scholarly journals Nocardioides flavescens sp. nov., isolated from soil of Gaoligong Mountain, PR China

2020 ◽  
Vol 70 (11) ◽  
pp. 5740-5746 ◽  
Author(s):  
Kun Zhang ◽  
Long-Qian Jiang ◽  
De-Feng An ◽  
Lei Lang ◽  
Gui-Ding Li ◽  
...  

A Gram-stain-positive, non-motile, aerobic, rod-shaped, golden yellow-pigmented actinobacterium, designated strain YIM 123512T, was isolated from soil sampled at Gaoligong Mountain, Yunnan Province, PR China. The strain grew at 10–40 °C (optimum, 28 °C), with 0–3.0 % (w/v) NaCl (optimum, 0–1.0 %) and at pH 5.0–11.0 (optimum, pH 7.0). The major menaquinone was MK-8(H4) and the major cellular fatty acids (>10 %) were identified as iso-C16 : 0 and C17 : 1  ω8c. Strain YIM 123512T had ll-2, 6-diaminopimelic acid as the diagnostic cell-wall diamino acid. The major polar lipids were found to be diphosphatidylglycerol, phosphatidylglycerol, two unknown phospholipids and one unknown lipid. The genomic DNA G+C content of strain YIM 123512T was 72.7 mol% based on its draft genome sequence. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain YIM 123512T appeared to be most closely related to Nocardioides halotolerans KCTC 19274T (97.7 % sequence similarity) and to belong to the genus Nocardioides . The sequence similarity values of strain YIM 123512T to other currently described type strains of the genus Nocardioides were less than 97.0 %. Based on the draft genome sequence, the novel strain showed an average nucleotide identity value of 80.2 % and a digital DNA–DNA hybridization value of 23.1 % with the reference strain N. halotolerans KCTC 19274T. The results of the polyphasic taxonomic study including phenotypic, chemotaxonomic and phylogenetic analyses show that strain YIM 123512T represents a novel species of the genus Nocardioides , for which the name Nocardioides flavescens sp. nov. is proposed. The type strain is YIM 123512T (=KCTC 49303T=CGMCC 4.7628T).

2020 ◽  
Vol 70 (11) ◽  
pp. 5943-5949 ◽  
Author(s):  
Yun-zhen Yang ◽  
Ji-feng Chen ◽  
Wan-ru Huang ◽  
Ran-ran Zhang ◽  
Shuangjiang Liu ◽  
...  

A novel Gram-stain-negative, strictly aerobic, rod-shaped, brick red-pigmented bacterium, designated R-22-1 c-1T, was isolated from water from Baiyang Lake, Hebei Province, PR China. The strain was able to grow at 20–30 °C (optimum, 30 °C) and pH 6–7 (optimum, pH 6) in Reasoner’s 2A medium. 16S rRNA gene sequence and phylogenetic analyses of R-22-1 c-1T revealed closest relationships to Rufibacter immobilis MCC P1T (97.8 %), Rufibacter sediminis H-1T (97.9 %) and Rufibacter glacialis MDT1-10-3T (97.0 %), with other species of the genus Rufibacter showing less than 97.0 % sequence similarity. The predominant polar lipids were phosphatidylethanolamine, two unidentified aminophospholipids and three unidentified lipids. The major cellular fatty acids were iso-C15 : 0, C15 : 1  ω6c, C17 : 1  ω6c, anteiso-C15 : 0, summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1  ω7c and/or C16 : 1  ω6c) and summed feature 4 (iso-C17 : 1I and/or anteiso-C17 : 1B). The respiratory quinone was MK-7. The draft genome of R-22-1 c-1T was 5.6 Mbp in size, with a G+C content of 50.2 mol%. The average nucleotide identity and digital DNA–DNA hybridization relatedness values between strain R-22-1 c-1T and related type strains were R. immobilis MCC P1T (77.2 and 21.8 %), R. sediminis H-1T (81.6 and 21.4 %) and R. tibetensis 1351T (78.5 and 22.9 %). Based on these phylogenetic, chemotaxonomic and genotypic results, strain R-22-1 c-1T represents a novel species in the genus Rufibacter , for which the name Rufibacter latericius sp. nov. is proposed. The type strain is R-22-1 c-1T (=CGMCC 1.13570T=KCTC 62781T).


2020 ◽  
Vol 70 (9) ◽  
pp. 5026-5031 ◽  
Author(s):  
Yixin Ou ◽  
Yong Sheng ◽  
Xiaojing Hu ◽  
Dongjin Leng ◽  
Jiafu Huang ◽  
...  

