identification of microorganisms Dotaz Zobrazit nápovědu
In 2019, Pantoea piersonii was initially isolated from the interior surfaces of the International Space Station. This microorganism is a species within the genus Pantoea in the family Erwiniaceae, belonging to the order Enterobacterales. Recent literature has documented four cases of its isolation. Despite initial predictions suggesting the non-pathogenicity of P. piersonii strains, evidence from observed cases indicates potential pathogenicity. According to documented evidence in the literature, this microorganism is capable of causing severe and life-threatening conditions, including sepsis. Traditional tests, as well as automated systems, may fail to provide complete differentiation due to these similarities. While MALDI-TOF MS is a valuable tool for identification in clinical diagnostic microbiology, sequencing may be necessary for precise identification. To determine the antibiotic susceptibility profile, various methods can be utilized, including minimum inhibitory concentration determination, disk diffusion testing (Kirby-Bauer test), genotypic resistance assays (PCR and sequencing), and automated systems. The literature reports a limited number of cases associating P. piersonii with human infection. This study contributes to this body of knowledge by reporting a novel case in which P. piersonii was isolated from a tissue sample for the first time. In this case report, the patient achieved recovery following the administration of appropriate antibiotic treatment based on the diagnosis. It underscores the need for precise identification and understanding of its pathogenicity.
- MeSH
- antibakteriální látky * farmakologie terapeutické užití MeSH
- enterobakteriální infekce * mikrobiologie diagnóza farmakoterapie MeSH
- lidé MeSH
- mikrobiální testy citlivosti * MeSH
- Pantoea * izolace a purifikace genetika patogenita MeSH
- Check Tag
- lidé MeSH
- mužské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- kazuistiky MeSH
Východiská: Prevádzky pedikúr patria medzi zariadenia starostlivosti o ľudské telo, ktoré sa z hľadiska prenosu infekčných ochorení zaraďujú k rizikovým ľudským činnostiam. Dôvodom je manipulácia s rôznorodými pomôckami, ktorých nedostatočná dezinfekcia môže viesť k vzniku infekcií u klientov pedikúr. Ciele: Testovať účinnosť vykonávanej dezinfekcie pracovných prístrojov, nástrojov a povrchov v zariadeniach pedikúr sterovou metódou. Súbor a metodika: Bolo zrealizovaných 100 odberov v 10 prevádzkach pedikúr v Banskej Bystrici. Analýza bola zameraná len na bakteriálne, nie na mykotické či parazitárne infekcie. Výsledky: Zo základného súboru bolo identifikovaných 43 vzoriek (43%) ako pozitívnych na prítomnosť mikroorganizmov a 57 vzoriek (57%) ako negatívnych. Zo všetkých vzoriek bolo 31 vzoriek (31%) pozitívnych na Staphylococcus epidermidis, 5 vzoriek (5%) pozitívnych na aeróbne sporuláty, 4 vzorky (4%) pozitívne na Escherichia coli, 2 vzorky (2%) pozitívne na Pseudomonas aeruginosa, 1 vzorka (1%) pozitívna na Pseudomonas spp., 1 vzorka (1%) pozitívna na viridujúce streptokoky. Záver: Zisťovanie mikrobiologickej kontaminácie pomocou sterovej metódy a použité postupy mikrobiologickej identifikácie majú svoje opodstatnenie. Objektívne preukazujú dostatočnosť alebo nedostatočnosť vykonávanej dekontaminácie, čo je podkladom pre prijímanie a realizáciu nápravných opatrení v prevádzkach pedikúr.
Background: Pedicures belong to facilities providing care for human body. Considering occurring transmission of infectious diseases these are classified as risky human activities. The reason is manipulation with various aids, which if not properly sanitized, may lead to the onset of infections in pedicure clients. Aims: To test efficiency of performed disinfection of working instruments, devices and surfaces in pedicures applying swab method.File and Methodology: 100 samples from 10 facilities in Banská Bystrica were taken. The analysis focused only on bacterial contamination, excluding mycotic or parasitic infections. Results: In the file were 43 samples (43%) identified positive for the presence of microorganisms, 57 samples (57%) were negative. Out of all taken samples, in 31 samples (31%) were identified Staphylococcus epidermidis, 5 samples (5%) contained aerobic sporulates, 4 samples (4%) contained Escherichia coli, 2 samples (2%) contained Pseudomonas aeruginosa, 1 sample (1%) was positive for Pseudomonas spp., and 1 sample (1%) contained viridating streptococci. Conclusion: The work has proven the high usefulness of swab method and other applied practices, as these can objectively prove either sufficient or insufficient decontamination performed in the pedicures. This is the basis for performance of suitable corrective or preventive actions.
