Methylopila carotae sp. nov., a facultative methylotroph, isolated from a root of Daucus carota L

• Published in: Antonie van Leeuwenhoek 2019-09, Vol.112 (9), p.1307-1316
• Main Authors: Kaparullina, Elena N., Chemodurova, Alina A., Agafonova, Nadezhda V., Karataeva, Tatiana A., Detkova, Ekaterina N., Trotsenko, Yuri A., Doronina, Nina V.
• Format: Article
• Language: English
• Subjects: Biomedical and Life Sciences; Carbon sources; Catalase; Daucus carota; Deoxyribonucleic acid; DNA; Energy sources; Fatty acids; Indoles; Isocitrate lyase; Lecithin; Life Sciences; Medical Microbiology; Methanol; Methylamine; Microbiology; New species; Original Paper; pH effects; Phosphatidylcholine; Phosphatidylethanolamine; Phosphatidylglycerol; Phospholipids; Phylogeny; Plant Sciences; Quinones; Rods; rRNA 16S; Serine; Sodium chloride; Soil Science & Conservation; Species classification; Tryptophan
• ISSN: 0003-6072; 1572-9699
• DOI: 10.1007/s10482-019-01263-x

An aerobic facultatively methylotrophic bacterium, designated strain Das4.1 T , was isolated from a root of Daucus carota L. The cells of this strain were observed to be Gram-stain negative, asporogenous, non-motile short rods multiplying by binary fission. Strain Das4.1 T can utilise methanol, methylamine and a variety of polycarbon compounds as carbon and energy sources. C 1 -compounds were found to be assimilated via the isocitrate lyase-negative variant of the serine pathway. On medium with 0.5% methanol, growth of strain Das4.1 T was observed at pH 5.5–9.0 (optimum, pH 6.0–7.0) and 18–37 °C (optimum, 24–29 °C) and in the presence of 0–2% (w/v) NaCl (optimum, 0.05%). Cells are catalase and oxidase positive and synthesise indole from l -tryptophan. The major fatty acids of methanol-grown cells were identified as C 18:1ω7c , C 18:0 and 11-methyl-C 18:1ω7c . The predominant phospholipids were found to be phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine and phosphatidylmonomethylethanolamine. The major respiratory quinone was identified as Q-10. The DNA G + C content of strain Das4.1 T was determined to be 67.3 mol% ( T m ). Phylogenetic analysis based on 16S rRNA gene sequence comparison revealed that strain Das4.1 T belongs to the genus Methylopila and shows high sequence similarity to Methylopila oligotropha 2395A T (98.4%) and Methylopila capsulata IM1 T (98.0%). However, the DNA–DNA relatedness of strain Das4.1 T with M. oligotropha 2395A T was only 22 ± 3%. Based on genotypic, chemotaxonomic and physiological characterisation, the isolate can be classified as a novel species of the genus Methylopila , for which the name Methylopila carotae sp. nov. is proposed. The type strain is Das4.1 T (= VKM B-3244 T  = CCUG 72399 T ).