Brevibacterium jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3430-3436 ◽  
Author(s):  
Eun Jin Choi ◽  
Se Hee Lee ◽  
Ji Young Jung ◽  
Che Ok Jeon
Keyword(s):  
Type Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph ◽  
Diamino Acid ◽  
Type Strains

A Gram-staining-positive, aerobic, non-motile bacterium, designated strain SJ5-8T, was isolated from seau-jeot (shrimp jeotgal), a traditional fermented seafood in South Korea. Cells were non-spore-forming rods showing catalase- and oxidase-positive reactions. Growth of strain SJ5-8T was observed at 10–37 °C (optimum, 30 °C), at pH 6.0–9.0 (optimum, pH 7.5–8.5) and in the presence of 0–14 % (w/v) NaCl (optimum, 5 %). Phylogenetic inference based on 16S rRNA gene sequences showed that the strain formed a tight phyletic lineage with members of the genus Brevibacterium . Strain SJ5-8T was most closely related to Brevibacterium yomogidense MN-6-aT, Brevibacterium daeguense 2C6-41T and Brevibacterium salitolerans TRM 415T with similarities of 98.9, 97.5 and 97.4 %, respectively. The DNA–DNA relatedness values between strain SJ5-8T and the type strains of B. yomogidense , B. daeguense and B. salitolerans were 51.7±1.9 %, 22.2±4.0 % and 52.4±3.8 %, respectively. Chemotaxonomic data (major sole isoprenoid quinone, MK-8(H2); major diagnostic diamino acid, meso-diaminopimelic acid; major polyamines, putrescine and cadaverine; major cellular fatty acids, anteiso-C15:0, iso-C15:0 and anteiso-C17:0; major polar lipids, phosphatidylglycerol and diphosphatidylglycerol; DNA G+C content, 69.3 mol%) also supported the affiliation of strain SJ5-8T to the genus Brevibacterium . Therefore, strain SJ5-8T represents a novel species of the genus Brevibacterium , for which the name Brevibacterium jeotgali sp. nov. is proposed. The type strain is SJ5-8T ( = KACC 16911T = JCM 18571T).

scholarly journals Salimicrobium jeotgali sp. nov., isolated from salted, fermented seafood

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3624-3630 ◽  
Author(s):  
Eun Jin Choi ◽  
Hyun Mi Jin ◽  
Kyung Hyun Kim ◽  
Che Ok Jeon
Keyword(s):  
Type Species ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Cellular Fatty Acids ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph

A Gram-staining-positive, aerobic, motile bacterium, designated strain MJ3T, was isolated from myeolchi-jeot (anchovy jeotgal), a traditional fermented seafood in South Korea. Cells were non-endospore-forming cocci showing catalase- and oxidase-positive reactions. Growth of strain MJ3T was observed at 15–45 °C (optimum, 30 °C), at pH 6.0–9.0 (optimum, pH 7.0–8.0) and in the presence of 1–24 % (w/v) NaCl (optimum, 10 % NaCl). Phylogenetic inference based on 16S rRNA gene sequences showed that strain MJ3T formed a tight phyletic lineage with members of the genus Salimicrobium . Strain MJ3T was related most closely to Salimicrobium salexigens 29CMIT, Salimicrobium album DSM 20748T, Salimicrobium flavidum ISL-25T, Salimicrobium luteum BY-5T and Salimicrobium halophilum DSM 4771T, with similarities of 98.8 %, 98.7 %, 98.6 %, 98.4 % and 98.3 %, respectively. However, the DNA–DNA relatedness values between strain MJ3T (KF732837) and S. salexigens DSM 22782T, S. album DSM 20748T, S. flavidum DSM 23127T, S. luteum KCTC 3989T and S. halophilum JCM 12305T were 60±5.4 %, 58.5±6.5 %, 43.6±5.5 %, 37.2±5.8 % and 16.7±0.2 %, respectively. Chemotaxonomic data (sole isoprenoid quinone, MK-7; major cell-wall type, meso-diaminopimelic acid; major cellular fatty acids, anteiso-C15 : 0, anteiso-C17 : 0 and iso-C15 : 0; major polar lipids, phosphatidylglycerol and diphosphatidylglycerol; DNA G+C content, 46.3 mol%) also supported the affiliation of strain MJ3T with the genus Salimicrobium . Therefore, strain MJ3T represents a novel species of the genus Salimicrobium , for which the name Salimicrobium jeotgali sp. nov. is proposed. The type strain is MJ3T ( = KACC 16972T = JCM 19758T).

