Amphibacillus marinus sp. nov., a member of the genus Amphibacillus isolated from marine mud

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1485-1491 ◽  
Author(s):  
Biao Ren ◽  
Na Yang ◽  
Jian Wang ◽  
Xiao-Long Ma ◽  
Qian Wang ◽  
...  
Keyword(s):  
Type Species ◽  
Diaminopimelic Acid ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Sea Mud ◽  
Diamino Acid ◽  
Marine Mud

A Gram-positive, spore-forming, rod-shaped bacterium, designated J1T was isolated from deep-sea mud collected from the South China Sea and subjected to polyphasic taxonomic investigation. Phylogenetic analysis based on 16S rRNA gene sequences revealed that J1T clustered with the type strains of Amphibacillus cookii , Amphibacillus sediminis and Amphibacillus jilinensis and exhibited a range of similarity of 93.9–97.0 % to members of the genus Amphibacillus . The DNA G+C content was 36.7 mol%. Chemotaxonomic analysis showed no quinones, and the cell wall contained meso-diaminopimelic acid as the diagnostic diamino acid for strain J1T. The major cellular fatty acids were iso-C15 : 0 and anteiso-C15 : 0. Strain J1T was positive for catalase activity and negative for oxidase activity. On the basis of phylogenetic position and phenotypic properties, strain J1T represents a novel species of the genus Amphibacillus and the name Amphibacillus marinus sp. nov. is proposed. The type strain is J1T ( = CGMCC 1.10434T = JCM 17099T).

Actinocatenispora comari sp. nov., an endophytic actinomycete isolated from aerial parts of Comarum salesowianum

2021 ◽  
Vol 71 (7) ◽  
Author(s):  
Natsagdorj Oyunbileg ◽  
Yohei Iizaka ◽  
Moriyuki Hamada ◽  
Bekh-Ochir Davaapurev ◽  
Atsushi Fukumoto ◽  
...  
Keyword(s):  
Type Species ◽  
Endophytic Bacterium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Aerial Parts ◽  
Diamino Acid ◽  
Mountain Chain

A novel actinomycete, designated NUM-2625T, was isolated as an endophytic bacterium in aerial parts of Comarum salesowianum, an endemic species in the Altai, Himalaya mountain chain area, collected from Khasagt Khairkhan Mountain in Mongolia. The 16S rRNA gene sequence of strain NUM-2625T showed the highest similarity to Actinocatenispora thailandica TT2-10T (99.4 %), Actinocatenispora sera KV-744T (99.3 %), and Actinocatenispora rupis CS5-AC17T (97.7 %). Chemotaxonomic properties of strain NUM-2625T were essentially consistent with those of the genus Actinocatenispora, such as the presence of meso-diaminopimelic acid as the diagnostic diamino acid of the peptidoglycan, MK-9(H4) and MK-9(H6) as the major menaquinones, and iso-C16 : 0, iso-C15 : 0, iso-C14 : 0 3-OH, and anteiso-C17 : 0 as the major fatty acids. Meanwhile, digital DNA–DNA hybridization and average nucleotide identity values revealed a low relatedness between strain NUM-2625T and the other type strains of the genus Actinocatenispora . In addition, strain NUM-2625T exhibited several phenotypic properties that could be used to distinguish it from its closest relatives. Based on the results of polyphasic analyses, strain NUM-2625T represents a novel species in the genus Actinocatenispora , for which the name Actinocatenispora comari sp. nov. is proposed. The type strain is NUM-2625T (=NBRC 114660T=TBRC 13496T).

scholarly journals Haloactinopolyspora alkaliphila sp. nov., and emended description of the genus Haloactinopolyspora

2014 ◽  
Vol 64 (Pt_6) ◽  
pp. 1945-1951 ◽  
Author(s):  
Yong-Guang Zhang ◽  
Qing Liu ◽  
Hong-Fei Wang ◽  
Dao-Feng Zhang ◽  
Yuan-Ming Zhang ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
North West ◽  
Link Type ◽  
Hybridization Data ◽  
Actinomycete Strain ◽  
Diamino Acid

