Pseudomonas lopnurensis sp. nov., an endophytic bacterium isolated from Populus euphratica at the ancient Ugan river

Mamtimin, Tursunay; Anwar, Nusratgul; Abdurahman, Mehfuzem; Kurban, Marygul; Rozahon, Manziram; Mamtimin, Hormathan; Hamood, Buayshem; Rahman, Erkin; Wu, Min

doi:10.1007/s10482-021-01524-8

Cited by 4 publications

(7 citation statements)

References 38 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The fatty acid profile of JM10B5a T was similar to that of other related strains, although there were minor quantitative differences observed. The predominant respiratory quinone of strain JM10B5a T was ubiquinone-9 (Q-9) which was consistent with that of other members of the genus Pseudomonas (Zou et al, 2019 ; Mamtimin et al, 2021 ). The major polar lipids were phosphatidylethanolamine (PE), phosphatidylglycerol (PG), and diphosphatidylglycerol (DPG), which were consistent with the previously published data for Pseudomonas species (Zou et al, 2019 ; Li et al, 2020 ).…”

Section: Resultssupporting

confidence: 72%

“…The predominant cellular fatty acids (>10%) of strain JM10B5a T were C 16:0 (22.0%), summed feature 3 (C 16:1 ω6 c and/or C 16:1 ω7 c , 21.3%), and summed feature 8 (C 18:1 ω6 c and/or C 18:1 ω7 c , 29.1%), which were also detected in other Pseudomonas species (Mamtimin et al, 2021 ). Comparative fatty acid profiles between strain JM10B5a T and the two related type strains are shown in Table 1 .…”

Section: Resultsmentioning

confidence: 89%

“…Pseudomonas is widely distributed in various natural environments including water, soil, sediment, plants, animals, and clinical samples, and this genus contains a large number of species (Zou et al, 2019 ; Li et al, 2020 ; Mamtimin et al, 2021 ). The genus Pseudomonas was first proposed with the description of P. aeruginosa JCM 5962 T by Migula ( 1894 ) and belongs to the family Pseudomonadaceae within the class Gammaproteobacteria .…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Pseudomonas oligotrophica sp. nov., a Novel Denitrifying Bacterium Possessing Nitrogen Removal Capability Under Low Carbon–Nitrogen Ratio Condition

Zhang

Yao

et al. 2022

Front. Microbiol.

View full text Add to dashboard Cite

Pseudomonas is a large and diverse genus within the Gammaproteobacteria known for its important ecological role in the environment. These bacteria exhibit versatile features of which the ability of heterotrophic nitrification and aerobic denitrification can be applied for nitrogen removal from the wastewater. A novel denitrifying bacterium, designated JM10B5aT, was isolated from the pond water for juvenile Litopenaeus vannamei. The phylogenetic, genomic, physiological, and biochemical analyses illustrated that strain JM10B5aT represented a novel species of the genus Pseudomonas, for which the name Pseudomonas oligotrophica sp. nov. was proposed. The effects of carbon sources and C/N ratios on denitrification performance of strain JM10B5aT were investigated. In addition, the results revealed that sodium acetate was selected as the optimum carbon source for denitrification of this strain. Besides, strain JM10B5aT could exhibit complete nitrate removal at the low C/N ratio of 3. Genomic analyses revealed that JM10B5aT possessed the functional genes including napA, narG, nirS, norB, and nosZ, which might participate in the complete denitrification process. Comparative genomic analyses indicated that many genes related to aggregation, utilization of alkylphosphonate and tricarballylate, biosynthesis of cofactors, and vitamins were contained in the genome of strain JM10B5aT. These genomic features were indicative of its adaption to various niches. Moreover, strain JM10B5aT harbored the complete operons required for the biosynthesis of vibrioferrin, a siderophore, which might be conducive to the high denitrification efficiency of denitrifying bacterium at low C/N ratio. Our findings demonstrated that the strain JM10B5aT could be a promising candidate for treating wastewater with a low C/N ratio.

show abstract

Section: Resultssupporting

confidence: 72%

Section: Resultsmentioning

confidence: 89%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Pseudomonas oligotrophica sp. nov., a Novel Denitrifying Bacterium Possessing Nitrogen Removal Capability Under Low Carbon–Nitrogen Ratio Condition

Zhang

Yao

et al. 2022

Front. Microbiol.

View full text Add to dashboard Cite

show abstract

“…The clade labeled as Stutzerimonas in our phylogenetic tree (Figure 1) encompasses all 13 named Stutzerimonas species, whose genome sequences were available in the NCBI database at the time of analysis, as well as five non-validly published Pseudomonas species. Apart from their (Mamtimin et al, 2021), "P. phenolilytica" (Kujur and Das, 2022), "P. oligotrophica" (Zhang et al, 2022), "P. saudiphocaensis" (Azhar et al, 2017) and "P. songnenensis" (Zhang et al, 2015)], also group reliably within the Stutzerimonas clade and share CSIs specific for this clade. These species should also be recognized as members of this genus with the names "S. lopnurensis, " "S. phenolilytica, " "S. oligotrophica, " "S. saudiphocaensis" and "S. songnenensis" respectively.…”

Section: Csis Specific For the Genus Stutzerimonasmentioning

confidence: 99%

Phylogenomics studies and molecular markers reliably demarcate genus Pseudomonas sensu stricto and twelve other Pseudomonadaceae species clades representing novel and emended genera

Rudra,

Gupta

2024

Front. Microbiol.

