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).

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).

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.

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).

scholarly journals Bacillus acidinfaciens sp. nov., isolated from farmland soil

2019 ◽  
Vol 69 (4) ◽  
pp. 1075-1080 ◽  
Author(s):  
Leni Sun ◽  
Yan Chen ◽  
Wei Tian ◽  
Lunguang Yao ◽  
Zhaojin Chen ◽  
...  
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Draft Genome ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Unidentified Phospholipid ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Farmland Soil

A Gram-stain-positive, rod-shaped, motile bacterial strain, designated 3-2-2T, was isolated from field topsoil collected from a western suburb of Nanyang city, Henan province, China. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 3-2-2T was a member of the genus Bacillus and most closely related to Bacillus fortis R-6514T (98.9 % similarity), Bacillus terrae RA9T (98.0 %) and Bacillus fordii R-7190T (97.7 %). A draft genome sequence determined for strain 3-2-2T revealed a DNA G+C content of 42.2 mol%. The average nucleotide identity and digital DNA–DNA hybridization values between 3-2-2T and the closely related Bacillus species ranged 79.4–84.2 % and 23.4–24.6 %. The major fatty acids of strain 3-2-2T were iso-C15 : 0, anteiso-C15 : 0, iso-C14 : 0 and iso-C16 : 0. The major isoprenoid quinone was MK-7. meso-Diaminopimelic acid was detected in the peptidoglycan. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, an unidentified phospholipid and an unidentified lipid. The results of phylogenetic analyses, in silico genomic comparisons, and chemotaxonomic and phenotypic analyses clearly indicated that strain 3-2-2T represents a novel species within the genus Bacillus , for which the name Bacillus acidinfaciens sp. nov. is proposed. The type strain is 3-2-2T (=CGMCC 1.13685T=LMG 30839T).

scholarly journals Paenibacillus susongensis sp. nov., a mineral-weathering bacterium

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 3958-3963 ◽  
Author(s):  
Xin-Qi Guo ◽  
Jia-Yu Gu ◽  
Ya-Jun Yu ◽  
Wen-Bin Zhang ◽  
Lin-Yan He ◽  
...  
Keyword(s):  
Type Species ◽  
Mineral Weathering ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Pr China ◽  
Unknown Lipid ◽  
Total Dna

A Gram-stain-positive, rod-shaped, endospore-forming, aerobic bacterial strain, designated M327T, was isolated from the weathered surfaces of rock (mica schist) from Susong, Anhui Province, PR China. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain M327T belonged to the genus Paenibacillus and was related most closely to Paenibacillus terrigena A35T (98.6 % similarity) and Paenibacillus selenitireducens ES3-24T (98.3 %). Strain M327T contained meso-diaminopimelic acid in the cell wall and MK-7 as the major menaquinone. The main fatty acids of strain M327T were anteiso-C15 : 0 and iso-C16 : 0. The polar lipid profile contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, three unknown aminophospholipids and an unknown lipid. The total DNA G+C content of strain M327T was 48.6 mol%. Based on the low level of DNA–DNA relatedness (ranging from 26.6 to 33.1 %) to these type strains of species of the genus Paenibacillus and unique phenotypic characteristics, it is suggested that strain M327T represents a novel species of the genus Paenibacillus , for which the name Paenibacillus susongensis sp. nov. is proposed. The type strain is M327T ( = CCTCC AB 2014058T = LMG 28236T = JCM 19951T).