A facultatively alkaliphilic actinomycete strain, designated EGI 80088T, was isolated from a saline-alkali soil sample from Xinjiang province, north-west China, and subjected to a polyphasic taxonomic characterization. Strain EGI 80088T formed fragmented aerial hyphae and short spore chains, and rod-like spores aggregated at maturity. Whole-cell hydrolysates of the isolate contained ll-diaminopimelic acid as the diagnostic diamino acid, and glucosamine, mannose, galactose, glucose and rhamnose as the marker sugars. The major fatty acids identified (>5 %) were anteiso-C15 : 0, iso-C15 : 0, summed feature 4 (iso-C17 : 1I/anteiso-C17 : 1B), iso-C16 : 0 and anteiso-C17 : 0. The predominant menaquinone was MK-9(H4). The G+C content of the genomic DNA of strain EGI 80088T was 70.6 mol%. EGI 80088T showed the highest 16S rRNA gene sequence similarity to its closest phylogenetic neighbour Haloactinopolyspora alba YIM 93246T (98.5 %). The DNA–DNA relatedness value of the strain EGI 80088T and H. alba YIM 93246T was 59.3±5.2 %. On the basis of morphological, chemotaxonomic and phylogenetic characteristics and DNA–DNA hybridization data, strain EGI 80088T represents a novel species of the genus Haloactinopolyspora , for which the name Haloactinopolyspora alkaliphila sp. nov. (type strain EGI 80088T = BCRC 16946T = JCM 19128T) is proposed. The description of the genus Haloactinopolyspora has also been emended.

Streptosporangium sandarakinum sp. nov.

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2484-2489 ◽  
Author(s):  
Peter Kämpfer ◽  
Stefanie P. Glaeser ◽  
Iris Grün-Wollny ◽  
Hans-Jürgen Busse
Keyword(s):  
Type Species ◽  
Unknown Origin ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Diamino Acid

A Gram-positive, non-spore-forming bacterium (GW-12028T) of unknown origin showing filamentous growth and producing spherical sporangia was studied for its taxonomic allocation. The 16S rRNA gene sequence analysis and subsequent similarity studies showed that strain GW-12028T belongs to the genus Streptosporangium , and is most closely related to Streptosporangium pseudovulgare DSM 43181T (99.9 %) and Streptosporangium nondiastaticum DSM 43848T (99.6 %) and more distantly related to Streptosporangium fragile IFO 14311T (98.4 %) and other species of the genus Streptosporangium (95.8 to 98 %). Chemotaxonomic analyses showed that the peptidoglycan diamino acid was meso-diaminopimelic acid. Whole-cell hydrolysates contained madurose as the diagnostic sugar and exhibited a quinone system that contained predominantly menaquinones with nine isoprenoic units in the side chain [MK-9, MK-9(H2), MK-9(H4)]. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phoshatidylethanolamine, hydroxyphosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol-mannosides, four unidentified glycolipids, a phospholipid and an aminolipid. The polyamine pattern contained the major compounds spermine and spermidine. The major fatty acids were 10-methyl C17 : 0, iso-C16 : 0 and C15 : 0. These chemotaxonomic traits are common to other species of the genus Streptosporangium . DNA–DNA hybridizations and physiological and biochemical tests in comparison with the type strains of the most closely related species, S. nondiastaticum and S. pseudovulgare , allowed genotypic and phenotypic differentiation of strain GW-12028T. This strain represents a novel species, for which we propose the name Streptosporangium sandarakinum sp. nov., with the type strain GW-12028T ( = LMG 27062T  = DSM 45763T).

scholarly journals Geodermatophilus telluris sp. nov., an actinomycete isolated from Saharan desert sand

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2254-2259 ◽  
Author(s):  
Maria del Carmen Montero-Calasanz ◽  
Markus Göker ◽  
Gabriele Pötter ◽  
Manfred Rohde ◽  
Cathrin Spröer ◽  
...  
Keyword(s):  
Type Species ◽  
Diaminopimelic Acid ◽  
Molecular Characteristics ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Desert Sand ◽  
Diamino Acid ◽  
Branched Chain ◽  
Arid Desert

A novel Gram-positive, multiloculated thalli-forming, aerobic, actinobacterial strain, CF9/1/1T, was isolated in 2007 during environmental screening for xerophilic fungi in arid desert soil from the Sahara desert, Chad. The isolate grew best at a temperature range of 20–35 °C and at pH 6.0–8.5 and with 0–4 % (w/v) NaCl, forming black-coloured and irregular colonies on GYM agar. Chemotaxonomic and molecular characteristics of the isolate matched those described for members of the genus Geodermatophilus . The DNA G+C content of the novel strain was 75.4 mol%. The peptidoglycan contained meso-diaminopimelic acid as a diagnostic diamino acid. The main phospholipids were diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylinositol, a not yet structurally identified aminophospholipid and a small amount of phosphatidylglycerol; MK-9(H4) was identified as the dominant menaquinone and galactose was a diagnostic sugar. The major cellular fatty acids were branched-chain saturated acids: iso-C16 : 0 and iso-C15 : 0. The 16S rRNA gene sequence of the isolate showed 94.6–97.0 % sequence similarities with those of five members of the genus: Geodermatophilus ruber DSM 45317T (94.6 %), Geodermatophilus obscurus DSM 43160T (94.8 %), Geodermatophilus siccatus DSM 45419T (96.2 %), Geodermatophilus nigrescens DSM 45408T (96.7 %) and Geodermatophilus arenarius DSM 45418T (97.0 %). Based on the evidence from this polyphasic taxonomic study, a novel species, Geodermatophilus telluris sp. nov., is proposed; the type strain is CF9/1/1T ( = DSM 45421T = CCUG 62764T).