View full text Add to dashboard Cite

Genus Pseudomonas is a large assemblage of diverse microorganisms, not sharing a common evolutionary history. To clarify their evolutionary relationships and classification, we have conducted comprehensive phylogenomic and comparative analyses on 388 Pseudomonadaceae genomes. In phylogenomic trees, Pseudomonas species formed 12 main clusters, apart from the “Aeruginosa clade” containing its type species, P. aeruginosa. In parallel, our detailed analyses on protein sequences from Pseudomonadaceae genomes have identified 98 novel conserved signature indels (CSIs), which are uniquely shared by the species from different observed clades/groups. Six CSIs, which are exclusively shared by species from the “Aeruginosa clade,” provide reliable demarcation of this clade corresponding to the genus Pseudomonas sensu stricto in molecular terms. The remaining 92 identified CSIs are specific for nine other Pseudomonas species clades and the genera Azomonas and Azotobacter which branch in between them. The identified CSIs provide strong independent evidence of the genetic cohesiveness of these species clades and offer reliable means for their demarcation/circumscription. Based on the robust phylogenetic and molecular evidence presented here supporting the distinctness of the observed Pseudomonas species clades, we are proposing the transfer of species from the following clades into the indicated novel genera: Alcaligenes clade – Aquipseudomonas gen. nov.; Fluvialis clade – Caenipseudomonas gen. nov.; Linyingensis clade – Geopseudomonas gen. nov.; Oleovorans clade – Ectopseudomonas gen. nov.; Resinovorans clade – Metapseudomonas gen. nov.; Straminea clade – Phytopseudomonas gen. nov.; and Thermotolerans clade – Zestomonas gen. nov. In addition, descriptions of the genera Azomonas, Azotobacter, Chryseomonas, Serpens, and Stutzerimonas are emended to include information for the CSIs specific for them. The results presented here should aid in the development of a more reliable classification scheme for Pseudomonas species.

show abstract

“…Members of the genus Pseudomonas are Gram-negative, non-spore-forming, aerobic, and motile, possessing one or several polar agella. They have a rod-shaped structure (Mamtimin et al 2021;Palleroni 1984; Woese et al 1984).…”

Section: Introductionmentioning

confidence: 99%

Pseudomonas beijingensis sp. nov., a novel species widely colonizing plant rhizosphere

Liao

et al. 2023

Preprint

View full text Add to dashboard Cite

Three bacterial strains, FP830T, FP2034, and FP2262, were isolated from the rhizosphere soil of rice, corn, and highland barley plants in Beijing, Heilongjiang, and Tibet, respectively, in PR China. These strains are gram-negative, aerobic, and rod-shaped. They exhibited optimal growth at 28°C and pH 7.0 in the presence of 2% (w/v) NaCl and produced a diffusible fluorescent pigment under ultraviolet light when cultured on King's B plates. Phylogenetic analysis based on 16S rRNA gene and multilocus sequence data showed that FP830T, FP2034, and FP2262 belonged to the genus Pseudomonas and formed a distinct branch. The genome sizes of these three isolates ranged from 6.4 to 6.6 Mbp with a G+C content of 60.86-61.02 mol%. The orthologous average nucleotide identity and digital DNA-DNA hybridization values of strains FP830T, FP2034, and FP2262, along with their closest relatives, were not higher than 92.7% and 49.8%, respectively. These values were lower than the threshold range for prokaryotic species delineation. The dominant cellular fatty acids (> 10%) were C16:0, summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), and summed feature 8 (C18:1 ω7c). The major polar lipids detected were phosphatidylethanolamine, diphosphatidylglycerol, and aminophospholipids. Additionally, the predominant respiratory quinone was ubiquinone (Q-9). Based on phenotypic, chemotaxonomic, and genotypic data, it was concluded that strains FP830T, FP2034, and FP2262 represented a novel species within the genus Pseudomonas. Therefore, the name Pseudomonas beijingensis sp. nov. was proposed for this novel species. The type strain was FP830T (=ACCC 62448T = JCM 35689T).

show abstract

Pseudomonas lopnurensis sp. nov., an endophytic bacterium isolated from Populus euphratica at the ancient Ugan river

Cited by 4 publications

References 38 publications

Pseudomonas oligotrophica sp. nov., a Novel Denitrifying Bacterium Possessing Nitrogen Removal Capability Under Low Carbon–Nitrogen Ratio Condition

Pseudomonas oligotrophica sp. nov., a Novel Denitrifying Bacterium Possessing Nitrogen Removal Capability Under Low Carbon–Nitrogen Ratio Condition

Phylogenomics studies and molecular markers reliably demarcate genus Pseudomonas sensu stricto and twelve other Pseudomonadaceae species clades representing novel and emended genera

Pseudomonas beijingensis sp. nov., a novel species widely colonizing plant rhizosphere

Contact Info

Product

Resources

About