scholarly journals Marmoricola caldifontis sp. nov., a novel actinobacterium isolated from a hot spring

2020 ◽  
Vol 70 (3) ◽  
pp. 2053-2058 ◽  
Author(s):  
Neeli Habib ◽  
Inam Ullah Khan ◽  
Min Xiao ◽  
Shuai Li ◽  
Muhammad Saqib ◽  
...  
Keyword(s):  
Type Species ◽  
Hot Spring ◽  
Draft Genome ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Diamino Acid ◽  
Type Strains

A Gram-staining-positive, aerobic, non-motile, non-spore-forming and coccoid-shaped actinobacterial strain, designated YIM 730233T, was isolated from a sediment sample, collected from a hot spring in Tibet, China. Colonies were brownish, circular, smooth and convex. Strain YIM 730233T was able to grow in the temperature range of 20–50 °C, pH 6.5–8.0 and in the presence of up to 1.0 % (w/v) NaCl. A comparison of the 16S rRNA gene sequence of strain YIM 730233T with sequences of type strains of most closely related species of Marmoricola showed highest sequence similarities to Marmoricola bigeumensis MSL-05T (98.3%) and Marmoricola pocheonensis Gsoil 818T (98.1%). The draft genome of strain YIM 730233T had a size of 4 806 234 bp with a DNA G+C content of 72.1 mol%. The major fatty acids (>10 %) of strain YIM 730233T mainly consisted of iso-C16 : 0, anteiso-C17 : 0 and C18 : 1 ω9c, typical of the genus Marmoricola . Strain YIM 730233T had LL-2,6-diaminopimelic acid as the diagnostic diamino acid in the cell wall. The predominant isoprenoid quinone was MK-8(H4). The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, unidentified phospholipids and an unidentified lipid. DNA–DNA hybridizations between strain YIM 730233T and type strains of Marmoricola bigeumensis MSL-05T and Marmoricola pocheonensis Gsoil 818T resulted in similarity values of 21 and 19% respectively. Based on DNA–DNA hybridization results, together with the differentiating biochemical and chemotaxonomic features, showed that strain YIM 730233T represents a novel Marmoricola species, for which the name Marmoricola caldifontis sp. nov. (type strain YIM 730233T=KCTC 49192T=CGMCC 4.7521T), is proposed.

scholarly journals Brachybacterium ginsengisoli sp. nov., isolated from soil of a ginseng field

2014 ◽  
Vol 64 (Pt_9) ◽  
pp. 3063-3068 ◽  
Author(s):  
Van-An Hoang ◽  
Yeon-Ju Kim ◽  
Ngoc-Lan Nguyen ◽  
Deok-Chun Yang
Keyword(s):  
Type Species ◽  
Diaminopimelic Acid ◽  
Penicillin G ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Diamino Acid ◽  
The Republic

A novel Gram-staining-positive, aerobic bacterium, designed DCY80T, was isolated from soil of a ginseng field in the Republic of Korea. 16S rRNA gene sequence analysis revealed that strain DCY80T belonged to the genus Brachybacterium (95.8–98.2 % similarity) and was most closely related to Brachybacterium faecium DSM 4810T (98.2 %). Colonies were circular, entire, low-convex, opaque and 0.5–1.0 mm in diameter after growth for 2 days on TSA at 30 °C. Growth occurred at 4–34 °C (optimum, 25 °C), at pH 5.0–10.0 (optimum, pH 6.5–7.0) and in the presence of 0–7.0 % NaCl. Strain DCY80T produced siderophores and was sensitive to penicillin G, erythromycin, cefazolin, oleandomycin, ceftazidime, vancomycin, tetracycline, novobiocin, carbamicillin, rifampicin and neomycin. The DNA G+C content was 71.0 mol%. Levels of DNA–DNA relatedness between strain DCY80T and B. faecium DSM 4810T, B. paraconglomeratum KCTC 9916T, B. saurashtrense DSM 23186T and B. conglomeratum KCTC 9915T were 46.9±0.5, 28.9±0.6, 20.4±0.9 and 17.3±0.4 %, respectively. The cell-wall peptidoglycan of strain DCY80T contained meso-diaminopimelic acid as the diagnostic diamino acid. The menaquinones were MK-7 (85.8 %) and MK-8 (14.2 %). The major cellular fatty acids were anteiso-C15 : 0 (69.1 %) and anteiso-C17 : 0 (12.2 %). Phosphatidylglycerol, diphosphatidylglycerol, an unidentified glycolipid, two unidentified phospholipids and five unidentified polar lipids were found. On the basis of our phenotypic and genotypic analyses, strain DCY80T represents a novel species of the genus Brachybacterium , for which the name Brachybacterium ginsengisoli sp. nov. is proposed (type strain DCY80T = KCTC 29226T = JCM 19356T).