A novel actinomycete, designated WYY166T, was isolated from the rhizosphere of Suaeda australis Moq. collected in Dongfang, PR China. The taxonomic position of this strain was investigated using a polyphasic approach. Phylogenetic analysis based on its 16S rRNA gene referred strain WYY166T to the genus Nonomuraea , and it was most closely related to the type strains Nonomuraea candida HMC10T, Nonomuraea turkmeniaca DSM 43926T, Nonomuraea maritima NBRC 106687T and Nonomuraea polychroma DSM 43925T (98.35, 97.60, 97.36 and 97.30% sequence similarity, respectively). Genome sequencing revealed a genome size of 11.27 Mbp and a G+C content of 71.10 mol%. The genome average nucleotide identity (ANI) values and the digital DNA - DNA hybridization (dDDH) values between strain WYY166T and the other species of the genus were found to be low (ANI 81.63~85.23 %, dDDH 23.6~31.6 %), suggesting that it represented a new species. The physiological evaluation showed that it had remarkable nitrate reduction activity. The whole-cell hydrolysates contained meso-diaminopimelic acid and madurose. The N-acyl type of muramic acid was acetyl. The major menaquinones were MK-9 (H4) (86.9 %) and MK-9 (H2) (13.1 %). The predominant fatty acids were iso-C16 : 0 (53.2 %), 10-methyl C17 : 0 (10.7 %), C17 : 1  ω6c (8.3 %) and iso-C16 : 1 h (7.3 %). These physiological, biochemical and chemotaxonomic data suggested that strain WYY166T should be classified as representing a novel species of the genus Nonomuraea , for which the name Nonomuraea nitratireducens sp. nov. is proposed. The type strain is WYY166T (=MCCC 1K03779T=KCTC 49343T).


Author(s):  
Rong Tang ◽  
Qi Zhang ◽  
Yin Ye ◽  
Shang Yang ◽  
Tao Fu ◽  
...  

Two aerobic, Gram-stain-positive, rod-shaped, endospore-forming, thermophilic bacterial strains, designated FJAT-54423T and FJAT-54424, were isolated from hyperthermophilic compost sampled in Shanxi Province, PR China. Growth was observed at 30–60 °C (optimum, 50 °C) and pH 6.0–9.0 (optimum, pH 7.0), with up to 2.0 % (w/v) NaCl (optimum, 0 % NaCl). The 16S rRNA gene sequence similarity between FJAT-54423T and FJAT-54424 was 99.9%, and the maximum similarity to a valid taxon was observed with Brevibacillus borstelensis (98.3%). Further, in phylogenetic and phylogenomic trees, strains FJAT-54423T and FJAT-54424 branched with members of the genus Brevibacillus . The menaquinone was MK-7, and the major fatty acids were iso-C15 : 0 and anteiso-C15 : 0. The main polar lipids included phosphatidylmethylethanolamine, phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. The cell-wall peptidoglycan was found to contain meso-diaminopimelic acid. The DNA G+C content of strains FJAT-54423T and FJAT-54424 were 54.3 and 54.4 mol%, respectively. The average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values of strain FJAT-54423T and its most closely related reference strain B. borstelensis DSM 6347T were 77.7 and 21.5 %, respectively, which were lower than the recommended species delineation thresholds of ANI (95%) and dDDH (70%). Based on the observed physiological properties, chemotaxonomic characteristics and ANI and dDDH values, FJAT-54423T and FJAT-54424 belong to a novel species of the genus Brevibacillus , for which the name Brevibacillus composti sp. nov. is proposed. The type strain is FJAT-54423T (=GDMCC 1.2054T=KCTC 43273T).


2020 ◽  
Vol 70 (11) ◽  
pp. 5693-5700 ◽  
Author(s):  
Mingming Niu ◽  
Hong Ming ◽  
Li-jiao Cheng ◽  
Bing-fang Yi ◽  
Ting-ting Xia ◽  
...  

Strain CFH S0501T, a novel Gram-stain-positive, aerobic, rod-shaped, endospore-forming and motile micro-organism with peritrichous flagella, was isolated from a sediment sample collected from the Yellow River in Henan Province, PR China. Optimum growth was observed at 28 °C, pH 7.0 and without NaCl. Phylogenetic analysis based on the 16S rRNA gene sequences indicated that the strain belonged to the genus Brevibacillus and was closely related to Brevibacillus centrosporus DSM 8445T and Brevibacillus ginsengisoli Gsoil 3088T (with 96.8 and 96.7 % sequence similarity, respectively). The predominant menaquinone was MK-7. Major cellular fatty acids were anteiso-C15 : 0 and iso-C15 : 0. Polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylethanolamine, two unidentified phospholipids and an unidentified polar lipid. The cell-wall peptidoglycan was found to contain meso-diaminopimelic acid. The genome size was 5.26 Mbp with a G+C content of 49.7 mol%. The average nucleotide identity (ANI) and in silico DNA–DNAhybridization (DDH) values between CFH S0501T and the other species of the genus Brevibacillus were found to be low (ANIm <86.11 %, ANIb <70.30 % and DDH <25.00 %). Based on physiological properties, chemotaxonomic characteristics and low ANI and DDH results, strain CFH S0501T is considered to represent a novel species, for which the name Brevibacillus migulae sp. nov. is proposed. The type strain is CFH S0501T (=DSM 29940T=BCRC 80809T).


