Paenibacillus glycanilyticus subsp. hiroshimensis subsp. nov., isolated from leaf soil collected in Japan

Akita, Hironaga; Itoiri, Yuya; Takeda, Noriyo; Matsushika, Akinori; Kimura, Zen‐ichiro

doi:10.1007/s00203-020-02166-6

Cited by 4 publications

(8 citation statements)

References 27 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Paenibacillus Species can be gram-negative, gram-positive, or gram variable, and have different growth status on the same medium (the same as P. glycanilyticus CCI5 [ 10 ], the strain YPG26 T cannot grow on LB medium, while Paenibacillus alvei MP1 can grow on LB medium [ 11 ]).The strain YPG26 T formed a single separated colony on TSB agar plate that was 1–1.5 mm in diameter, circular with slightly irregular edges, grayish-white, low convex, translucent, and glossy after aerobic cultivation at 37℃ for 20 h (Fig. S 1 A).…”

Section: Resultsmentioning

confidence: 99%

Genome mining reveals polysaccharide-degrading potential and new antimicrobial gene clusters of novel intestinal bacterium Paenibacillus jilinensis sp. nov.

Chen

Yan

et al. 2022

BMC Genomics

View full text Add to dashboard Cite

Background Drug-resistant bacteria have posed a great threat to animal breeding and human health. It is obviously urgent to develop new antibiotics that can effectively combat drug-resistant bacteria. The commensal flora inhabited in the intestines become potential candidates owing to the production of a wide range of antimicrobial substances. In addition, host genomes do not encode most of the enzymes needed to degrade dietary structural polysaccharides. The decomposition of these polysaccharides mainly depends on gut commensal-derived CAZymes. Results We report a novel species isolated from the chicken intestine, designated as Paenibacillus jilinensis sp. nov. and with YPG26T (= CCTCC M2020899T) as the type strain. The complete genome of P. jilinensis YPG26T is made up of a single circular chromosome measuring 3.97 Mb in length and containing 49.34% (mol%) G + C. It carries 33 rRNA genes, 89 tRNA genes, and 3871 protein-coding genes, among which abundant carbohydrate-degrading enzymes (CAZymes) are encoded. Moreover, this strain has the capability to antagonize multiple pathogens in vitro. We identified putative 6 BGCs encoding bacteriocin, NRPs, PKs, terpenes, and protcusin by genome mining. In addition, antibiotic susceptibility testing showed sensitivity to all antibiotics tested. Conclusions This study highlights the varieties of CAZymes genes and BGCs in the genome of Paenibacillus jilinensis. These findings confirm the beneficial function of the gut microbiota and also provide a promising candidate for the development of new carbohydrate degrading enzymes and antibacterial agents.

show abstract

Section: Resultsmentioning

confidence: 99%

Genome mining reveals polysaccharide-degrading potential and new antimicrobial gene clusters of novel intestinal bacterium Paenibacillus jilinensis sp. nov.

Chen

Yan

et al. 2022

BMC Genomics

View full text Add to dashboard Cite

show abstract

“…Based on our previous studies 3 - 6 , soil samples including compost, leaf soil, mud, and peat moss, were collected at Narashino City in Chiba Prefecture, Japan. Oligotrophs were isolated on 1.5% agar plates (pH 7.2) containing sulfate (<0.4%), calcium (<0.1%), iron (<0.01%), and a few fatty acids and/or other minerals (chlorine, iodine, potassium, zinc) at concentrations of less than 0.01%.…”

Section: Methodsmentioning

confidence: 99%

“…In our method, efficient isolation of objective oligotrophs is possible by screening using 1.5% agar plates, novel bacteria such as Deinococcus kurensis KR-1 T 3 , Enterobacter oligotrophicus CCA6 T 4 , Pseudomonas humi CCA1 T 5 , and Paenibacillus glycanilyticus subsp. hiroshimensis CCI5 T 6 are isolated. In this study, we screened oligotrophs that increase the cost-effectiveness of fermentation processes, and isolated a novel oligotroph, strain CCS26, which exhibits the potential to enhance fermentation efficiency.…”