Terriglobus tenax sp. nov., an exopolysaccharide-producing acidobacterium isolated from rhizosphere soil of a medicinal plant

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 431-437 ◽  
Author(s):  
Kyung-Sook Whang ◽  
Jae-Chan Lee ◽  
Hae-Ran Lee ◽  
Song-Ih Han ◽  
Sang-Ho Chung
Keyword(s):  
Type Species ◽  
Rhizosphere Soil ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph ◽  
Type Strains

An exopolysaccharide-producing bacterium, designated strain DRP 35T, was isolated from the rhizosphere soil of a medicinal herb, Angelica sinensis, at Geumsan in Korea. Cells were Gram-staining-negative, non-motile, catalase-positive and oxidase-negative short rods. The isolate grew aerobically from 15 to 45 °C (optimum 30 °C), pH 3.5–7.0 (optimum pH 5.0) and in the presence of 0–1.0 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain DRP 35T belongs to the genus Terriglobus in the phylum Acidobacteria with a sequence similarity of 97.2 % and 97.0 % to Terriglobus saanensis SP1PR4T and Terriglobus roseus KBS63T, respectively. The genomic DNA G+C content was 62.1 mol%. DNA–DNA relatedness between strain DRP 35T and the type strains of the other species of the genus Terriglobus , T. saanensis SP1PR4T and T. roseus KBS63T, were 24.6 and 17.2 %, respectively. The predominant menaquinone was MK-8. Major fatty acids were iso-C15 : 0, C16 : 1ω7c and C16 : 0. The polar lipids were phosphatidylethanolamine, unidentified aminophospholipid and unknown phospholipids. On the basis of polyphasic analysis from this study, strain DRP 35T represents a novel species of the genus Terriglobus for which the name Terriglobus tenax sp. nov. is proposed. The type strain is DRP 35T ( = KACC 16474T = NBRC 109677T).

Halomonas beimenensis sp. nov., isolated from an abandoned saltern

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 3013-3017 ◽  
Author(s):  
Chung-Yi Wang ◽  
Sz-Jie Wu ◽  
Chang-Chai Ng ◽  
Wen-Sheng Tzeng ◽  
Yuan-Tay Shyu
Keyword(s):  
Type Species ◽  
Halophilic Bacterium ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph ◽  
Southern Taiwan ◽  
Type Strains

A Gram-staining negative, motile, non-spore-forming, short rod-shaped (0.8–1.5×1.5–2.0 µm), halophilic bacterium, designated strain NTU-107T, was isolated from brine samples collected from the abandoned Beimen saltern in southern Taiwan. The novel strain grew with 0–15 % (w/v) NaCl (optimum between 5 % and 10 %), at 15–55 °C (optimum 40 °C) and at pH 5.5–9.5 (optimum pH 7.5). The major cellular fatty acids were C18 : 1ω7c, C16 : 0 and C19 : 0 cyclo ω8c, the genomic DNA G+C content was 66.5 mol%, and the predominant ubiquinone was Q-9. The major polar lipids included phosphatidylglycerol, diphosphatidylglycerol and phosphatidylethanolamine. In a phylogenetic analysis based on 16S rRNA gene sequences, strain NTU-107T clustered with members of the genus Halomonas . In hybridization experiments, however, the levels of DNA–DNA relatedness between strain NTU-107T and the type strains of its closest phylogenetic neighbours ( Halomonas koreensis , H. organivorans and H. ventosae ) were all found to be less than 40 %. Based on the phenotypic, chemotaxonomic and genetic data, strain NTU-107T represents a novel species within the genus Halomonas , for which the name Halomonas beimenensis sp. nov. is proposed. The type strain is NTU-107T ( = BCRC 17999T = KCTC 22876T = JCM 16084T).

