Sphingomonas oligoaromativorans sp. nov., an oligotrophic bacterium isolated from a forest soil

Han, Song-Ih; Lee, Jae-Chan; Ohta, Hiroyuki; Whang, Kyung-Sook

doi:10.1099/ijs.0.052894-0

Cited by 18 publications

(13 citation statements)

References 41 publications

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“…The presence of abundant sphingoglycolipid in strain MAH-6 T indicates that the isolate is a member of the family Sphingomonadaceae . The similar major polar lipids were detected in close relatives of the genus Sphingomonas [2–4].…”

Section: Full-textmentioning

confidence: 60%

“…The major fatty acids of the members of this genus were identified as C 16 : 0 , C 14 : 0 2OH and summed feature 8 (comprising C 18 : 1 ω7 c and/or C 18 : 1 ω6 c ) [2–4]. Species of the genus Sphingomonas were isolated from various sources, including soil [3, 5], water [2, 6], air [5], hospital respirator [7], plant roots [8], plant tissues [9], rice paddy [10] and noni [4]. Isolation and characterization of new species is very important as different bacteria can be used for human welfare [11–13].…”

Section: Full-textmentioning

confidence: 99%

“…Through the genome sequencing data of strain MAH-6 T , it is possible to find the different genes that are responsible for various activities. The genomic DNA G+C content of strain MAH-6 T , directly calculated from its genome sequence, was determined to be 66.2 mol% which lies in the expected range of G+C contents of members of the genus Sphingomonas [2–4].…”

Section: Full-textmentioning

confidence: 99%

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Sphingomonas chungangi sp. nov., a bacterium isolated from garden soil sample

Akter

Huq

2020

International Journal of Systematic and Evolutionary Microbiology

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A novel bacterial strain, designated MAH-6T, was isolated from a garden soil sample. Cells were Gram-stain-negative, aerobic, non-motile and rod-shaped. The colonies were light yellow, smooth, circular and 0.6–1.2 mm in diameter when grown on nutrient agar for 3 days. Strain MAH-6T grew at 15–35 °C, at pH 5.0–7.0 and with 0–0.5 % NaCl. Cell growth occurred on nutrient agar and Reasoner's 2A (R2A) agar. The strain was positive for both catalase and oxidase tests. Cells were able to hydrolyse starch, aesculin, Tween 20 and Tween 80. According to 16S rRNA gene sequence comparisons, the isolate was identified as a member of the genus Sphingomonas and was most closely related to Sphingomonas polyaromaticivorans B2-7T (98.2 % sequence similarity), Sphingomonas oligoaromativorans SY-6T (96.9 %) and Sphingomonas morindae NBD5T (96.6 %). The novel strain MAH-6T has a draft genome size of 4 370 740 bp (28 contigs), annotated with 4199 protein-coding genes, 46 tRNA and three rRNA genes. The genomic DNA G+C content of the strain was determined to be 66.2 mol% and the predominant isoprenoid quinone is Q-10. The major fatty acids were identified as summed feature 8 (comprising C18 : 1 ω7c and/or C18 : 1 ω6c), C14 : 0 2OH and C16 : 0. The main polar lipids were phosphatidylcholine, sphingoglycolipid, phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. Based on the results of phenotypic, genotypic, chemotaxonomic and DNA–DNA hybridization studies, strain MAH-6T represents a novel species, for which the name Sphingomonas chungangi sp. nov. is proposed, with MAH-6T as the type strain (=KACC 19292T=CGMCC1.13654T).

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Section: Full-textmentioning

confidence: 60%

Section: Full-textmentioning

confidence: 99%

Section: Full-textmentioning

confidence: 99%

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Sphingomonas chungangi sp. nov., a bacterium isolated from garden soil sample

Akter

Huq

2020

International Journal of Systematic and Evolutionary Microbiology

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“…The plates were incubated at 30 °C for 10 days. Bacteria that grew obvious colonies on the 1000-and 10,000-fold diluted LB agar plate were identified as oligotrophic (Han et al 2014).…”

