Methylomonas rhizoryzae sp. nov., a type I methanotroph isolated from the rhizosphere soil of rice

Zhu, Pingping; Cheng, Minggen; Pei, Dongmei; Liu, Yongchuang; Yan, Xin

doi:10.1007/s10482-020-01487-2

Cited by 9 publications

(6 citation statements)

References 32 publications

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“…16 : 1 ω7c/C 16 : 1 ω6c and C 16 : 1 ω5c (Table2), revealing similar fatty acid patterns to those observed in other members of the genus Methylomonas, especially 'M. rhizoryzae'[56]. Notably, C 16 : 1 ω8c, predominant in most embers of the genus Methylomonas (i.e., M. koyamae, M. lenta, M. paludis, M. methanica, M. fodinarum, M. aurantiaca and 'M.…”

supporting

confidence: 69%

“…The major fatty acids (> 5 %) in OY6 T were C 14 : 0 , C 16 : 1 ω7 c /C 16 : 1 ω6 c and C 16 : 1 ω5 c (), revealing similar fatty acid patterns to those observed in other members of the genus Methylomonas , especially ' M. rhizoryzae ' [56]. Notably, C 16 : 1 ω8 c , predominant in most embers of the genus Methylomonas (i.e., M. koyamae , M. lenta , M. paludis, M. methanica , M. fodinarum , M. aurantiaca and ' M. rubra '), was not detected in OY6 T .OY6 T had large amounts of C 16 : 1 ω5 c (19.3 %), similar to ' M. rhizoryzae ' (16.3 %) , M. koyamae (16.7 %) and M. lenta (11.7–18.3 %), compared with other strains of members of the genus Methylomonas , which had low levels below 10 %.…”

Section: Resultsmentioning

confidence: 79%

“…rubra' 15sh [58]; 7, M. koyamae Fw12E-Y T [15]; 8, M. paludis MG30 T [16]; 9, M. lenta R-45377 T [14]; 10, 'M. rhizoryzae' GJ1 [56]; 11, M. albis EbA T [12]; 12, M. fluvii EbB T [12]; 13, M. rapida MP1 T [13]. +, Growth; -, absence of growth; '±, weak growth or no clear result; nr, not reported; v, variable.…”

Section: Table 1 Major Characteristics Of Oy6 T In Comparison With Ot...mentioning

confidence: 99%

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Methylomonas defluvii sp. nov., a type I methane-oxidizing bacterium from a secondary sedimentation tank of a wastewater treatment plant

Ouyang,

Wang,

Nie

et al. 2024

International Journal of Systematic and Evolutionary Microbiology

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An aerobic methanotroph was isolated from a secondary sedimentation tank of a wastewater treatment plant and designated strain OY6T. Cells of OY6T were Gram-stain-negative, pink-pigmented, motile rods and contained an intracytoplasmic membrane structure typical of type I methanotrophs. OY6T could grow at a pH range of 4.5–7.5 (optimum pH 6.5) and at temperatures ranging from 20 °C to 37 °C (optimum 30 °C). The major cellular fatty acids were C14 : 0, C16 : 1ω7c/C16 : 1ω6c and C16 : 1ω5c; the predominant respiratory quinone was MQ-8. The genome size was 5.41 Mbp with a DNA G+C content of 51.7 mol%. OY6T represents a member of the family Methylococcaceae of the class Gammaproteobacteria and displayed 95.74–99.64 % 16S rRNA gene sequence similarity to the type strains of species of the genus Methylomonas. Whole-genome comparisons based on average nucleotide identity (ANI) and digital DNA–DNA hybridisation (dDDH) confirmed that OY6T should be classified as representing a novel species. The most closely related type strain was Methylomonas fluvii EbBT, with 16S rRNA gene sequence similarity, ANI by blast (ANIb), ANI by MUMmer (ANIm) and dDDH values of 99.64, 90.46, 91.92 and 44.5 %, respectively. OY6T possessed genes encoding both the particulate methane monooxygenase enzyme and the soluble methane monooxygenase enzyme. It grew only on methane or methanol as carbon sources. On the basis of phenotypic, genetic and phylogenetic data, strain OY6T represents a novel species within the genus Methylomonas for which the name Methylomonas defluvii sp. nov. is proposed, with strain OY6T (=GDMCC 1.4114T=KCTC 8159T=LMG 33371T) as the type strain.