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 Nonomuraea antri sp. nov., an actinomycete isolated from cave soil in Thailand

2020 ◽  
Vol 70 (10) ◽  
pp. 5296-5303 ◽  
Author(s):  
Kenika Lipun ◽  
Wee Fei Aaron Teo ◽  
Paweena Suksaard ◽  
Wasu Pathom-aree ◽  
Kannika Duangmal
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Whole Cell ◽  
Content Type ◽  
Link Type ◽  
Diamino Acid ◽  
Reference Strains

A novel actinobacterium, designated strain NN258T, was isolated from a cave soil sample collected from a karst cave at Khao No-Khao Kaeo, Nakhon Sawan province, Thailand. The morphological, chemotaxonomic and phylogenetic characteristics were consistent with its classification in the genus Nonomuraea . Strain NN258T showed the highest 16S rRNA gene sequence similarity values to Nonomuraea candida HMC10T, Nonomuraea mesophila 6K102T, Nonomuraea rubra DSM 43768T, Nonomuraea diastatica KC712T and Nonomuraea helvata IFO 14681T. The strain formed an extensively branched substrate and aerial mycelia. The whole-cell hydrolysates contained meso-diaminopimelic acid as the diagnostic diamino acid, with glucose, madurose, mannose and ribose as the whole-cell sugars. The polar lipids were diphosphatidylglycerol, phosphotidylmethylethanolamine, phosphatidylethanolamine, hydroxy-phosphatidylmonomethylethanolamine, hydroxy-phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannoside, two unidentified phospholipids, three unidentified sugar-containing phosphoaminolipids, an unidentified glycolipid and two unidentified lipids. The predominant menaquinone was MK-9(H4), with minor amounts of MK-9(H0), MK-9(H2) and MK-9(H6). Major cellular fatty acids (>10%) were iso-C16 : 0 and 10-methyl-C17 : 0. The G+C content of the genomic DNA was 71.0 mol%. The average nucleotide identity and digital DNA–DNA hybridization values between strain NN258T and the reference strains were 79.9–80.9 % and 26.1–27.0 %, respectively. On the basis of phenotypic, genotypic and phylogenetic data, strain NN258T represents a novel species of the genus Nonomuraea , for which the name Nonomuraea antri sp. nov. is proposed. The type strain is NN258T (=TBRC 11478T=NBRC 114269T).

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).

Entomomonas asaccharolytica sp. nov., isolated from Acheta domesticus

2021 ◽  
Vol 71 (9) ◽  
Author(s):  
Hans-Jürgen Busse ◽  
Peter Kämpfer ◽  
Michael P. Szostak ◽  
Joachim Spergser
Keyword(s):  
Type Species ◽  
Amino Acid Identity ◽  
Acheta Domesticus ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Unidentified Phospholipid ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Diamino Acid

Strain F2AT, isolated from the cricket Acheta domesticus, was subjected to a polyphasic taxonomic characterization. Cells of the strain were rod-shaped, Gram-stain-negative and catalase- and oxidase-positive. It did not assimilate any carbohydrates. The strain's 16S rRNA gene sequence showed highest similarity to Entomomonas moraniae QZS01T (96.4 %). The next highest similarity values were found to representatives of related genera (<93 %). The genome size of strain F2AT was 3.2 Mbp and the G+C content was 36.4 mol%. Average nucleotide identity values based on blast and MUMmer and average amino acid identity values between strain F2AT and E. moraniae QZS01T were 74.29/74.43, 83.88 and 74.70 %, respectively. The quinone system predominantly contained ubiquinone Q-8. In the polar lipid profile, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and an unidentified phospholipid were detected. The polyamine pattern consisted of the major compounds putrescine and spermidine. Major fatty acids were C18 : 1 ω7c and C16 : 0 and the hydroxyl acids were C12 : 0 3-OH, C14 : 0 2-OH and C14 : 0 3-OH. The diagnostic diamino acid of the peptidoglycan was meso-diaminopimelic acid. Due to its association with the only species of the genus Entomomonas but its distinctness from E. moraniae we here propose the novel species Entomomonas asaccharolytica sp. nov. F2AT (=CCM 9136T=LMG 32211T).