Section: Introductionmentioning

confidence: 99%

Isolation, draft genome sequence, and identification of Paenibacillus glycanilyticus subsp. hiroshimensis CCS26

Akita,

Shinto,

Kimura

2023

J. Genomics

View full text Add to dashboard Cite

To isolate the useful strain for fermentation to produce bioactive compounds, we screened oligotrophic bacteria, and then strain CCS26 was isolated from leaf soil collected in Japan. This strain was capable of growth on low-nutrient medium. To elucidate the taxonomy of strain CCS26, we determined the 16S rRNA gene and draft genome sequences, respectively. A phylogenetic tree based on 16S rRNA gene sequences showed that strain CCS26 clustered with Paenibacillus species. The draft genome sequence of strain CCS26 consisted of a total of 90 contigs containing 6,957,994 bp, with a GC content of 50.8% and comprising 6,343 predicted coding sequences. Based on analysis of the average nucleotide identity with the draft genome sequence, the strain was identified as P. glycanilyticus subsp. hiroshimensis CCS26.

show abstract

“…Species of Paenibacillus can be gram-negative, gram-positive, or gram variable, and have different growth status on the same medium (The same as P. glycanilyticus CCI5 [10], the strain YPG26 cannot grow on LB medium, While Paenibacillus alvei MP1 can grow on LB medium [11]). The strain YPG26 T formed a single separated colony on TSB agar plate that was 1-1.5mm in diameter, circular with slightly irregular edges, grayish-white, low convex, translucent and glossy after aerobic cultivation at 37℃ with 20h (Figure S2A).…”

Section: Phenotypic Characteristicsmentioning

confidence: 99%

Genome mining reveals polysaccharide-degrading potential and new antimicrobial gene clusters of novel intestinal bacterium Paenibacillus jilinensis sp. nov

Chen

Yan

et al. 2022

Preprint

View full text Add to dashboard Cite

BackgroundDrug-resistant bacteria has posed a great threat to animal breeding and human health, it is obviously urgent to develop new antibiotics that can effectively combat drug-resistant bacteria. The commensal flora inhabited in the intestines become potential candidates owing to the production of a wide range of antimicrobial substances. In addition, host genomes do not encode most enzymes needed to degrade dietary structural polysaccharides, the decomposition of these polysaccharides mainly depends on gut commensals-derived CAZymes.Resultswe report a novel species isolated from the chicken intestine, designated as Paenibacillus jilinensis sp. nov. and with YPG26T (=CCTCC M2020899T) as type strain. The complete genome of P. jilinensis YPG26T consists of a single circular chromosome of 3.97 Mb in length, with a G+C content of 49.34% (mol %). It carries 33 rRNA genes, 89 tRNA genes, and 3871 protein-coding genes among which abundant carbohydrate degrading enzymes (CAZymes) are encoded. Moreover, this strain has capability to antagonize multiple pathogens in vitro, we identified putative 6 BGCs encoding bacteriocin, NRPs, PKs, terpenes and protcusin by genome mining. In addition, antibiotic susceptibility testing showed sensitivity to all antibiotics tested.ConclusionsThis study highlights the varieties of CAZymes genes and BGCs in the genome of Paenibacillus jilinensis. These findings confirm the beneficial function of gut microbiota, and also provide a promising candidate for the development of new carbohydrate degrading enzymes and antibacterial agents.

show abstract

Paenibacillus glycanilyticus subsp. hiroshimensis subsp. nov., isolated from leaf soil collected in Japan

Cited by 4 publications

References 27 publications

Genome mining reveals polysaccharide-degrading potential and new antimicrobial gene clusters of novel intestinal bacterium Paenibacillus jilinensis sp. nov.

Genome mining reveals polysaccharide-degrading potential and new antimicrobial gene clusters of novel intestinal bacterium Paenibacillus jilinensis sp. nov.

Isolation, draft genome sequence, and identification of Paenibacillus glycanilyticus subsp. hiroshimensis CCS26

Genome mining reveals polysaccharide-degrading potential and new antimicrobial gene clusters of novel intestinal bacterium Paenibacillus jilinensis sp. nov

Contact Info

Product

Resources

About