they possessed ubiquinone-10 (Q-10) as common in the genus Sphingomonas, that the predominant
fatty acids were summed feature 7 (C18:1ω7c/ω9t/ω12t), summed feature 4 (C16:1ω7c/C15:0 iso 2OH),
C16:0, and C17:1ω6c, and that they contained sphingoglycolipid, phosphatidylglycerol (PG), and phosphatidylethanolamine
(PE) in common but they showed difference for diphosphatidylglycerol (DPG). Based on these
data, PB196T (=KCTC 12339T =JCM 16604T) and PB62T (=KCTC 12336T =JCM 16605T =KEMB 9004-005T)
should be classified as type strains of two novel species, for which the names Sphingomonas rosea sp. nov.
and Sphingomonas swuensis sp. nov. are proposed, respectively.
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