Bacillus panacisoli sp. nov., isolated from ginseng soil

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 901-906 ◽  
Author(s):  
Jung-Hye Choi ◽  
Chang-Jun Cha
Keyword(s):  
Type Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Bacillus Lentus ◽  
Link Type ◽  
Gram Staining ◽  
Ginseng Soil ◽  
Diamino Acid

A Gram-staining-positive, motile, facultatively anaerobic, endospore-forming and rod-shaped bacterium, designated strain CJ32T, was isolated from ginseng soil at Geumsan in Korea. The isolate grew optimally at 30 °C, 2 % (w/v) NaCl and pH 7.0. Colonies of strain CJ32T were beige and circular with an entire margin on LB agar plates. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain CJ32T was associated with the genus Bacillus and was most closely related to Bacillus graminis YC6957T (97.3 % similarity) and Bacillus lentus IAM 12466T (97.1 %). DNA–DNA hybridization with closely related strains was below 31.3 %. The major respiratory isoprenoid quinone was MK-7. The diagnostic diamino acid in the cell-wall peptidoglycan was meso-diaminopimelic acid. The polar lipid profile of strain CJ32T consisted of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and several unidentified lipids, including phospholipids, aminolipids and aminophospholipids. The predominant fatty acids of strain CJ32T were iso-C15 : 0 and anteiso-C15 : 0. The G+C content of the genomic DNA was 35.1 mol%. Based on phenotypic, genotypic and phylogenetic data, strain CJ32T should be classified within a novel species of the genus Bacillus , for which the name Bacillus panacisoli sp. nov. is proposed. The type strain is strain CJ32T ( = KACC 17503T = JCM 19226T).

scholarly journals Nocardioides daecheongensis sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4109-4114 ◽  
Author(s):  
Jun-Muk Lim ◽  
Soo-Jin Kim ◽  
Moriyuki Hamada ◽  
Jae-Hyung Ahn ◽  
Hang-Yeon Weon ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Closely Related Species ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Type Strains

Strain KIS2-16T was isolated from a soil sample collected from Daecheong Island of Incheon region, South Korea. KIS2-16T was Gram-staining-positive, aerobic, non-spore-forming, non-motile, catalase-positive, oxidase-negative and mesophilic. On the basis of 16S rRNA gene sequence analysis, strain KIS2-16T represented a member of the genus Nocardioides , being most closely related to the type strains of species of the genus Nocardioides , Nocardioides maradonensis RP-B30T (97.8 % sequence similarity) and Nocardioides ultimimeridianus RP-B26T (97.0 %). The fatty acid profile of KIS2-16T was dominated by C18 : 1ω9c, C17 : 1ω8c, C16 : 0, C18 : 0 10-methyl (TBSA), C16 : 0 2-OH and C17 : 0 2-OH. The major isoprenoid quinone was MK-8(H4), and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol. The peptidoglycan structure was A3γ-type with ll-diaminopimelic acid. The genomic DNA G+C content of KIS2-16T was 64.9 mol%. Strain KIS2-16T showed DNA–DNA hybridization values of less than 70 % with the closely related species of the genus Nocardioides . Based on phenotypic, genotypic and phylogenetic data, the isolate represents a novel species of the genus Nocardioides , for which the name Nocardioides daecheongensis sp. nov. (type strain KIS2-16T = DSM 27136T = KACC 17297T = NBRC 109597T) is proposed.

scholarly journals Bacillus mesonae sp. nov., isolated from the root of Mesona chinensis

2014 ◽  
Vol 64 (Pt_10) ◽  
pp. 3346-3352 ◽  
Author(s):  
Bo Liu ◽  
Guo-Hong Liu ◽  
Gui-Hing Hu ◽  
Mei-Chun Chen
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph

A Gram-stain-positive, short rod-shaped and motile, mildly halotolerant, endospore-forming bacterium, FJAT-13985T, was isolated from the internal tissues of Mesona chinensis root. Strain FJAT-13985T grew at 20–45 °C (optimum 30 °C) and pH 5.7–9.0 (optimum pH 7.0) and in the presence of 0–2 % (w/v) NaCl [optimum 1 % (w/v)]. The strain was catalase-positive and oxidase-negative. The cell wall of strain FJAT-13985T contained meso-diaminopimelic acid and the predominant isoprenoid quinone was MK-7 (97.4 %). The major fatty acids of the strain were anteiso-C15 : 0 (23.3 %) and iso-C15 : 0 (40.8 %). The DNA G+C content was 41.64 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain FJAT-13985T is a member of the genus Bacillus and is most closely related to Bacillus drentensis DSM 15600T (98.4 %), Bacillus vireti DSM 15602T (98.2 %) and Bacillus novalis DSM 15603T (98.3 %). DNA–DNA hybridization indicated that relatedness between strain FJAT-13985T and its closest relative, B. drentensis DSM 15600T, was 36.63 %. The phenotypic, chemotaxonomic and genotypic properties clearly indicate that strain FJAT-13985T represents a novel species of the genus Bacillus , for which the name Bacillus mesonae sp. nov. is proposed. The type strain is FJAT-13985T ( = DSM 25968T = CGMCC1.12238T).

