Identification of Burkholderia thailandensis with novel genotypes in the soil of central Sierra Leone

Birnie, Emma; Hof, Senne van ’t; Bijnsdorp, Anne; Mansaray, Yembeh; Huizenga, Erdi; Ende, Arie van der; Hugenholtz, Floor; Grobusch, Martin P.; Wiersinga, W. Joost

doi:10.1371/journal.pntd.0007402

Cited by 12 publications

(7 citation statements)

References 18 publications

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“… B. thailandensis has been found in two major areas of the world, namely, Southeast Asia and northern Australia, and is present mainly in soil [3–6]. However, to date, only a few studies have described the isolation of B.…”

Section: Introductionmentioning

confidence: 99%

Genomic features and virulence characteristics of a rare Burkholderia thailandensis strain causing human infection

et al. 2023

Journal of Medical Microbiology

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Introduction. Burkholderia thailandensis is a clinically rare opportunistic pathogen in the genus Burkholderia , and the genomic features and virulence characteristics of B. thailandensis strains that cause human infection remain unclear. Gap Statement. B. thailandensis strains with different virulence induce different host innate immune responses in vitro. Aim. This work aimed to understand the sequence diversity, phylogenetic relationship, and virulence of B. thailandensis BPM causing human infection. Methodology. The comparative molecular and genomic analyses, and mouse infection studies were applied to analyse the virulence and genomic features of B. thailandensis BPM originating from China. Results. The whole genome sequence analysis showed that the genomes of BPM and other avirulent B. thailandensis strains were broadly similar, comprising two highly syntenic chromosomes with comparable numbers of coding regions (CDs), protein family distributions, and horizontally acquired genomic islands. By examining species-specific genomic regions, we obtained molecular explanations for previously known differences in virulence and discovered the potential specific virulence-associated genes of BPM, which likely work together to confer the virulence of BPM. Significantly reduced LD50 and survival rates during mouse infection experiments were found in BPM compared to the avirulent B. thailandensis E264 (BtE264). Conclusion. Taken together, the results of this study provide basic information on the genomic features and virulence characteristics of the virulent B. thailandensis strain BPM, which is helpful for understanding its evolution as it relates to pathogenesis and environmental adaptability.

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Section: Introductionmentioning

confidence: 99%

Genomic features and virulence characteristics of a rare Burkholderia thailandensis strain causing human infection

et al. 2023

Journal of Medical Microbiology

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“…Most of the B. pseudomallei strains are intrinsically resistant to aminoglycosides, including gentamicin (GEN) antibiotic (1). Based on the fact that accurate and specific gold standard culture method is paramount for the an accurate treatment and effective management of infection in melioidosis patients to prevent mortality, the B. pseudomallei screening agars are mostly supplemented with GEN antibiotic to expedite laboratory diagnosis by preventing the growth of other gram-negative microorganisms and improve the agar's specificity (2)(3)(4)(5).…”

Section: Introductionmentioning

confidence: 99%

A Novel Amino Acid Deletion and Substitution inamrBGene Associated with Gentamicin Susceptibility inBurkholderia pseudomalleifrom Malaysian Borneo

Hussin,

Nathan,

Shahidan

et al. 2023

Preprint

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Burkholderia pseudomalleiis a highly pathogenic saprophyte that is intrinsically resistant to a wide variety of antibiotics. Resistance to gentamicin is considered as an earmark ofB. pseudomallei. However, rare susceptible strains have been isolated in certain regions due to gene mutations. Currently, data on the susceptible strains’ prevalence and the actual causal mutations are still scarce, particularly in Malaysian Borneo. A pool ofB. pseudomalleiisolates (n= 46) were screened for gentamicin susceptibility and phenotypically confirmed using the gradient minimal inhibitory concentration method. Three isolates were gentamicin-susceptible strains and were identified as having originated from Bintulu, Sarawak, Malaysian Borneo. TheamrBgene mutation in these mutant strains was analysed, and the effect of amino acid substitution on the stability of the amrB protein was determined by usingin silicoanalysis. The mutagenesis analysis identified a polymorphism-associated mutation, g.1056T>G, and two susceptible-associated mutations identified as novel in-frame amino acid deletion p.Val412del and amino acid substitution p.Thr368Arg that compromised gentamicin resistance.In silicoanalysis using amrB homology-modelled and AlphaFold-solved structures proposed the role of p.Thr368Arg amino acid substitution in conferring GEN susceptibility by other mechanisms than destabilising the structure of amrB protein, which is most probably due to the mutation’s location in the highly conserved region. The findings have shed light on the phenotypic characteristics and mutations involved in theamrBgene of thegentamicin-susceptibleB. pseudomallei.

