Lacimicrobium alkaliphilum gen. nov., sp. nov., a member of the family Alteromonadaceae isolated from a salt lake

International Journal of Systematic and Evolutionary Microbiology

Liu

et al. 2020

Six Gram-stain-negative, catalase- and oxidase-positive, rod-shaped and motile strains (FT9WT, FT25W, FT26WT, FT109WT, FT134W and CY42WT) were isolated from subtropical streams in China. Comparisons based on 16S rRNA gene sequences showed that the six strains shared similarities of less than 98.1 % with other species within the family Oxalobacteraceae and formed two separately distinct clades in phylogenetic trees. The 16S rRNA gene sequence similarities between strains FT9WT and FT25W, and between strains FT109WT and FT134W were both 99.7 %. The genome sizes of strains FT9WT, FT25W, FT26WT, FT109WT, FT134W and CY42WT were 6.45, 6.45, 6.54, 6.43, 6.52 and 6.74 Mbp with G+C contents of 64.0, 64.0, 63.8, 63.2, 63.2 and 62.5 %, respectively. The calculated pairwise average nucleotide (ANI) values among the six strains and other related species were less than 93.9 %, except that the values were 99.9 % between strains FT9WT and FT25W, 98.2 % between strains FT109WT and FT134W, and 95.0 and 95.1 % between strain FT26WT and strains FT9WT and FT25W, respectively. However, strain FT26WT shared 16S rRNA gene sequence similarities of only 98.3 and 98.2 % with FT9WT and FT25W, respectively. The respiratory quinone of the six strains was determined to be Q-8. The major fatty acids were C16 : 1 ω7c, C16 : 0 and C12 : 0. The predominant polar lipids included phosphatidylethanolamine and phosphatidylglycerol. Considering the phenotypic, biochemical, genotypic and ANI data, strains FT9WT and FT25W, and FT109WT and FT134W may belong to the same species, respectively. Although the pairwise ANI values between strain FT26WT and each of strains FT9WT and FT25W were located in the transition region of species demarcation, the dissimilarities among them indicated that strain FT26WT could represent an independent novel species. The reconstructed phylogenomic tree based on a concatenation of 92 core genes showed that the six strains clustered closely with Duganella sacchari Sac-22T and Duganella radicis KCTC 22382T, and supported that these six strains belong to the genus Duganella . The names Duganella albus sp. nov. (type strain FT9WT=GDMCC 1.1637T=KACC 21313T), Duganella aquatilis sp. nov. (type strain FT26WT=GDMCC 1.1641T=KACC 21315T), Duganella pernnla sp. nov. (type strain FT109WT=GDMCC 1.1688T=KACC 21480T) and Duganella levis sp. nov. (type strain CY42WT=GDMCC 1.1673T=KACC 21465T) are proposed.

mentioning

confidence: 99%

“…Antibiotic-sensitivity tests were conducted using filter-paper discs containing 30 compounds separately at different concentrations (Hangzhou Microbial Reagent). The discs were placed onto R2A agar plates spread with the strains and then incubated at 24 °C for 48 h. The inhibition zones were assessed as previously described [24].…”

mentioning

confidence: 99%

Duganella albus sp. nov., Duganella aquatilis sp. nov., Duganella pernnla sp. nov. and Duganella levis sp. nov., isolated from subtropical streams in China

International Journal of Systematic and Evolutionary Microbiology

Liu

et al. 2020

“…Antibiotic sensitivity tests were conducted using filter paper discs containing the following 30 compounds (μg disc −1 , unless otherwise stated): penicillin (10 U disc −1 ), oxacillin (1), ampicillin (10), carbenicillin (100), piperacillin (100), cephalexin (30), cefamezin (30), cefradine (30), cefuroxime (30), ceftazidime (30), ceftriaxone (30), cefoperazone (75), amikacin (30), gentamicin (10), kanamycin (30), neomycin (30), tetracycline (30), doxycycline (30), minocycline (30), erythromycin (15), norfloxacin (10), midecamycinum (30), ofloxacin (5), ciprofloxacin (5), vancomycin (30), polymyxin B (300 IU disc −1 ), compound sulfamethoxazole (1.25), furazolidone (300), chloroamphenicol (30) and clindamycin (2). The discs were placed onto R2A agar plates spread with the strains and then incubated at 24 °C for 48 h. The inhibition zones were assessed as described previously [30].…”

Section: Full-textmentioning

confidence: 99%

Duganella lactea sp. nov., Duganella guangzhouensis sp. nov., Duganella flavida sp. nov. and Massilia rivuli sp. nov., isolated from a subtropical stream in PR China and proposal to reclassify Duganella ginsengisoli as Massilia ginsengisoli comb. nov.