Paenibacillus typhae sp. nov., isolated from roots of Typha angustifolia L.

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 1037-1044 ◽  
Author(s):  
Bi He Kong ◽  
Qun Fang Liu ◽  
Min Liu ◽  
Yang Liu ◽  
Lei Liu ◽  
...  
Keyword(s):  
Type Species ◽  
Optimal Growth ◽  
Major Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Typha Angustifolia ◽  
Content Type ◽  
Link Type ◽  
Diamino Acid ◽  
Unknown Phospholipid

A Gram-stain-positive, facultatively anaerobic and rod-shaped bacterium, designated strain xj7T, was isolated from roots of Typha angustifolia L. growing in Beijing Cuihu Wetland, China. The isolate was identified as a member of the genus Paenibacillus based on phenotypic characteristics and phylogenetic inference. The novel strain was spore-forming, motile, catalase-positive and oxidase-negative. Optimal growth of strain xj7T occurred at 28–30 °C and pH 7.0–7.5. Diphosphatidylglycerol was the most abundant polar lipid and occurred along with phosphatidylglycerol, phosphatidylethanolamine, one unknown phospholipid and three unknown aminophospholipids. The diamino acid found in the cell-wall peptidoglycan was meso-diaminopimelic acid. The predominant isoprenoid quinone was MK-7. The major fatty acid components were anteiso-C15 : 0 (56.1 %), iso-C16 : 0 (9.1 %), C16 : 0 (8.0 %), iso-C14 : 0 (6.3 %) and iso-C15 : 0 (5.1 %). The G+C content of genomic DNA was 47.9 mol%. Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain xj7T fell within the evolutionary radiation encompassed by the genus Paenibacillus , its closest neighbours were Paenibacillus borealis KK19T (97.5 %) and Paenibacillus durus DSM 1735T (97.1 %). However, the DNA–DNA relatedness values between strain xj7T and P. borealis KK19T and between strain xj7T and P. durus DSM 1735T, were both 35 %. Based on phenotypic, chemotaxonomic and phylogenetic properties, strain xj7T is considered to represent a novel species of the genus Paenibacillus , for which the name Paenibacillus typhae sp. nov. is proposed. The type strain is xj7T ( = CGMCC 1.11012T = DSM 25190T).

Bacillus paraflexus sp. nov., isolated from compost

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4735-4743 ◽  
Author(s):  
Piyush Chandna ◽  
Shanmugam Mayilraj ◽  
Ramesh Chander Kuhad
Keyword(s):  
Type Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Bacillus Flexus ◽  
Diamino Acid ◽  
Physiological Tests

A Gram-stain-positive, rod-shaped, endospore-forming, aerobic bacterium capable of growing at 15–42 °C (optimum 30 °C) and at pH 5–11 (optimum pH 7) was isolated from compost. Its taxonomic position was deduced using a polyphasic approach and the strain was designated RC2T. 16S rRNA gene sequence analysis showed that the isolate belongs to the division Firmicutes , forming a clade within the cluster containing Bacillus flexus IFO 15715T, and showed highest similarity to B. flexus IFO 15715T (98.1 %). The cell wall contained meso-diaminopimelic acid as the diagnostic diamino acid. The major cellular fatty acids of the novel strain were iso-C15:0 (36.83 %), anteiso-C15:0 (49.19 %) and C16:0 (5.19 %). DNA–DNA hybridization between strain RC2T and B. flexus DSM 1320T showed a level of relatedness of 54.5 %. The polar lipid profile of strain RC2T showed the presence of phosphatidylglycerol, diphosphatidylglycerol and phosphatidylethanolamine. The predominant isoprenoid quinone was MK-7 and the G+C content of strain RC2T was 37.6 mol%. On the basis of phenotypic characteristics, phylogenetic analysis and the results of biochemical and physiological tests, strain RC2T was clearly distinguished from closely related members of the genus, and the strain is assigned to a novel species, for which the name Bacillus paraflexus sp. nov. is proposed. The type strain is RC2T ( = MTCC 9831T = MCC 2100T = KCTC 13724T = CCM 7754T).

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