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Heliyon Feb 2024This study was aimed at using microcosm experiments to assess crude oil degradation efficiency of and isolated along Ghana's coast. Uncontaminated seawater from...
This study was aimed at using microcosm experiments to assess crude oil degradation efficiency of and isolated along Ghana's coast. Uncontaminated seawater from selected locations along the coast was used to isolate bacterial species by employing enrichment culture procedures with crude oil as the only carbon source. The isolates were identified by means of the extended direct colony transfer method of the Matrix Assisted Laser Desorption Ionization Time of Flight Mass Spectroscopy (MALDI-TOF MS), as , and . Remediation tests showed that yielded degradation efficiencies of 27.59 %, 41.38 % and 57.47 %. Whereas efficiencies of 21.14 %, 32.18 % and 43.68 % were recorded by representing 15, 30 and 45 days respectively. Consortia of , and also yielded 32.18 %, 48.28 % and 62.07 % for the selected days respectively. Phylogenetic characterization using ClustalW and BLAST of sequences generated from the Oxford Nanopore Sequencing technique, showed that the Ghanaian isolates clustered with and species respectively. An analysis of the sequenced data for the 1394-bp portion of the 16S rRNA gene of the isolates revealed >99 % sequence identity with the isolates present on the GenBank database. The isolates of closest identity were and with accession numbers, NR_133958.1 and KJ147060.1 respectively. and isolated from Ghana's coast under pristine seawater conditions have therefore demonstrated their capacity to be used for the remediation of crude oil spills.
PubMed: 38318038
DOI: 10.1016/j.heliyon.2024.e24994 -
3 Biotech Jul 2018Phosphate (PO) accumulation associated with bacteria contributes to efficient remediation of eutrophic waters and has attracted attention due to its low cost, high...
Phosphate (PO) accumulation associated with bacteria contributes to efficient remediation of eutrophic waters and has attracted attention due to its low cost, high removal efficiency and environmental friendliness. In the present study, we isolated six strains from sludge with high concentrations of chemical oxygen demand, total nitrogen and total phosphorus levels. Among them, strain LH4 exhibited the greatest PO removal ability. Strain LH4 is typical of based on physiological, biochemical, and molecular analyses and is a PO-accumulating organism (PAO) based on toluidine blue staining. The strain grew quickly when subjected to aerobic medium after pre-incubation under anaerobic condition, with a maximum OD of 1.429 after 8 h and PO removal efficiency of 99%. Our data also indicated that this strain preferred utilizing the carbon (C) sources sodium formate and sodium acetate and the nitrogen (N) sources NHCl and (NH)SO over other compounds. To achieve optimal PO removal efficiency, a C:N ratio of 5:1, inoculation concentration of 3%, solution pH of 6, incubation temperature of 30 °C, and shaking speed of 100 rpm were recommended for strain LH4. By incubating this strain with different concentrations of PO, we calculated that its relative PO removal capacity ranged from 0.67 to 3.84 mg L h, ranking in the top three among reported PAOs. Our study provided a new PO-accumulating bacterial strain that holds promise for remediating eutrophic waters, and its potential for large-scale use warrants further investigation.
PubMed: 30023145
DOI: 10.1007/s13205-018-1338-4 -
Microbiology Resource Announcements Aug 2021Acinetobacter junii INC8271 was isolated from a cancer patient with polymicrobial bacteremia after biliary stent placement. The complete genome sequence consisted of a...
Acinetobacter junii INC8271 was isolated from a cancer patient with polymicrobial bacteremia after biliary stent placement. The complete genome sequence consisted of a chromosome of 3,530,883 bp (GC content, 38.56%) with 3,377 genes, including those encoding 74 tRNAs and 18 rRNAs, and two intact prophage sequences. No antibiotic resistance genes were detected.
PubMed: 34410161
DOI: 10.1128/MRA.00604-21 -
Heliyon Feb 2023The utilization and improper use of crude oil can have irreparable damage on the environment and human populations. This study sought to isolate hydrocarbon utilizing...
