scholarly journals Amycolatopsis acidicola sp. nov., isolated from peat swamp forest soil

2020 ◽  
Vol 70 (3) ◽  
pp. 1547-1554 ◽  
Author(s):  
Wee Fei Aaron Teo ◽  
Nantana Srisuk ◽  
Kannika Duangmal
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Swamp Forest ◽  
Peat Swamp Forest ◽  
Content Type ◽  
Link Type ◽  
Peat Swamp

A novel actinobacterial strain, designated K81G1T, was isolated from a soil sample collected in Kantulee peat swamp forest, Surat Thani Province, Thailand, and its taxonomic position was determined using a polyphasic approach. Optimal growth of strain K81G1T occurred at 28–30 °C, at pH 5.0–6.0 and without NaCl. Strain K81G1T had cell-wall chemotype IV (meso-diaminopimelic acid as the diagnostic diamino acid, and arabinose and galactose as diagnostic sugars) and phospholipid pattern type II, characteristic of the genus Amycolatopsis . It contained MK-9(H4) as the predominant menaquinone, iso-C16 : 0, C17 : 0 cyclo and C16 : 0 as the major cellular fatty acids, and phospholipids consisting of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine, phosphatidylinositol and two unidentified phospholipids. Based on 16S rRNA gene sequence similarity and phylogenetic analyses, strain K81G1T was most closely related to Amycolatopsis rhizosphaerae TBRC 6029T (97.8 % similarity), Amycolatopsis acidiphila JCM 30562T (97.8 %) and Amycolatopsis bartoniae DSM 45807T (97.6 %). Strain K81G1T exhibited low average nucleotide identity and digital DNA–DNA hybridization values with A. rhizosphaerae TBRC 6029T (76.4 %, 23.0 %), A. acidiphila JCM 30562T (77.9 %, 24.6 %) and A. bartoniae DSM 45807T (77.8 %, 24.3 %). The DNA G+C content of strain K81G1T was 69.7 mol%. Based on data from this polyphasic study, strain K81G1T represents a novel species of the genus Amycolatopsis , for which the name Amycolatopsis acidicola sp. nov. is proposed. The type strain is K81G1T (=TBRC 10047T=NBRC 113896T).

Asanoa siamensis sp. nov., isolated from soil from a temperate peat swamp forest

2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 66-71 ◽  
Author(s):  
Nantawan Niemhom ◽  
Chanwit Suriyachadkun ◽  
Tomohiko Tamura ◽  
Chitti Thawai
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Biochemical Properties ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Swamp Forest ◽  
Peat Swamp Forest ◽  
Content Type ◽  
Link Type ◽  
Peat Swamp

A novel actinomycete strain, PS7-2T, which produced spore chains borne on the tips of short sporophores, was isolated from soil collected from a temperate peat swamp forest in Phu-Sang National Park, Phayao province, Thailand. The isolate contained glutamic acid, glycine, alanine, 3-hydroxy-diaminopimelic acid and meso-diaminopimelic acid in the cell-wall peptidoglycan. The whole-cell sugars were glucose, mannose, rhamnose and xylose, and the major phospholipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and phosphatidylethanolamine. The predominant menaquinones were MK-10(H8) and MK-9(H8) and the predominant cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0 and anteiso-C17 : 0. The G+C content of the genomic DNA was 72.3 mol%. On the basis of 16S rRNA gene sequence analysis, strain PS7-2T clustered with members of the genus Asanoa and appeared most closely related to the type strains of Asanoa hainanensis (99.5 % sequence similarity), Asanoa iriomotensis (99.0 %), Asanoa ishikariensis (98.9 %) and Asanoa ferruginea (98.5 %). DNA–DNA hybridizations and some physiological and biochemical properties indicated that strain PS7-2T could be readily distinguished from its closest phylogenetic relatives. Based on the phenotypic and genotypic evidence and DNA–DNA relatedness values, strain PS7-2T represents a novel species in the genus Asanoa , for which the name Asanoa siamensis sp. nov. is proposed; the type strain is PS7-2T ( = BCC 41921T = NBRC 107932T).

scholarly journals Pseudonocardia acidicola sp. nov., a novel actinomycete isolated from peat swamp forest soil