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“…According to Bach et al [52], the identities of 16S rRNA and recA genes within Bcc can reach 100% and 95%, respectively. Several studies report the use of housekeeping genes established in multilocus sequence typing (MLST) to differentiate the Bcc species [54][55][56][57][58][59][60][61].…”

Section: Introductionmentioning

confidence: 99%

Discovery of a Novel Lineage Burkholderia cepacia ST 1870 Endophytically Isolated from Medicinal Polygala paniculata Which Shows Potent In Vitro Antileishmanial and Antimicrobial Effects

Cruz

Paula

Nogueira

et al. 2021

International Journal of Microbiology

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In this study, we report the isolation and identification of an endophytic strain of Burkholderia cepacia (COPS strain) associated with Polygala paniculata roots. Polygala plants are rich sources of promising microbiomes, of which the literature reports several pharmacological effects, such as trypanocidal, antinociceptive, anesthetic, anxiolytics, and anticonvulsant activities. B. cepacia COPS belongs to a new sequence type (ST 1870) and harbors a genome estimated in 8.3 Mbp which exhibits the aminoglycosides and beta-lactams resistance genes aph(3′)-IIa and blaTEM-116, respectively. Analysis performed using MLST, average nucleotide identity, and digital DNA-DNA hybridization support its species-level identification and reveals its novel housekeeping genes alleles gyrB, lepA, and phaC. The root endophyte B. cepacia COPS drew our attention from a group of 14 bacterial isolates during the primary screening for being potentially active against Staphylococcus aureus ATCC 29213, Enterococcus faecalis ATCC 29212, Micrococcus luteus ATCC 9341, Escherichia coli ATCC 25922, and Candida albicans ATCC 10231 and exhibited the broad-spectrum activity against phytopathogenic fungi. In addition, COPS strain showed production of protease, lipase, and esterase in solid media, and its natural product extract showed potent inhibition against fungal plant pathogens, such as Moniliophthora perniciosa, whose antagonism index (89.32%) exceeded the positive control (74.17%), whereas Sclerotinia sclerotiorum and Ceratocystis paradoxa showed high percentages of inhibition (85.53% and 82.69%, respectively). COPS crude extract also significantly inhibited S. epidermidis ATCC 35984, E. faecium ATCC 700221 (MIC values of 32 μg/mL for both), E. faecalis ATCC 29212 (64 μg/mL), and S. aureus ATCC 25923 (128 μg/mL). We observed moderate antagonistic activity against A. baumannii ATCC 19606 and E. coli ATCC 25922 (both at 512 μg/mL), as well as potent cytotoxic effects on Leishmania infantum and Leishmania major promastigote forms with 78.25% and 57.30% inhibition. In conclusion, this study presents for the first time the isolation of an endophytic B. cepacia strain associated with P. paniculata and enough evidence that these plants may be considered a rich source of microbes for the fight against neglected diseases.

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Identification of Burkholderia thailandensis with novel genotypes in the soil of central Sierra Leone

Cited by 12 publications

References 18 publications

Genomic features and virulence characteristics of a rare Burkholderia thailandensis strain causing human infection

Genomic features and virulence characteristics of a rare Burkholderia thailandensis strain causing human infection

A Novel Amino Acid Deletion and Substitution inamrBGene Associated with Gentamicin Susceptibility inBurkholderia pseudomalleifrom Malaysian Borneo

Discovery of a Novel Lineage Burkholderia cepacia ST 1870 Endophytically Isolated from Medicinal Polygala paniculata Which Shows Potent In Vitro Antileishmanial and Antimicrobial Effects

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