The utilization and improper use of crude oil can have irreparable damage on the environment and human populations. This study sought to isolate hydrocarbon utilizing bacteria from 1% v/v pristine seawater and 1% v/v crude oil using enrichment culture techniques. Whole genome sequencing of DNA using the Oxford Nanopore sequencing technique with Fastq WIMP as the workflow at 3% abundance was undertaken. The results showed that the most abundant isolates identified using this technique at specific sampling sites were, (51.9%) (15.8%) (21.6%) (23.4%) (24.7%) (23.0%) (40.0%) and (14.2%). Cumulatively, the most abundant isolates in the 8 sampling sites were (17.91%), (11.68%) (7.68%) (7.67%) (3.40%) (3.10%). Spearman's rank correlation analysis to examine the strength of relationship between the physicochemical parameters and type of bacteria isolated, revealed that salinity (0.8046) and pH (0.7252) were the highest. Isolated bacteria from pristine seawater, especially have shown their capacity for bioremediating oil spill pollution in oceanic environments in Ghana.
PubMed: 36785818
DOI: 10.1016/j.heliyon.2023.e13075 -
Journal of Global Antimicrobial... Dec 2020The aim of this study was to identify Acinetobacter spp. strains from paediatric patients, to determine their genetic relationship, to detect antibiotic resistance genes...
OBJECTIVES
The aim of this study was to identify Acinetobacter spp. strains from paediatric patients, to determine their genetic relationship, to detect antibiotic resistance genes and to evaluate the role of efflux pumps in antibiotic resistance.
METHODS
A total of 54 non-duplicate, non-consecutive Acinetobacter spp. isolates were collected from paediatric patients. Their genetic relationship, antibiotic resistance profile, efflux pump activity, antibiotic resistance genes and plasmid profile were determined.
RESULTS
The isolates were identified as 24 Acinetobacter haemolyticus, 24 Acinetobacter calcoaceticus-baumannii (Acb) complex and 1 strain each of Acinetobacter junii, Acinetobacter radioresistens, Acinetobacter indicus, Acinetobacter lwoffii, Acinetobacter ursingii and Acinetobacter venetianus. The 24 A. haemolyticus were considered genetically unrelated. One strain was resistant to carbapenems, two to cephalosporins, two to ciprofloxacin and sixteen to aminoglycosides. The antibiotic resistance genes bla (29%), bla (4%), bla (8%), bla (29%), bla (4%), aac(6')-Ig (38%) and the novel variants bla (13%), bla (75%), aac(6')-Iga (4%), aac(6')-Igb (13%) and aac(6')-Igc (42%) were detected. Among 24 Acb complex, 5 were multidrug-resistant, carbapenem-resistant strains carrying bla and bla; they were genetically related and had the same plasmid profile. Other species were susceptible. In some strains of A. haemolyticus and Acb complex, the role of RND efflux pumps was evidenced by a decrease in the MICs for cefotaxime, amikacin and ciprofloxacin in the presence of an efflux pump inhibitor.
CONCLUSIONS
This study identified isolates of A. haemolyticus carrying new β-lactamase variants and shows for the first time the contribution of efflux pumps to antibiotic resistance in this species.
Topics: Acinetobacter; Acinetobacter Infections; Acinetobacter baumannii; Child; Hospitals, Pediatric; Humans; Mexico
PubMed: 32916332
DOI: 10.1016/j.jgar.2020.08.014 -
Journal of Clinical Microbiology Nov 2009The prevalence of the currently known Acinetobacter species and related trends of antimicrobial resistance in a Dutch university hospital were studied. Between 1999 and...
