Cellulomonas citrea sp. nov., isolated from paddy soil

Kim, Song-Yeon; Whang, Kyung-Sook

doi:10.1099/ijsem.0.004409

Cited by 12 publications

(6 citation statements)

References 36 publications

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“…Bootstrap values of ≥50% are indicated at the respective nodes. Reference type strains are indicated with superscript “†.” The backgrounds of the reference strains are colored according to the sugar (sucrose and/or glucose) utilization capacity of those bacteria based on the data from (1) Poindexter ( 2015 ); (2) Hamzah et al ( 2006 ); (3) Felföldi et al ( 2019 ); (4) Sajnaga and Jach ( 2020 ); (5) Kuykendall et al ( 2015 ); (6) Sheu et al ( 2020 ); (7) Xie and Yokota ( 2006 ); (8) Raj et al ( 2012 ); (9) Weon et al ( 2008 ); (10) Kennedy ( 2015 ); (11) Anandham et al ( 2009 ); (12), Noar and Buckley ( 2009 ); (13) Imhoff ( 2015a ); (14) Hardoim et al ( 2013 ); (15) Grimont and Grimont ( 2015 ); (16) Lee et al ( 2020 ); (17) Normand and Benson ( 2015 ); (18) Stackebrandt and Kandler ( 1979 ); (19) Holt et al ( 1988 ); (20), Rainey et al ( 2015 ); (21) Janssen ( 2015 ); (22) Okamura et al ( 2011 ); (23) Thrash and Coates ( 2015 ). The black-and-white shading in the columns on the right-hand of the 16S-OTU name indicates the mean relative abundance of the 16S-OTUs in each rice genotype ( n = 2 for Nipponbare and CG14; n = 3 for agpl1 and Leafstar).…”

Section: Resultsmentioning

confidence: 99%

Genotypic Variation of Endophytic Nitrogen-Fixing Activity and Bacterial Flora in Rice Stem Based on Sugar Content

et al. 2021

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Enhancement of the nitrogen-fixing ability of endophytic bacteria in rice is expected to result in improved nitrogen use under low-nitrogen conditions. Endophytic nitrogen-fixing bacteria require a large amount of energy to fix atmospheric nitrogen. However, it is unknown which carbon source and bacteria would affect nitrogen-fixing activity in rice. Therefore, this study examined genotypic variations in the nitrogen-fixing ability of rice plant stem as affected by non-structural carbohydrates and endophytic bacterial flora in field-grown rice. In the field experiments, six varieties and 10 genotypes of rice were grown in 2017 and 2018 to compare the acetylene reduction activity (nitrogen-fixing activity) and non-structural carbohydrates (glucose, sucrose, and starch) concentration in their stems at the heading stage. For the bacterial flora analysis, two genes were amplified using a primer set of 16S rRNA and nitrogenase (NifH) gene-specific primers. Next, acetylene reduction activity was correlated with sugar concentration among genotypes in both years, suggesting that the levels of soluble sugars influenced stem nitrogen-fixing activity. Bacterial flora analysis also suggested the presence of common and genotype-specific bacterial flora in both 16S rRNA and nifH genes. Similarly, bacteria classified as rhizobia, such as Bradyrhizobium sp. (Alphaproteobacteria) and Paraburkholderia sp. (Betaproteobacteria), were highly abundant in all rice genotypes, suggesting that these bacteria make major contributions to the nitrogen fixation process in rice stems. Gammaproteobacteria were more abundant in CG14 as well, which showed the highest acetylene reduction activity and sugar concentration among genotypes and is also proposed to contribute to the higher amount of nitrogen-fixing activity.

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Section: Resultsmentioning

confidence: 99%

Genotypic Variation of Endophytic Nitrogen-Fixing Activity and Bacterial Flora in Rice Stem Based on Sugar Content

et al. 2021

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“…According to the List of Prokaryotic names with Standing in Nomenclature (https://lpsn.dsmz.de/genus/cellulomonas), this genus comprises 38 species with validly published names. Most members of the genus Cellulomonas have been isolated from various environments, such as soil [2][3][4][5][6], compost [7,8], sand [9], water [10,11] and plants [12,13]. This genus contains Gram-stain-positive, aerobic or facultatively anaerobic, short rod-shaped bacteria that have peptidoglycan cell walls containing l-ornithine.…”

Section: Introductionmentioning

confidence: 99%

Cellulomonas alba sp. nov. and Cellulomonas edaphi sp. nov., isolated from wetland soils