2020 ◽  
Vol 70 (11) ◽  
pp. 5648-5653 ◽  
Author(s):  
Chollachai Klaysubun ◽  
Kenika Lipun ◽  
Kannika Duangmal
Keyword(s):  
Type Species ◽  
Peat Soil ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Swamp Forest ◽  
Polar Lipid Profile ◽  
Peat Swamp Forest ◽  
Content Type ◽  
Link Type ◽  
Peat Swamp

A novel actinobacterium, designated strain K10HN5T, was isolated from a peat soil sample collected from Kantulee peat swamp forest, Surat Thani Province, Thailand and its taxonomic position was determined using a polyphasic approach. Strain K10HN5T contained meso-diaminopimelic acid, arabinose, galactose, glucose and ribose in its whole-cell hydrolysates. The predominant menaquinone was MK-8(H4). The major fatty acids were iso-C16 : 0, iso-C15 : 0 and iso-C16 : 1H. Mycolic acids were not present. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylmethylethanolamine, hydroxyphosphatidylethanolamine, hydroxyphosphatidylmethylethanolamine and phosphatidylinositol. The 16S rRNA gene sequence analysis indicated that it was closely related to Pseudonocardia bannensis DSM 45300T (97.9 %) and Pseudonocardia xinjiangensis JCM 11839T (97.9 %). Strain K10HN5T exhibited low average nucleotide identity and digital DNA–DNA hybridization values with P. bannensis DSM 45300T (82.6, 28.7 %) and P. xinjiangensis JCM11839T (76.3, 22.2 %). The DNA G+C content of strain K10HN5T was 72.4 mol%. Based on polyphasic data, strain K10HN5T represents a novel species of the genus Pseudonocardia , for which the name Pseudonocardia acidicola sp. nov. is proposed. The type strain is K10HN5T (=TBRC 10048T=NBRC 113897T).

Acrocarpospora phusangensis sp. nov., isolated from a temperate peat swamp forest soil

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2174-2179 ◽  
Author(s):  
Nantawan Niemhom ◽  
Chanwit Suriyachadkun ◽  
Tomohiko Tamura ◽  
Chitti Thawai
Keyword(s):  
Forest Soil ◽  
Type Species ◽  
Biochemical Properties ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Swamp Forest ◽  
Peat Swamp Forest ◽  
Content Type ◽  
Link Type ◽  
Peat Swamp

A novel actinomycete, strain PS33-18T, that formed club-shaped and spherical structures borne on the tip of the aerial mycelia was isolated from a temperate peat swamp forest soil in Phu-Sang National Park, Phayao Province, Thailand. The isolate contained glutamic acid, alanine and meso-diaminopimelic acid in the cell-wall peptidoglycan. The whole-cell sugars of strain PS33-18T were glucose, madurose, mannose, rhamnose and ribose. The characteristic phospholipids were phosphatidylethanolamine, phosphatidylmethylethanolamine, hydroxy-phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannosides and ninhydrin-positive phosphoglycolipids. The predominant menaquinone was MK-9(H4). The major cellular fatty acids were C17 : 1ω8c, iso-C16 : 0 and C16 : 0. The G+C content of the genomic DNA of strain PS33-18T was 71.0 mol%. Phylogenetic analysis using 16S rRNA gene sequences revealed that strain PS33-18T should be classified in the genus Acrocarpospora . The level of similarity between this strain and the closely related species Acrocarpospora macrocephala NBRC 16266T was 98.3 %, Acrocarpospora pleiomorpha NBRC 16267T was 97.9 %, Acrocarpospora corrugata NBRC 13972T was 97.6 %, Herbidospora sakaeratensis NBRC 102641T was 97.6 % and Planotetraspora kaengkrachanensis NBRC 104272T was 97.3 %. DNA–DNA hybridization results and physiological and biochemical properties indicated that strain PS33-18T could be distinguished readily from its closest phylogenetic relatives. On the basis of these phenotypic and genotypic data, this strain represents a novel species, for which the name Acrocarpospora phusangensis sp. nov. is proposed. The type strain is PS33-18T ( = BCC 46906T = NBRC 108782T).

scholarly journals Actinomadura rayongensis sp. nov., isolated from peat swamp forest soil

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 890-895 ◽  
Author(s):  
Wongsakorn Phongsopitanun ◽  
Somboon Tanasupawat ◽  
Khanit Suwanborirux ◽  
Moriya Ohkuma ◽  
Takuji Kudo
Keyword(s):  
Forest Soil ◽  
Type Strain ◽  
Type Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Swamp Forest ◽  
Peat Swamp Forest ◽  
Content Type ◽  
Link Type ◽  
Peat Swamp