Gordonia phosphorivorans sp. nov., isolated from a wastewater bioreactor with phosphorus removal

2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 230-235 ◽  
Author(s):  
P. Kämpfer ◽  
K. Martin ◽  
W. Dott
Keyword(s):  
Phosphorus Removal ◽  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Mycolic Acids ◽  
Link Type

Two Gram-stain-positive, non-endospore-forming actinobacteria (Ca8Tand Ca14) were isolated from a bioreactor with extensive phosphorus removal. Based on 16S rRNA gene sequence similarity comparisons, strains Ca8T and Ca14 were shown to belong to the genus Gordonia and were most closely related to Gordonia hirsuta DSM 44140T (98.0 % sequence similarity) and Gordonia hydrophobica DSM 44015T (97.2 %). In comparison with the sequences of the type strains of all other species of the genus Gordonia tested, similarities were below 97 %. The quinone systems of the strains were determined to consist predominantly of MK-9H2. The polar lipid profile for both organisms consisted of diphosphatidylglycerol, phosphatidylglycerol, phospatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannoside. Whole-organism hydrolysates contained meso-diaminopimelic acid as the diamino acid of the peptidoglycan; mycolic acids were detected as well. These chemotaxonomic traits and the major fatty acids, which were C16 : 1 cis-9, C16 : 0 and C18 : 1 and tuberculostearic acid strongly supported the grouping of strains Ca8T and Ca14 into the genus Gordonia . The two strains showed a DNA–DNA similarity of 96 %. DNA–DNA hybridizations of strain Ca8T with G. hirsuta DSM 44140T and G. hydrophobica DSM 44015T resulted in values of 26.3 and 25.0 %, respectively. These results and those of the physiological and biochemical tests allowed a clear phenotypic differentiation of strains Ca8T and Ca14 from the most closely related species of the genus Gordonia . It is concluded that strains Ca8T and Ca14 represent a novel species, for which the name Gordonia phosphorivorans sp. nov. is proposed, with the type strain Ca8T ( = DSM 45630T = CCUG 61533T = CCM 7957T = LMG 26648T).

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 Nocardioides dongxiaopingii sp. nov., isolated from leaves of Lamiophlomis rotata on the Qinghai–Tibet Plateau

2020 ◽  
Vol 70 (5) ◽  
pp. 3234-3240 ◽  
Author(s):  
Sihui Zhang ◽  
Xiaoxia Wang ◽  
Jing Yang ◽  
Shan Lu ◽  
Xin-He Lai ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Tibet Plateau ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Qinghai Tibet Plateau

Two novel Gram-stain-positive, irregular rod-shaped actinomycetes, S-1144T and 4053, were isolated from leaves of Lamiophlomis rotata on the Qinghai–Tibet Plateau, PR China. Cells were aerobic, catalase-positive and oxidase-negative. Colonies on Reasoner’s 2A agar were light yellow, circular, shiny, smooth and convex after 2 days of incubation. The isolates grew optimally at 25 °C, pH 7.5 and with 0 % (w/v) NaCl. The results of polyphasic analyses indicated that strain S-1144T belonged to the genus Nocardioides and its close phylogenetic neighbours (16S rRNA gene sequence similarity) were Nocardioides litoris DSM 103718T (98.4 %), Nocardioides rubriscoriae DSM 23986T (98.2%) and Nocardioides plantarum DSM 11054T (97.8 %). The genome of strain S-1144T showed less than 70 % digital DNA–DNA hybridization and < 95–96 % average nucleotide identity values to the above reference strains. The DNA G+C content of strain S-1144T was 73.5 mol%. MK-8(H4) was the predominant respiratory quinone (96.0 %) and llLL-2,6-diaminopimelic acid was the diagnostic diamino acid in the cell-wall peptidoglycan. The polar lipid profile of strain S-1144T consisted of diphosphatidylglycerol, phosphatidylglycerol, three unidentified phospholipids, one unidentified glycolipid and one unidentified lipid. The major cellular fatty acids were iso-C16 : 0, C17 : 1  ω8c, C17 : 0 and C18 : 1  ω9c. On the basis of obtained data, strain S-1144T represented a novel species of the genus Nocardioides , for which the name Nocardioides dongxiaopingii sp. nov. is proposed. The type strain is S-1144T (=CGMCC 4.7568T=JCM 33469T).

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).

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