Description of Paenibacillus dokdonensis sp. nov., a new bacterium isolated from soil

Abstract

Two strains isolated from soil samples were designated as YH-JAE5T and YH-JAE2. The isolates were facultative anaerobic, Gram-stain-variable, motile, rod-shaped bacteria. Phylogenetic analysis indicated that the isolates belonged to the genus Paenibacillus , but the 16S rRNA gene sequence similarities were <98 % when compared with other species within the genus. Analysis of rpoB gene revealed the isolates formed a sub-cluster with P. chibensis . The only menaquinone identified was MK-7. The two isolates contained meso-diaminopimelic acid within their cell wall peptidoglycan. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phospholipid, aminophospholipids, and lipids. The major fatty acids were C15 : 0 anteiso and C15 : 0 iso. The average nucleotide identity, average amino acid identity, and digital DNA–DNA hybridization values between isolate YH-JAE5T and the most closely related reference strain ( Paenibacillus chibensis KCTC 3758T) were 81.7, 84.8 and 23.4 %, respectively. The G+C content of the genomic DNA was 47.4 mol%. Thus, the polyphasic data revealed that YH-JAE2 (=KCTC 43239=JCM 34435) and YH-JAE5T (=KCTC 43059=JCM 33533) represent a new species. The name Paenibacillus dokdonensis sp. nov. is proposed.

Aerococcus kribbianus sp. nov., a facultatively anaerobic bacterium isolated from pig faeces

“…Alignment and phylogenetic analyses were performed using phylip and j phydit , respectively [12]. Three algorithms (maximum-likelihood, neighbour-joining and minimum-evolution) were used to reconstruct phylogenetic trees [13]. Bootstrap analysis was used to evaluate reliability [14] based on 1000 resamplings.…”

“…lactis KCTC 3769 T was used as the outgroup. To differentiate the isolates, BOX-PCR fingerprinting was carried out as described previously [13].…”

Paenibacillus mangrovi sp. nov., a novel endophytic bacterium isolated from bark of Kandelia candel

“…Comparison of the characteristics of strain KQZ6P-2 T and its phylogenetic neighbours Strains: 1, KQZ6P-2 T (data obtained from this study); 2, Paenibacillus chibensis CICC23908 T (data obtained from this study); 3, Paenibacillus dokdonensis YH-JAE5 T[42]; 4, Paenibacillus cookii LMG 18419 T[43]; 5, Paenibacillus azoreducens CM1 T[44]. +, Positive; −, negative; w, weakly positive; nd, no data obtained.…”

Limosilactobacillus kribbianus sp. nov., isolated from pig faeces

“…Phylogenetic trees were reconstructed using unambiguous alignments. Alignments and phylogenetic analyses were performed using the phylip and jPHYDIT programs, respectively [11], and the neighbour-joining, maximum-likelihood and minimum-evolution algorithms were used to reconstruct phylogenetic trees [12]. Bootstrap analysis used 1000 re-samplings to evaluate the reliability of the phylogenetic trees.…”