A novel actinomycete strain RY35-68T, isolated from a peat swamp forest soil sample in Rayong Province, Thailand, was characterized using a polyphasic approach. The strain belonged to the genus Actinomadura based on morphological and chemotaxonomic characteristics. Cell-wall analysis revealed the presence of meso-diaminopimelic acid and N-acetylmuramic acid in the peptidoglycan layer. The diagnostic sugar in whole-cell hydrolysates was identified as madurose. The predominant menaquinones were MK-9(H6), MK-9(H8) and MK-9(H4). The major cellular fatty acids were C16 : 0 and iso-C16 : 0. The major polar lipids were diphosphatidylglycerol, phosphatidylinositol and phosphatidylinositol mannoside. The genomic DNA G+C content was 73.7 mol%. On the basis of 16S rRNA gene sequence similarity analysis, strain RY35-68T was closely related to the species Actinomadura atramentaria JCM 6250T (97.5 %). The value of DNA–DNA relatedness between strain RY35-68T and A. atramentaria JCM 6250T was 37.6–42.6 %. On the basis of its phenotypic characteristics and these results mentioned, this strain could be distinguished from the closely related type strain and represents a novel species of the genus Actinomadura , for which the name Actinomadura rayongensis sp. nov. (type strain RY35-68T = JCM 19830T = TISTR 2211T = PCU 332T) is proposed.

Nocardiopsis coralli sp. nov. a novel actinobacterium isolated from the coral Galaxea astreata

2021 ◽  
Vol 71 (6) ◽  
Author(s):  
Fenfa Li ◽  
Qingyi Xie ◽  
Shuangqing Zhou ◽  
Fandong Kong ◽  
Yun Xu ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Content Type ◽  
Link Type ◽  
Phosphatidylinositol Mannosides

Strain HNM0947T, representing a novel actinobacterium, was isolated from the coral Galaxea astreata collected from the coast of Wenchang, Hainan, China. The strain was found to have morphological and chemotaxonomic characteristics consistent with the genus Nocardiopsis . The organism formed abundant fragmented substrate mycelia and aerial mycelia which differentiated into non-motile, rod-shaped spores. Whole-cell hydrolysates contained meso-diaminopimelic acid and no diagnostic sugars. The major menaquinones were MK-10(H8), MK-10(H6) and MK-10(H4). The major phospholipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylinositol and phosphatidylinositol mannosides. The major fatty acids were iso-C16:0, anteiso-C17:0, C18:0, C18:0 10-methyl (TBSA) and anteiso-C15:0. The G+C content was 71.3 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain HNM0947T belonged to the genus Nocardiopsis and shared highest sequence similarity to Nocardiopsis salina YIM 90010T (98.8%), Nocardiopsis xinjiangensis YIM 90004T(98.5%) and Nocardiopsis kunsanensis DSM 44524T (98.3%). The strain HNM0947T was distinguished from its closest type strain by low average nucleotide identity (90.8%) and dDDH values (60.4%) respectively. Based on genotypic, chemotaxonomic and phenotypic characteristics, it was concluded that strain HNM0947T represents a novel species of the genus Nocardiopsis whose name was proposed as Nocardiopsis coralli sp. nov. The type strain was HNM0947T (=CCTCC AA 2020015 T=KCTC 49525 T).

scholarly journals Gordonia iterans sp. nov., isolated from a patient with pneumonia

2014 ◽  
Vol 64 (Pt_10) ◽  
pp. 3520-3525 ◽  
Author(s):  
Ying-Qian Kang ◽  
Hong Ming ◽  
Tohru Gonoi ◽  
Yuru Chen ◽  
Yu Cao ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type