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supporting

confidence: 69%

Section: Resultsmentioning

confidence: 79%

Section: Table 1 Major Characteristics Of Oy6 T In Comparison With Ot...mentioning

confidence: 99%

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Methylomonas defluvii sp. nov., a type I methane-oxidizing bacterium from a secondary sedimentation tank of a wastewater treatment plant

Ouyang,

Wang,

Nie

et al. 2024

International Journal of Systematic and Evolutionary Microbiology

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“…It can tolerate up to 1% of NaCl-salinity in the medium. The comparisons of some of the signi cant characteristics of strain WWC4 with other members of the Methylomonas genus are enlisted in Table 3 [13,29].…”

Section: Physiology and Chemotaxonomymentioning

confidence: 99%

“…The cell wall fatty acids pro le of strain WWC4 enclosed maximum amounts of 15:1 ω8c (21.09%), 16:0 3 OH (15.7%), and 16:1ω5c (12.6%). The detail of the cell wall fatty acids pro le of strain WWC4 and type strains of species of the Methylomonas genus has provided in Table 4 [13,29]. The FAME pro le of WWC4 is unique as compared to the other Methylomonas species (Table 4).…”

Section: Physiology and Chemotaxonomymentioning

confidence: 99%

Description and salient genome characteristics of a putative novel species Methylomonas strain WWC4, isolated from an Indian freshwater ecosystem

Khatri

Mohite

Manvi

et al. 2023

Preprint

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Freshwater wetlands are interesting habitats for methane-oxidizing bacteria or methanotrophs. We isolated a methanotroph, strain WWC4, from the mud of a freshwater creek running close to a beach in the coastal regions of Western India, near Alibag town. Strain WWC4 was a strict methanotroph, thriving only on methane and marginally on methanol. It formed pink to slightly orange-colored round colonies and formed pinkish turbidity or surface pellicle in liquid culture, indicative of the Methylomonas genus. The strain is characterized by thick, short, and motile rods, 2.5-3 µm long and 0.8-1.2 µm wide in size, with a Gram-negative character. Based on the 16S rRNA gene sequence, the culture was classified as a Methylomonas strain, with the nearest type species being Methylomonas koyamae Fw12E-YT showing 97.81% sequence similarity. A comparison of the draft genomes indicated that Methylomonas sp. WWC4 genome showed only 74.45%, 75.72%, and 21.5% similarities of AAI, ANIb, and dDDH values, respectively, with its closest neighbor Methylomonas koyamae Fw12E-YT, indicating its taxonomic novelty at the level of species. The GC content of the genome was 55.9 mol%. The whole-genome shotgun project was deposited at DDBJ/ENA/GenBank, and the accession number is JAATWI01.1. The cell wall lipids indicated a unique fingerprint with 15:1 ω8c (21.09%), 16:0 3OH (15.7%), and 16:1ω5c (12.6%) being the primary fatty acids, dissimilar to any other related Methylomonas species, confirming its taxonomic novelty. The genome was further explored for carotenoid pathways and plant growth promotion genes for its biotechnological potential. Strain WWC4 did not withstand cryopreservation and could not be deposited in two international culture collections. The culture is part of our institutional, WDCM-approved culture collection as MCMB-1474, maintained live. Due to its taxonomical novelty, strain WWC4 is also proposed to be a member of a Candidatus species of the Methylomonas genus and named “Candidatus Methylomonas sedimenticola” strain WWC4.

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Isolation of a facultative methanotroph Methylocystis iwaonis SD4 from rice rhizosphere and establishment of rapid genetic tools for it

Wang,

Zhou

et al. 2024

Biotechnol Lett

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Methylomonas rhizoryzae sp. nov., a type I methanotroph isolated from the rhizosphere soil of rice

Cited by 9 publications

References 32 publications

Methylomonas defluvii sp. nov., a type I methane-oxidizing bacterium from a secondary sedimentation tank of a wastewater treatment plant

Methylomonas defluvii sp. nov., a type I methane-oxidizing bacterium from a secondary sedimentation tank of a wastewater treatment plant

Description and salient genome characteristics of a putative novel species Methylomonas strain WWC4, isolated from an Indian freshwater ecosystem

Isolation of a facultative methanotroph Methylocystis iwaonis SD4 from rice rhizosphere and establishment of rapid genetic tools for it

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