The prevalence of the currently known Acinetobacter species and related trends of antimicrobial resistance in a Dutch university hospital were studied. Between 1999 and 2006, Acinetobacter isolates from clinical samples were collected prospectively. Isolates were analyzed by amplified fragment length polymorphism fingerprinting. For species identification, a profile similarity cutoff level of 50% was used, and for strain identification, a cutoff level of 90% was used. Susceptibility for antimicrobial agents was tested by disk diffusion by following the CLSI guideline. The incidences of Acinetobacter isolates ranged from 1.7 to 3.7 per 10,000 patients per year, without a trend of increase, during the study years. Twenty different species were distinguished. Acinetobacter baumannii (27%) and Acinetobacter genomic species (gen. sp.) 3 (26%) were the most prevalent. Other species seen relatively frequently were Acinetobacter lwoffii (11%), Acinetobacter ursingii (4%), Acinetobacter johnsonii (4%), and Acinetobacter junii (3%). One large cluster of A. baumannii, involving 31 patients, and 16 smaller clusters of various species, involving in total 39 patients, with at most 5 patients in 1 cluster, occurred. Overall, 37% of the A. baumannii isolates were fully susceptible to the tested antibiotics. There was a borderline significant (P = 0.059) trend of decreasing susceptibility. A. baumannii was the Acinetobacter species causing the largest burden of multiple-antibiotic resistance and transmissions in the hospital.
Topics: Acinetobacter; Acinetobacter Infections; Adolescent; Adult; Aged; Aged, 80 and over; Anti-Bacterial Agents; Bacterial Typing Techniques; Child; Child, Preschool; Cluster Analysis; Cross Infection; DNA Fingerprinting; DNA, Bacterial; Disease Outbreaks; Endemic Diseases; Female; Genotype; Hospitals, University; Humans; Incidence; Infant; Infant, Newborn; Male; Microbial Sensitivity Tests; Middle Aged; Molecular Epidemiology; Netherlands; Polymorphism, Restriction Fragment Length; Prospective Studies; Young Adult
PubMed: 19794057
DOI: 10.1128/JCM.00967-09 -
Journal of Applied Microbiology Jun 2015Despite electrophoretic patterns of ITS PCR amplicons often suggesting only a single ITS sequence variant is present in strains of Acinetobacter junii, sequence data...
AIMS
Despite electrophoretic patterns of ITS PCR amplicons often suggesting only a single ITS sequence variant is present in strains of Acinetobacter junii, sequence data shows differences in ITS copies between and among them. This paper set out to explain why these ITS variants arise, and whether their presence compromises the reliability of the ITS targeted methods currently available for typing Ac. junii strains.
METHODS AND RESULTS
ITS sequences from a number of strains of Ac. junii were either downloaded from public databases or generated here by cloning and sequencing ITS PCR amplicons. ITS copies of Ac. junii strain 97338 were all 666 bp long, with identical sequences. In Ac. junii ATCC 17908(T) /BCRC 14854(T) ), ITS copies were also all identical in their lengths but now were 706/7 bp long. Two sequence variants of these 707 bp ITS were detected. One was identical in its sequence to the nine ITS copies downloaded from the whole genome sequence of Ac. junii CIP 64·5, and those in several other Ac. junii strains. The other 707 bp ITS variant occurred elsewhere only in Ac. junii strain DSM 14968 of those examined. The six ITS copies from the genome sequence of Ac. junii NIPH 182 were all 685 bp, and with identical sequences. Ac. junii strain 178 also possessed this same 685 bp ITS variant, one of six variants detected there. At least five ITS sequence variants were seen in Ac. junii strain 97380, four in strain DSM 14968 and two in the whole genome of strain 107470.
CONCLUSIONS
As with those of other Acinetobacter species, such ITS variants arise not from intragenomic recombination events but from the presence of different length indels. These arise from horizontal gene transfers involving ITS fragments of other Acinetobacter species.
SIGNIFICANCE AND IMPACT OF THE STUDY
The presence of these indels compromises the reliability of the ITS targeted methods available for typing Acinetobacter junii. It also precludes the value of using ITS sequences as phylogenetic markers in members of the genus Acinetobacter, since the outcomes in both cases depends on which copy variant is chosen.