A second novel clinical actinobacterial strain, designated IFM 10348T, was isolated from the sputum of the same Japanese patient with bacterial pneumonia from whom the type strain of Gordonia araii had been isolated. The strains differed in phylogenetic position and drug-resistance profiles. The taxonomic position of strain IFM 10348T was clarified by phenotypic, chemotaxonomic and phylogenetic studies. Phylogenetic analyses based on 16S rRNA gene sequences clearly demonstrated that strain IFM 10348T occupied a distinct clade within the genus Gordonia and was related closely to Gordonia malaquae DSM 45064T and Gordonia hirsuta DSM 44140T (97.3 and 97.1 % similarities, respectively). Strain IFM 10348T was also clearly differentiated from G. malaquae DSM 45064T and G. hirsuta DSM 44140T based on gyrB and secA1 gene sequence similarity values. Strain IFM 10348T had MK-9(H2) as the predominant menaquonine, contained meso-diaminopimelic acid, arabinose, galactose and glucosamine as cell-wall components, and contained C18 : 1ω9c, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0 as the major cellular fatty acids. Mycolic acids were present. The DNA G+C content of strain IFM 10348T was 68.0 mol%. DNA–DNA relatedness data coupled with the combination of genotypic and phenotypic data indicated that strain IFM 10348T represents a novel species of the genus Gordonia , for which the name Gordonia iterans sp. nov. is proposed. The type strain is IFM 10348T ( = CCTCC M2011245T = NCCB 100436T).

Amycolatopsis magusensis sp. nov., isolated from soil

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1254-1260 ◽  
Author(s):  
Mustafa Camas ◽  
Nevzat Sahin ◽  
Anil Sazak ◽  
Cathrin Spröer ◽  
Hans-Peter Klenk
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type

A novel actinomycete, designated strain KT2025T, was isolated from arid soil collected from Magusa, northern Cyprus. The taxonomic position of the novel strain was established by using a polyphasic approach. The organism had chemical and morphological features consistent with its classification in the genus Amycolatopsis . Phylogenetic analyses based on 16S rRNA gene sequences supported the classification of the isolate in the genus Amycolatopsis and showed that the organism formed a cluster with Amycolatopsis nigrescens CSC17-Ta-90T, Amycolatopsis minnesotensis 32U-2T, Amycolatopsis sacchari DSM 44468T and Amycolatopsis dongchuanensis YIM 75904T. 16S rRNA gene sequence similarity analysis indicated that strain KT2025T was most closely related to Amycolatopsis lurida DSM 43134T (97.5 %), Amycolatopsis keratiniphila subsp. keratiniphila DSM 44409T (97.4 %), Amycolatopsis keratiniphila subsp. nogabecina DSM 44586T (97.1 %), Amycolatopsis nigrescens DSM 44992T (97.1 %), Amycolatopsis azurea DSM 43854T (97.1 %) and Amycolatopsis minnesotensis DSM 44988T (96.9 %). The organism was found to have chemical features typical of members of the genus Amycolatopsis such as meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan, and arabinose and galactose as diagnostic sugars. The predominant menaquinone was MK-9(H4). The polar lipids detected were phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and hydroxy-phosphatidylethanolamine. The major fatty acids were iso-C16 : 0, iso-C15 : 0 and iso-C14 : 0. The G+C content of the genomic DNA was 70.8 mol%. Phenotypic data clearly distinguished the isolate from its closest relatives. The combined genotypic and phenotypic data and low levels of DNA–DNA relatedness with its closest relatives indicated that strain KT2025T represents a novel species of the genus Amycolatopsis , for which the name Amycolatopsis magusensis sp. nov. is proposed. The type strain is KT2025T ( = DSM 45510T = KCTC 29056T).

Luteolibacter yonseiensis sp. nov., isolated from activated sludge using algal metabolites

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1891-1895 ◽  
Author(s):  
Joonhong Park ◽  
Gyu Seok Baek ◽  
Sung-Geun Woo ◽  
Jangho Lee ◽  
Jihoon Yang ◽  
...  
Keyword(s):  
Activated Sludge ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Major Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family

A Gram-negative, rod-shaped, aerobic bacterial strain, designated EBTL01T, was isolated from activated sludge by using metabolites of microalgae Ankistrodesmus gracilis SAG278-2. Phylogenetic analyses based on 16S rRNA gene sequence showed that strain EBTL01T belongs to the family Verrucomicrobiaceae , class Verrucomicrobiae , and is related most closely to Luteolibacter pohnpeiensis A4T-83T (95.5 % sequence similarity) and Luteolibacter algae A5J-41-2T (95.2 %). The G+C content of the genomic DNA of strain EBTL01T was 56.3 mol% and the menaquinone MK-9 was detected as the predominant quinone. Major fatty acid components were iso-C14 : 0, C16 : 1ω7c and C16 : 0. The amino acids of the cell-wall peptidoglycan contained muramic acid and meso-diaminopimelic acid. These profile results supported the affiliation of strain EBTL01T to the genus Luteolibacter . On the other hand, based on chemotaxonomic properties and phenotypic characteristics, strain EBTL01T could be clearly differentiated from its phylogenetic neighbours. Therefore, strain EBTL01T represents a novel species of the genus Luteolibacter , for which the name Luteolibacter yonseiensis sp. nov. is proposed. The type strain is EBTL01T ( = KCTC 23678T = JCM 18052T).