International Journal of Systematic and Evolutionary Microbiology

Liu

et al. 2020

Five Gram-stain-negative, catalase- and oxidase-positive, rod-shaped and motile strains (FT50WT, FT80WT, FT92WT, FT94W and FT135WT) were isolated from a subtropical stream in PR China. Comparisons based on 16S rRNA gene sequences showed that strains FT50WT, FT94W and FT135WT take strain Duganella sacchari Sac-22T, and strains FT80WT and FT92WT take strain Duganella ginsengisoli DCY83T as their closest neighbour in the phylogenetic trees, respectively. The G+C contents of strains FT50WT, FT80WT, FT92WT, FT94W and FT135WT were 63.3, 62.4, 62.8, 63.8 and 60.8 %, respectively. The reconstructed phylogenomic tree based on concatenated 92 core genes showed that strains FT50WT, FT80WT, FT94W and FT135WT clustered together with species of the genus Duganella , but strains FT92WT and D. ginsengisoli KCTC 42409T were located in the clades of the genus Massilia . The calculated pairwise average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values among strains FT50WT, FT80WT, FT92WT, FT94W, FT135WT and related strains were in the ranges of 75.6–87.8% and 20.3–33.8% except that the values between strains FT50WT and FT94W were 98.7 and 89.2%, respectively. The respiratory quinone of these five strains was Q-8. The major fatty acids were C16 : 1 ω7c, C16 : 0, C18 : 1 ω7c and C12 : 0. The polar lipids included phosphatidylethanolamine, phosphatidylglycerol and one unidentified phospholipid. Considering the distinct phylogenetic relationships of D. ginsengisoli with species of the genus Massilia in the phylogenomic tree, it was reasonable to transfer D. ginsengisoli to the genus Massilia as Massilia ginsengisoli comb. nov. Combining the results of phylogenomic analysis, ANI and dDDH data, and a range of physiological and biochemical characteristics together, strains FT50WT and FT94W should belong to the same species and be assigned to genus Duganella with strains FT80WT and FT135WT together, and strain FT92WT should be assigned to the genus Massilia , for which the names Duganella lactea sp. nov. (type strain FT50WT=GDMCC 1.1674T=KACC 21466T), Duganella guangzhouensis sp. nov. (FT80WT=GDMCC 1.1678T=KACC 21470T), Duganella flavida sp. nov. (FT135WT=GDMCC 1.1745T=KACC 21659T) and Massilia rivuli sp. nov. (FT92WT=GDMCC 1.1682T=KACC 21474T) are proposed.

“…Antibiotic-sensitivity tests were conducted using filter-paper discs containing 30 compounds. The discs were placed onto R2A agar plates spread with the strains and then incubated at 24 °C for 48 h. The inhibition zones were assessed as previously described [24].…”

Section: Full-textmentioning

confidence: 99%

Janthinobacterium violaceinigrum sp. nov., Janthinobacterium aquaticum sp. nov. and Janthinobacterium rivuli sp. nov., isolated from a subtropical stream in China

International Journal of Systematic and Evolutionary Microbiology

Cai

et al. 2020

Four strains assigned the names FT13W T , FT14W, FT58W T and FT68W T were isolated from a subtropical stream in PR China. All the strains were Gram-stain-negative, catalase-and oxidase-positive, rod-shaped and motile with flagella. Comparisons based on 16S rRNA gene sequences showed that strains FT13W T , FT14W, FT58W T and FT68W T belonged to genus Janthinobacterium and shared 16S rRNA gene similarities in the range of 98.8-99.7 % with Janthinobacterium lividum DSM 1522 T , Janthinobacterium agaricidamnosum DSM 9628 T and 'Janthinobacterium svalbardensis JA-1', respectively. The calculated pairwise average nucleotide identity (ANI) values among the genomes of above seven strains were in the range of 79.0-92.2 %, except that the ANI value was 96.8 % between strain FT13W T and FT14W. The respiratory quinone of strains FT13W T , FT14W, FT58W T and FT68W T was determined to be Q-8. The major fatty acids were C 16 : 1 ω7c, C 16 : 0 , C 18 : 1 ω7c and C 12 : 0. The polar lipids included phosphatidylethanolamine, phosphatidylglycerol and one unidentified phospholipid. The genome sizes of strains FT13W T , FT14W, FT58W T and FT68W T were 6.45, 6.38, 5.73 and 6.37 Mbp with G+C contents of 63.4, 63.7, 61.6 and 63.1 mol%, respectively. Combining phenotypic, biochemical, genotypic and ANI data, strain FT13W T and FT14W should belong to the same species. The four strains were considered to represent three novel species within genus Janthinobacterium, for which the names Janthinobacterium violaceinigrum sp. nov. (type strain FT13W T =GDMCC 1.1638 T =KACC 21319 T), Janthinobacterium aquaticum sp. nov. (FT58W T =GDMCC 1.1676 T =KACC 21468 T) and Janthinobacterium rivuli sp. nov. (FT68W T =GDMCC 1.1677 T =KACC 21469 T) are proposed.