Topics: Acinetobacter; Base Sequence; DNA, Intergenic; Gene Transfer, Horizontal; Genetic Variation; Molecular Sequence Data; Phylogeny; Polymerase Chain Reaction; Reproducibility of Results
PubMed: 25801684
DOI: 10.1111/jam.12800 -
MSphere Jan 2021nasal carriage provides the bacterial reservoir for opportunistic infection. In comparing the nasal microbiomes of culture-defined persistent carriers versus...
nasal carriage provides the bacterial reservoir for opportunistic infection. In comparing the nasal microbiomes of culture-defined persistent carriers versus noncarriers, we detected DNA in all noses, including those with an established history of negativity based on culture. Colonization with , including , , , and select spp., was associated with noncarriage. We next developed physiological competition assays for testing anti- activity of isolated nasal species, utilizing medium modeling the nutrient-limited fluid of the nasal mucosa, polarized primary nasal epithelia, and nasal secretions. from the nose of an noncarrier demonstrated >99% inhibition of recovery in all assays, even when was coincubated in 9-fold excess. Secreted inhibitory proteins from and were heat-stable and <30 kDa, fitting the profile of antimicrobial peptides. , , , and inhibited recovery on nasal epithelia in a contact-dependent manner, while several other species either had no effect or promoted growth. Collectively, this project is one of the first to identify resident nasal microbial species that impede survival, and it implies that detectable nasal results from shifts in microbial community composition. Nasal carriage of is a risk factor for infection, but it is not yet understood why some individuals carry nasal persistently, intermittently, or seemingly not at all when tested via culture methods. This study compared the nasal microbiomes of established carriers and noncarriers, identified species associated with noncarriage, and tested them for anti- activity using assays developed to model the nutrient-limited nasal mucosa. We determined that all nostril swabs contain DNA, even swabs from hosts considered to be long-term noncarriers. Select members of the class were more prevalent in noncarrier than carrier nostrils and demonstrated potent activity against multiple strains of The results described here provide a better understanding of how the nasal microbiome controls growth and viability and may be useful in the design of improved decolonization strategies.
Topics: Anti-Bacterial Agents; Antibiosis; Carrier State; Cells, Cultured; Epithelial Cells; Gammaproteobacteria; Humans; Microbiota; Nasal Cavity; Staphylococcus aureus
PubMed: 33408227
DOI: 10.1128/mSphere.01015-20 -
Urology Case Reports Sep 2020is one of more than 50 different species belonging to the genus . This bacterium is rarely reported to cause human infections. Here we described a rare case of , which...
is one of more than 50 different species belonging to the genus . This bacterium is rarely reported to cause human infections. Here we described a rare case of , which grew in urine culture approximately one month after the patient was discharged from the hospital with antibiotics for a urinary tract infection, which caused left obstructing renal calculi requiring nephrostomy tube placement.
PubMed: 32322533
DOI: 10.1016/j.eucr.2020.101209 -
Communications Biology Oct 2022Incomplete documentary evidence, variable biomolecular preservation, and limited skeletal responses have hindered assessment of acute infections in the past. This study...
Incomplete documentary evidence, variable biomolecular preservation, and limited skeletal responses have hindered assessment of acute infections in the past. This study was initially developed to explore the diagnostic potential of dental calculus to identify infectious diseases, however, the breadth and depth of information gained from a particular individual, St. Louis Individual (St.LI), enabled an individualized assessment and demanded broader disciplinary introspection of ethical research conduct. Here, we document the embodiment of structural violence in a 23-year-old Black and/or African American male, who died of lobar pneumonia in 1930s St. Louis, Missouri. St.LI exhibits evidence of systemic poor health, including chronic oral infections and a probable tuberculosis infection. Metagenomic sequencing of dental calculus recovered three pre-antibiotic era pathogen genomes, which likely contributed to the lobar pneumonia cause of death (CoD): Klebsiella pneumoniae (13.8X); Acinetobacter nosocomialis (28.4X); and Acinetobacter junii (30.1X). Ante- and perimortem evidence of St.LI's lived experiences chronicle the poverty, systemic racism, and race-based structural violence experienced by marginalized communities in St. Louis, which contributed to St.LI's poor health, CoD, anatomization, and inclusion in the Robert J. Terry Anatomical Collection. These same embodied inequalities continue to manifest as health disparities affecting many contemporary communities in the United States.
Topics: Adult; Black or African American; Anti-Bacterial Agents; Bacterial Infections; Dental Calculus; Humans; Male; United States; Violence; Young Adult
PubMed: 36192528
DOI: 10.1038/s42003-022-03890-z