Park,

Kim,

Chhetri

et al. 2024

International Journal of Systematic and Evolutionary Microbiology

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Two novel strains were isolated from wetland soils in Goyang, Republic of Korea. The two Gram-stain-positive, facultatively anaerobic, rod-shaped bacterial-type strains were designated MW4T and MW9T. Phylogenomic analysis based on whole-genome sequences suggested that both strains belonged to the genus Cellulomonas . The cells of strain MW4T were non-motile and grew at 20–40 °C (optimum, 35 °C), at pH 6.0–10.0 (optimum, pH 8.0) and in the presence of 0–1.0% NaCl (optimum, 0 %). The cells of strain MW9T were non-motile and grew at 20–40 °C (optimum, 35 °C), at pH 5.0–9.0 (optimum, pH 8.0) and in the presence of 0–1.0% NaCl (optimum, 0 %). The average nucleotide identity (77.1–88.1 %) and digital DNA–DNA hybridization values (21.0–34.8 %) between the two novel strains and with their closely related strains fell within the range for the genus Cellulomonas . The novel strains MW4T and MW9T and reference strains possessed alkane synthesis gene clusters (oleA, oleB, oleC and oleD). Phylogenomic, phylogenetic, average nucleotide identity, digital DNA–DNA hybridization, physiological and biochemical data indicated that the novel strains were distinct from other members of the family Cellulomonadaceae . We propose the names Cellulomonas alba sp. nov. (type strain MW4T=KACC 23260T=TBRC 17645T) and Cellulomons edaphi sp. nov. (type strain MW9T=KACC 23261T=TBRC 17646T) for the two strains.

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“…Moreover, members of this genus contain MK-9 (H 4 ) as the predominant menaquinone, with phosphatidylinositol mannoside and diphosphatidylglycerol as the major polar lipids [5]. Cellulomonas species were mostly isolated from environmental samples, such as various soils, air, sea water, and plants [4][5][6][7][8][9][10][11][12][13][14], and a few members were isolated from animals. During a previous study of bacterial biodiversity in wild animals living on the Qinghai-Tibet Plateau, four Cellulomonas species of wild animal origin were identified [15,16].…”

Section: Introductionmentioning

confidence: 99%

Cellulomonas xiejunii sp. nov., Cellulomonas chengniuliangii sp. nov. and Cellulomonas wangsupingiae sp. nov., three cellulolytic bacteria isolated from intestinal contents of Marmota himalayana

Gui

et al. 2023

International Journal of Systematic and Evolutionary Microbiology

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Six facultative anaerobic, Gram-stain-positive, oxidase-negative, rod-shaped bacteria (strains zg-B89T, zg-B12, zg-Y338T, zg-Y138, zg-Y908T and zg-Y766), were isolated from the intestinal contents of Marmota himalayana in Qinghai Province, PR China. The 16S rRNA gene sequence analysis showed that zg-B89T showed highest similarity to Cellulomonas iranensis NBRC 101100T (99.5 %), zg-Y338T to Cellulomonas cellasea DSM 20118T (98.7 %), and zg-Y908T to Cellulomonas flavigena DSM 20109T (99.0 %). Phylogenetic and phylogenomic analysis based on 16S rRNA gene and 881 core genes revealed that these six strains formed three separate clades in the genus Cellulomonas . Average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between these three novel species and all members of the genus Cellulomonas were below species thresholds (95–96 % for ANI and 70 % for dDDH). The DNA G+C contents of zg-B89T, zg-Y338T and zg-Y908T were 73.6, 72.9 and 74.5 %, respectively. Strains zg-B89T and zg-Y908T had anteiso-C15 : 0, C16 : 0 and anteiso-C15 : 1 A, and zg-Y338T had anteiso-C15 : 0, C16 : 0 and iso-C16 : 0 as the main fatty acids. All novel type strains had MK-9 (H4) as the predominant respiratory quinone, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and phosphatidylinositol mannoside as the major polar lipids, and rhamnose, ribose and glucose as the cell-wall sugars. The peptidoglycan amino acids of zg-B89T, zg-Y338T and zg-Y908T contained ornithine, alanine, glutamic acid and aspartic acid (except for zg-Y338T). Based on genotypic, phenotypic, phylogenetic and biochemical properties, the six uncharacterized strains represent three novel species in the genus Cellulomonas , for which the names Cellulomonas xiejunii sp. nov. (type strain zg-B89T=GDMCC 1.2821T=KCTC 49756T), Cellulomonas chengniuliangii sp. nov. (type strain zg-Y338T=GDMCC 1.2829T=KCTC 49754T) and Cellulomonas wangsupingiae sp. nov. (type strain zg-Y908T=GDMCC 1.2820T=KCTC 49755T) are proposed, respectively.

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Cellulomonas citrea sp. nov., isolated from paddy soil

Cited by 12 publications

References 36 publications

Genotypic Variation of Endophytic Nitrogen-Fixing Activity and Bacterial Flora in Rice Stem Based on Sugar Content

Genotypic Variation of Endophytic Nitrogen-Fixing Activity and Bacterial Flora in Rice Stem Based on Sugar Content

Cellulomonas alba sp. nov. and Cellulomonas edaphi sp. nov., isolated from wetland soils

Cellulomonas xiejunii sp. nov., Cellulomonas chengniuliangii sp. nov. and Cellulomonas wangsupingiae sp. nov., three cellulolytic bacteria isolated from intestinal contents of Marmota himalayana

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