Author(s):  
Qiao-Yan Zhang ◽  
Song Qin ◽  
Xiao-Xia Luo ◽  
Zhan-Feng Xia

A novel actinobacterium, designated TRM 44567T, was isolated from cotton soil in Xinjiang Uygur Autonomous Region, northwest PR China. Growth occurred at 16–45 °C, pH 5.0–9.0, and 0–7 % (w/v) NaCl, with optimum growth at 37 °C, pH 7.0–8.0 and 1 % (w/v) NaCl, respectively. Comparative 16S rRNA gene sequence analysis indicated that strain TRM 44567T was phylogenetically most closely related to Streptomyces chromofuscus NBRC 12851T (98.48 % sequence similarity); however, the average nucleotide identity between strain TRM 44567T and S. chromofuscus NBRC 12851T was only 83.77 %. Strain TRM 44567T possessed ll-diaminopimelic acid as the diagnostic cell-wall diamino acid. The predominant menaquinones were MK-9(H10), MK-9(H6) and MK-9(H4). The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, phosphatidylinositol and phosphatidylinositol mannoside. The major fatty acids were iso-C16 : 0, C16 : 0, anteiso-C15 : 0, anteiso-C17 : 0, iso-C14 : 0 and iso-C15 : 0. The genomic DNA G+C content was 70.8 mol%. Strain TRM 44567T represents a novel species of the genus Streptomyces , for which the name Streptomyces gossypiisoli sp. nov. is proposed. The type strain is TRM 44567T (=KCTC 39957 T=CCTCC AA 2017011T).


2020 ◽  
Vol 70 (3) ◽  
pp. 1931-1939 ◽  
Author(s):  
Bin Liu ◽  
Xiaojun Yang ◽  
Mengyao Sheng ◽  
Zhou Yang ◽  
Jiguo Qiu ◽  
...  

A Gram-stain-negative, rod-shaped, non-motile and non-spore-forming bacterium, designated HAL-9T, was isolated from oil-contaminated soil in Daqing oilfield, Heilongjiang Province, PR China. Strain HAL-9T was able to degrade quizalofop-p-ethyl and diclofop-methyl. Growth was observed at 10–35 °C (optimum, 30 °C), pH 6.0–10.0 (optimum, pH 7.0) and salinity of 0 %–5.0 % (w/v; optimum 1.0 %). The results of phylogenetic analysis based on the 16S rRNA gene indicated that strain HAL-9T belongs to the genus Sphingobacterium and showed the highest sequence similarity (98.3 %) to Sphingobacterium alkalisoli Y3L14T, followed by Sphingobacterium mizutaii DSM 11724T (95.1 %) and Sphingobacterium lactis DSM 22361T (95.1 %). Menaquinone-7 (MK-7) was the only isoprenoid quinone. The predominant cellular fatty acids were summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c), iso-C15: 0 and iso-C17 : 0 3-OH. The major polar lipids were phosphatidylethanolamine, three phosphoglycolipids and three unidentified lipids. The draft genome of strain HAL-9T was 5.41 Mb. The G+C content of strain HAL-9T was 40.6 mol%. Furthermore, the average nucleotide identity and in silico DNA–DNA hybridization values between strain HAL-9T and S. alkalisoli Y3L14T were 86.2 % and 32.8 %, respectively, which were below the standard thresholds for species differentiation. On the basis of phenotypic, genotypic and phylogenetic evidence, strain HAL-9T represents a novel species in the genus Sphingobacterium , for which the name Sphingobacterium olei sp. nov. is proposed. The type strain is HAL-9T (=ACCC 61581T=CCTCC AB 2019176T=KCTC 72287T).


2020 ◽  
Vol 70 (6) ◽  
pp. 3845-3851 ◽  
Author(s):  
Chenghui Peng ◽  
Xiaoxin Zhuang ◽  
Zhiyan Wang ◽  
Congting Gao ◽  
Junwei Zhao ◽  
...  