Section: Identification Of Bacteria As Oligotrophicmentioning

confidence: 99%

Oligotrophic bacterium Hymenobacter latericoloratus CGMCC 16346 degrades the neonicotinoid imidacloprid in surface water

et al. 2020

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The intensive and extensive application of imidacloprid in agriculture has resulted in water pollution and risks to aquatic invertebrates. However, pure bacteria remediation of imidacloprid in surface water environments has not been studied. Here, we isolated an imidacloprid-degrading bacterium from a water environment, examined its imidacloprid degradation in pure culture and surface water, sequenced its genome, and compared its Clusters of Orthologous Groups (COG) protein categorization with that for another imidacloprid-degrading bacterium. The isolate was an obligate oligotrophic bacterium, Hymenobacter latericoloratus CGMCC 16346, which degraded imidacloprid via hydroxylation by co-metabolism in pure culture. Resting cells degraded 64.4% of 100 mg/L imidacloprid in 6 days in the presence of co-substrate maltose, and growing culture degraded 40.8% of imidacloprid in 10 days. H. latericoloratus CGMCC 16346 degraded imidacloprid in surface water without co-substrate supplementation and retained imidacloprid-degrading activity after 30 days. The half-life of imidacloprid in surface water was decreased from 173.3 days in the control to 57.8 days by CGMCC 16346 inoculation. Genome sequencing and COG analysis indicated that carbohydrate metabolism and transport, cell wall/membrane biogenesis, and defense mechanisms are enriched in H. latericoloratus CGMCC 16346 compared with the copiotrophic imidacloprid-degrading Pseudoxanthomonas indica CGMCC 6648, indicating that H. latericoloratus CGMCC 16346 is adapted to live in oligotrophic water environments and biofilms. H. latericoloratus CGMCC 16346 is a promising bioremediation agent for elimination of imidacloprid contamination from surface water.

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“…An agar plate excluding nutrient medium was used as a negative control. The plates were incubated at 30 °C for 10 d. Bacteria that grew obvious colonies on the 1000-and 10000-fold diluted LB agar plate were identified as oligotrophic (Han et al 2014).…”

Section: Identification Of Bacteria As Oligotrophicmentioning

confidence: 99%

Oligotrophic bacterium Hymenobacter latericoloratus CGMCC 16346 degrades the neonicotinoid imidacloprid in surface water

Guo

Dai

Guo

et al. 2019

Preprint

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The intensive and extensive application of imidacloprid in agriculture has resulted in water pollution and risks to aquatic invertebrates. However, pure bacteria remediation of imidacloprid in surface water environments has not been studied. Here, we isolated an imidacloprid-degrading bacterium from a water environment, examined its imidacloprid degradation in pure culture and surface water, sequenced its genome, and compared its Clusters of Orthologous Groups (COG) protein categorization with that for another imidacloprid-degrading bacterium. The isolate was an obligate oligotrophic bacterium, Hymenobacter latericoloratus CGMCC 16346, which degraded imidacloprid via hydroxylation by co-metabolism in pure culture. Resting cells degraded 64.4% of 100 mg/L imidacloprid in 6 d in the presence of co-substrate maltose, and growing culture degraded 40.8% of imidacloprid in 10 d. H. latericoloratus CGMCC 16346 degraded imidacloprid in surface water without co-substrate supplementation and retained imidacloprid-degrading activity after 30 d. The half-life of imidacloprid in surface water was decreased from 173.3 d in the control to 57.8 d by CGMCC 16346 inoculation. Genome sequencing and COG analysis indicated that carbohydrate metabolism and transport, cell wall/membrane biogenesis, and defense mechanisms are enriched in H. latericoloratus CGMCC 16346 compared with the copiotrophic imidacloprid-degrading Pseudoxanthomonas indica CGMCC 6648, indicating that H. latericoloratus CGMCC 16346 is adapted to live in oligotrophic water environments and biofilms. H. latericoloratus CGMCC 16346 is a promising bioremediation agent for elimination of imidacloprid contamination from surface water.

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Sphingomonas oligoaromativorans sp. nov., an oligotrophic bacterium isolated from a forest soil

Cited by 18 publications

References 41 publications

Sphingomonas chungangi sp. nov., a bacterium isolated from garden soil sample

Sphingomonas chungangi sp. nov., a bacterium isolated from garden soil sample

Oligotrophic bacterium Hymenobacter latericoloratus CGMCC 16346 degrades the neonicotinoid imidacloprid in surface water

Oligotrophic bacterium Hymenobacter latericoloratus CGMCC 16346 degrades the neonicotinoid imidacloprid in surface water

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