scholarly journals Chitinophaga ginsengihumi sp. nov., isolated from soil of ginseng rhizosphere

2014 ◽  
Vol 64 (Pt_8) ◽  
pp. 2599-2604 ◽  
Author(s):  
Jae-Chan Lee ◽  
Kyung-Sook Whang
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Polyphasic Analysis ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph

A novel strain designated SR18T was isolated from the rhizosphere soil of a ginseng in Korea. Cells were Gram-staining-negative, motile by gliding, catalase-positive and oxidase-negative, non-spore-forming rods. The isolate grew aerobically at 15–45 °C (optimum 28 °C), pH 5.5–7.5 (optimum pH 7.0) and with 0–3.0 % (w/v) NaCl (optimum 1.5 % NaCl). Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain SR18T belongs to the genus Chitinophaga with sequence similarity of 97.2 % and 97.0 % to Chitinophaga japonensis 758T and Chitinophaga rupis CS5-B1T, respectively. Similarity to other species of the genus Chitinophaga was 92.8–95.5 %. The predominant menaquinone was MK-7. Major fatty acids were iso-C15 : 0 and C16 : 1ω5c. The polar lipids included phosphatidylethanolamine, unidentified phospholipids, unknown aminolipids and unknown lipids. The genomic DNA G+C content was 45.3 mol%. DNA–DNA relatedness between strain SR18T and C. japonensis NBRC 16041T was 29–32 %. On the basis of polyphasic analysis from this study, strain SR18T represents a novel species of the genus Chitinophaga , for which the name Chitinophaga ginsengihumi sp. nov. is proposed. The type strain is SR18T ( = KACC 17604T = NBRC 109832T).

scholarly journals Jeotgalibaca ciconiae sp. nov., isolated from the faeces of an Oriental stork

2020 ◽  
Vol 70 (5) ◽  
pp. 3247-3254 ◽  
Author(s):  
So-Yeon Lee ◽  
Woorim Kang ◽  
Pil Soo Kim ◽  
Hyun Sik Kim ◽  
Hojun Sung ◽  
...  
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph ◽  
Yellow Strain ◽  
Optimum Salinity ◽  
Type Strains ◽  
The 16S Rrna Gene

A novel, Gram-stain-positive, non-spore-forming, facultatively anaerobic bacterium, designated strain H21T32T, was isolated from the faeces of an Oriental stork, Ciconia boyciana. Cells formed cocci grouped in pairs, tetrads or conglomerates, and colonies on solid medium were pale yellow. Strain H21T32T belonged to the genus Jeotgalibaca , family Carnobacteriaceae , order Lactobacillales and class Bacilli . The 16S rRNA gene sequences of the strain showed 97.06–97.34, 96.17–96.31 and 95.93–96.07 % similarity to the type strains of Jeotgalibaca arthritidis , J. porci and J. dankookensis , respectively. The strain grew at 10–37 °C (optimum temperature: 30 °C), with 0–7 % (w/v) NaCl (optimum salinity: 0.5 %) and at pH 7–9 (optimum pH: 8). The main cellular fatty acids were C16 : 1 ω9c, C18 : 1 ω9c and C16 : 0. The major polar lipids were diphosphatidylglycerol and phosphatidylglycerol. Respiratory quinones were not detected. Sugar components of the peptidoglycan were rhamnose, ribose and glucose. Amino acid components of the cell wall were l-alanine, d-glucose, l-lysine, glycine and aspartic acid. The DNA G+C content of the strain was 37.1 mol%. Average nucleotide identity between strain H21T32T and J. arthritidis CECT 9157T was 77.02 %, confirming that strain H21T32T represents a novel species of the genus Jeotgalibaca , for which the name Jeotgalibaca ciconiae sp. nov. is proposed. The type strain is H21T32T (=KCTC 33991T=JCM 33222T).

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