scholarly journals Nesterenkonia alkaliphila sp. nov., an alkaliphilic, halotolerant actinobacteria isolated from the western Pacific Ocean

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 516-521 ◽  
Author(s):  
Gaiyun Zhang ◽  
Yubian Zhang ◽  
Xijie Yin ◽  
Shuang Wang
Keyword(s):  
Pacific Ocean ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Western Pacific ◽  
Rrna Gene ◽  
Western Pacific Ocean ◽  
Content Type ◽  
Link Type ◽  
The Western Pacific

A Gram-staining-positive, aerobic, motile and non-spore-forming actinobacteria, designated strain F10T, was isolated from a deep-sea sediment of the western Pacific Ocean. Phylogenetic and phenotypic properties of the organism supported that it belonged to the genus Nesterenkonia . Strain F10T shared highest 16S rRNA gene sequence similarity of 96.8 % with Nesterenkonia aethiopica DSM 17733T, followed by Nesterenkonia xinjiangensis YIM 70097T (96.7 %) and Nesterenkonia alba CAAS 252T (96.6 %). The organism grew at 4–50 °C, at pH 7.0–12.0 and in the presence of 0–12 % (w/v) NaCl, with optimal growth occurring at 40 °C, at pH 9.0 and in the presence of 1 % (w/v) NaCl. The peptidoglycan type was A4(alpha), l-Lys–Gly–l-Glu. The polar lipid profile of strain F10T consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, two unknown glycolipids and two unknown lipids. The isolate contained MK-9 (92 %) and MK-8 (5.8 %) as the major components of the menaquinone system, and anteiso-C17 : 0 (50.9 %) and anteiso-C15 : 0 (29.8 %) as the predominant fatty acids. The G+C content of the genomic DNA of strain F10T was 66.2 mol%. Based on phenotypic, genotypic and phylogenetic analyses, strain F10T represents a novel species of the genus Nesterenkonia for which the name Nesterenkonia alkaliphila sp. nov. is proposed. The type strain is F10T ( = LMG 28112T = CGMCC 1.12781T = JCM 19766T = MCCC 1A09946T).

Jeongeupia chitinilytica sp. nov., a chitinolytic bacterium isolated from soil

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 934-938 ◽  
Author(s):  
Wen-Ming Chen ◽  
Rey-Chang Chang ◽  
Chih-Yu Cheng ◽  
Yu-Wen Shiau ◽  
Shih-Yi Sheu
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Novel Bacterium

A novel bacterium, designated strain JchiT, was isolated from soil in Taiwan and characterized using a polyphasic approach. Cells of strain JchiT were aerobic, Gram-stain-negative, motile and rod-shaped. They contained poly-β-hydroxybutyrate granules and formed dark-yellow colonies. Growth occurred at 20–37 °C (optimum between 25 and 30 °C), at pH 6.0–8.0 (optimum between pH 7.0 and pH 8.0) and with 0–2 % NaCl (optimum between 0 and 1 %). Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain JchiT belonged to the genus Jeongeupia and that its closest neighbour was Jeongeupia naejangsanensis BIO-TAS4-2T (98.0 % sequence similarity). The major fatty acids (>10 %) of strain JchiT were summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and C18 : 1ω7c. The major cellular hydroxy fatty acid was C12 : 0 3-OH. The isoprenoid quinone was Q-8 and the genomic DNA G+C content was 66.1 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylserine and two unidentified phospholipids. The DNA–DNA relatedness value between strain JchiT and J. naejangsanensis BIO-TAS4-2T was about 41.0 %. On the basis of the genotypic and phenotypic data, strain JchiT represents a novel species in the genus Jeongeupia , for which the name Jeongeupia chitinilytica sp. nov. is proposed. The type strain is JchiT ( = BCRC 80367T  = KCTC 23701T).

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