A novel endophytic actinomycete, designated strain p1410T, was isolated from the root of cattail pollen (Typha angustifolia L.) and characterized using a polyphasic approach. The strain had morphological characteristics and chemotaxonomic properties identical to those of members of the genus Nonomuraea . It produced spiral chains of spores on aerial mycelium as well as forming a pseudosporangium. Whole-cell hydrolysates contained meso-diaminopimelic acid, glucose, ribose and madurose. The menaquinones detected were MK-9(H2), MK-9(H4) and MK-9(H0). The major fatty acids were 10-methyl C17 : 0, iso-C16 : 0 and C17 : 0. The polar lipids were diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine, hydroxyphosphatidylethanolamine, phosphatidylinositol mannoside and an unknown glycolipid. The DNA G+C content of the draft genome sequence, consisting of 11.4 Mbp, was 70.9 mol%. Phylogenetic analysis of 16S rRNA gene sequences showed that strain p1410T belongs to the genus Nonomuraea with the highest sequence similarity to Nonomuraea candida HMC10T (98.6 %), but phylogenetically clustered with Nonomuraea endophytica YIM 65601T (98.4 %) and Nonomuraea longicatena NRRL 15532T (98.3 %). Based on its phenotypic characteristics, DNA–DNA relatedness and average nucleotide identity, the strain is considered to represent a novel species of the genus Nonomuraea , for which the name Nonomuraea typhae sp. nov. is proposed. The type strain is p1410T (=CCTCC AA 2019044T=JCM 33461T).


2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2698-2702 ◽  
Author(s):  
Jian Zhang ◽  
Yuchao Ma ◽  
Huimin Yu

A novel Gram-stain-positive, aerobic, rod-shaped bacterium, designated strain D94-1T, was isolated from soil collected in Liancheng county, Fujian province, PR China. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain D94-1T was a member of the genus Nocardioides and was most closely related to Nocardioides salarius DSM 18239T (98.54 % 16S rRNA gene sequence similarity), Nocardioides marinisabuli DSM 18965T (98.30 %), Nocardioides basaltis KCTC 19365T (98.10 %) and Nocardioides dokdonensis KCTC 19309T (97.76 %). Phenotypic characteristics and DNA–DNA relatedness data served to distinguish strain D94-1T from N. salarius , N. marinisabuli , N. basaltis and N. dokdonensis . The chemotaxonomic properties of strain D94-1T were consistent with those of the genus Nocardioides : the cell-wall peptidoglycan type was based on ll-diaminopimelic acid, the predominant menaquinone was MK-8(H4) and the major fatty acids were iso-C16 : 0 (29.15 %) and anteiso-C17 : 0 (21.0 %). The DNA G+C content was 71.8 mol%. On the basis of the evidence presented in this study, strain D94-1T represents a novel species of the genus Nocardioides , for which the name Nocardioides lianchengensis sp. nov. is proposed. The type strain is D94-1T ( = DSM 24663T = CGMCC 4.6858T).


Author(s):  
Fenfa Li ◽  
Qingyi Xie ◽  
Shuangqing Zhou ◽  
Fandong Kong ◽  
Yun Xu ◽  
...  

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).


Author(s):  
Lina Sun ◽  
Wei Chen ◽  
Kaihua Huang ◽  
Weiguang Lyu ◽  
Xinhua Gao

Strain SJQ9T, an aerobic bacterium isolated from a soil sample collected in Shanghai, PR China, was characterized using a polyphasic approach. It grew optimally at pH 7.0, 30–35 °C and in the presence of 1 % (w/v) NaCl. A comparative analysis of 16S rRNA gene sequences showed that strain SJQ9T fell within the genus Aquabacterium . The closest phylogenetic relatives of strain SJQ9T were Aquabacterium citratiphilum DSM 11900T (98.6 % sequence similarity) and Aquabacterium commune DSM 11901T (96.4 %). Cells of the strain were Gram-stain-negative, motile, non-spore-forming, rod-shaped and positive for oxidase activity and negative for catalase. The chemotaxonomic properties of strain SJQ9T were consistent with those of the genus Aquabacterium : the major fatty acid was summed feature 3 (C16 : 1  ω6c and/or C16 : 1  ω7c). The isoprenoid quinone was Q-8. The major polar lipids were phosphatidylethanolamine, phosphatidylcholine, phosphatidylglycerol and diphosphatidylglycerol. The DNA G+C content was 65.7 mol%. Strain SH9T exhibited a DNA–DNA relatedness level of 34±2 % with A. citratiphilum DSM 11900T and 28±3 % with A. commune DSM 11901T. Based on the obtained data, strain SJQ9T represents a novel species of the genus Aquabacterium , for which the name Aquabacterium soli sp. nov. is proposed. The type strain is SJQ9T (=JCM 33106T=CCTCC AB 2018284T).


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