- Klíčová slova
- pedikúra,
- MeSH
- dekontaminace metody statistika a číselné údaje MeSH
- dezinfekce metody statistika a číselné údaje MeSH
- Escherichia coli patogenita MeSH
- infekční nemoci klasifikace mikrobiologie přenos MeSH
- kontaminace zdravotnického vybavení * prevence a kontrola statistika a číselné údaje MeSH
- lidé MeSH
- mikrobiologické techniky klasifikace metody MeSH
- Pseudomonas aeruginosa patogenita MeSH
- Staphylococcus epidermidis patogenita MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- přehledy MeSH
- Geografické názvy
- Slovenská republika MeSH
Východiská: Prevádzky pedikúr patria medzi zariadenia starostlivosti o ľudské telo, ktoré sa z hľadiska prenosu infekčných ochorení zaraďujú k rizikovým ľudským činnostiam. Dôvodom je manipulácia s rôznorodými pomôckami, ktorých nedostatočná dezinfekcia môže viesť k vzniku infekcií u klientov pedikúr. Ciele: Testovať účinnosť vykonávanej dezinfekcie pracovných prístrojov, nástrojov a povrchov v zariadeniach pedikúr sterovou metódou. Súbor a metodika: Bolo zrealizovaných 100 odberov v 10 prevádzkach pedikúr v Banskej Bystrici. Analýza bola zameraná len na bakteriálne, nie na mykotické či parazitárne infekcie. Výsledky: Zo základného súboru bolo identifikovaných 43 vzoriek (43%) ako pozitívnych na prítomnosť mikroorganizmov a 57 vzoriek (57%) ako negatívnych. Zo všetkých vzoriek bolo 31 vzoriek (31%) pozitívnych na Staphylococcus epidermidis, 5 vzoriek (5%) pozitívnych na aeróbne sporuláty, 4 vzorky (4%) pozitívne na Escherichia coli, 2 vzorky (2%) pozitívne na Pseudomonas aeruginosa, 1 vzorka (1%) pozitívna na Pseudomonas spp., 1 vzorka (1%) pozitívna na viridujúce streptokoky. Záver: Zisťovanie mikrobiologickej kontaminácie pomocou sterovej metódy a použité postupy mikrobiologickej identifikácie majú svoje opodstatnenie. Objektívne preukazujú dostatočnosť alebo nedostatočnosť vykonávanej dekontaminácie, čo je podkladom pre prijímanie a realizáciu nápravných opatrení v prevádzkach pedikúr.
Background: Pedicures belong to facilities providing care for human body. Considering occurring transmission of infectious diseases these are classified as risky human activities. The reason is manipulation with various aids, which if not properly sanitized, may lead to the onset of infections in pedicure clients. Aims: To test efficiency of performed disinfection of working instruments, devices and surfaces in pedicures applying swab method.File and Methodology: 100 samples from 10 facilities in Banská Bystrica were taken. The analysis focused only on bacterial contamination, excluding mycotic or parasitic infections. Results: In the file were 43 samples (43%) identified positive for the presence of microorganisms, 57 samples (57%) were negative. Out of all taken samples, in 31 samples (31%) were identified Staphylococcus epidermidis, 5 samples (5%) contained aerobic sporulates, 4 samples (4%) contained Escherichia coli, 2 samples (2%) contained Pseudomonas aeruginosa, 1 sample (1%) was positive for Pseudomonas spp., and 1 sample (1%) contained viridating streptococci. Conclusion: The work has proven the high usefulness of swab method and other applied practices, as these can objectively prove either sufficient or insufficient decontamination performed in the pedicures. This is the basis for performance of suitable corrective or preventive actions.
- Klíčová slova
- pedikúra,
- MeSH
- dekontaminace metody statistika a číselné údaje MeSH
- dezinfekce metody statistika a číselné údaje MeSH
- Escherichia coli patogenita MeSH
- infekční nemoci klasifikace mikrobiologie přenos MeSH
- kontaminace zdravotnického vybavení * prevence a kontrola statistika a číselné údaje MeSH
- mikrobiologické techniky klasifikace metody MeSH
- Pseudomonas aeruginosa patogenita MeSH
- Staphylococcus epidermidis patogenita MeSH
- Publikační typ
- přehledy MeSH
- Geografické názvy
- Slovenská republika MeSH
The positive detection rate of blood metagenomic next-generation sequencing (mNGS) was still too low to meet clinical needs, while pus from the site of primary infection may be advantageous for identification of pathogens. To assess the value of mNGS using pus in patients with sepsis, thirty-five samples were collected. Pathogen identification and mixed infection diagnosis obtained by use of mNGS or cultivation methods were compared. Fifty-three aerobic or facultative anaerobes, 59 obligate anaerobes and 7 fungi were identified by the two methods. mNGS increased the accuracy rate of diagnosing aerobic or facultative anaerobic infections from 44.4% to 94.4%; mNGS also increased the sensitivity of diagnosing obligate anaerobic infections from 52.9% to 100.0%; however, mNGS did not show any advantage in terms of fungal infections. Culture and mNGS identified 1 and 24 patients with mixed infection, respectively. For obligate anaerobes, source of microorganisms was analyzed. The odontogenic bacteria all caused empyema (n = 7) or skin and soft tissue infections (n = 5), whereas the gut-derived microbes all caused intra-abdominal infections (n = 7). We also compared the clinical characteristics of non-obligate anaerobic and obligate anaerobic infection groups. The SOFA score [9.0 (7.5, 14.3) vs. 5.0 (3.0, 8.0), P = 0.005], procalcitonin value [4.7 (1.8, 39.9) vs. 2.50 (0.7, 8.0), P = 0.035], the proportion of septic shock (66.7% vs. 35.3%, P = 0.044) and acute liver injury (66.7% vs. 23.5%, P = 0.018) in the non-obligate anaerobic infection group were significantly higher than those in the obligate anaerobic infection group. In patients with sepsis caused by purulent infection, mNGS using pus from the primary lesion may yield more valuable microbiological information.
- MeSH
- Bacteria * genetika izolace a purifikace klasifikace MeSH
- dospělí MeSH
- hnisání mikrobiologie MeSH
- houby genetika izolace a purifikace klasifikace MeSH
- lidé středního věku MeSH
- lidé MeSH
- metagenomika * metody MeSH
- senioři nad 80 let MeSH
- senioři MeSH
- senzitivita a specificita MeSH
- sepse * mikrobiologie diagnóza MeSH
- vysoce účinné nukleotidové sekvenování * MeSH
- Check Tag
- dospělí MeSH
- lidé středního věku MeSH
- lidé MeSH
- mužské pohlaví MeSH
- senioři nad 80 let MeSH
- senioři MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
The search for the "Holy Grail" in clinical diagnostic microbiology-a reliable, accurate, low-cost, real-time, easy-to-use method-has brought up several methods with the potential to meet these criteria. One is Raman spectroscopy, an optical, nondestructive method based on the inelastic scattering of monochromatic light. The current study focuses on the possible use of Raman spectroscopy for identifying microbes causing severe, often life-threatening bloodstream infections. We included 305 microbial strains of 28 species acting as causative agents of bloodstream infections. Raman spectroscopy identified the strains from grown colonies, with 2.8% and 7% incorrectly identified strains using the support vector machine algorithm based on centered and uncentred principal-component analyses, respectively. We combined Raman spectroscopy with optical tweezers to speed up the process and captured and analyzed microbes directly from spiked human serum. The pilot study suggests that it is possible to capture individual microbial cells from human serum and characterize them by Raman spectroscopy with notable differences among different species. IMPORTANCE Bloodstream infections are among the most common causes of hospitalizations and are often life-threatening. To establish an effective therapy for a patient, the timely identification of the causative agent and characterization of its antimicrobial susceptibility and resistance profiles are essential. Therefore, our multidisciplinary team of microbiologists and physicists presents a method that reliably, rapidly, and inexpensively identifies pathogens causing bloodstream infections-Raman spectroscopy. We believe that it might become a valuable diagnostic tool in the future. Combined with optical trapping, it offers a new approach where the microorganisms are individually trapped in a noncontact way by optical tweezers and investigated by Raman spectroscopy directly in a liquid sample. Together with the automatic processing of measured Raman spectra and comparison with a database of microorganisms, it makes the whole identification process almost real time.
- MeSH
- algoritmy MeSH
- lidé MeSH
- optická pinzeta MeSH
- pilotní projekty MeSH
- Ramanova spektroskopie * metody MeSH
- sepse * MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
Odontogenic infections are the most common infectious and inflammatory diseases of the maxillofacial area and problem of the causative pathogen identification is an actual task, part of a permanent process of updating and modernization of treatment and diagnostic protocols and standards. In presented study a purulent exudate from 13 patients with acute purulent odontogenic intraoral lesions was studied by bacteriological method with detection of sensitivity to antibacterial agents. Bacteriological studies showed that genus Streptococcus predominated in 69.23% cases. Pathogenic microorganisms in clinically significant concentrations (105 per 1 ml and above) (Streptococcus and Staphylococcus) were resistant to Tetracycline and Doxycycline, had moderate sensitivity to macrolides in 22.22% and resistance in 77.78%. Amoxicillin/clavulanate caused effective growth retardation in 22.22% cases and moderate delay - in 77.78% without cases of resistance. Sensitivity to cephalosporins was detected in 50.00% cases, moderate sensitivity - in 38.89%, resistance - in 11.11%. Fluoroquinolones were the most effective - sensitivity in 72.22% cases, moderate sensitivity - in 22.22%, resistance - in 5.56%. The most effective fluoroquinolones were Moxifloxacin and Ciprofloxacin. The highest resistance to antifungal agents was shown by genus Candida, antifungal susceptibility was observed only in 20.00% cases. The microbiota of purulent odontogenic inflammation in the oral cavity was identified in clinically significant concentrations in only 61.54% cases with predominance of Streptococcus. The most effective antibacterial agents for odontogenic purulent process may be considered among cephalosporins and fluoroquinolones. There is a need to repeat similar studies in other regions of Ukraine and at other times of the year.
- MeSH
- absces farmakoterapie MeSH
- antibakteriální látky * farmakologie terapeutické užití MeSH
- cefalosporiny MeSH
- lidé MeSH
- moxifloxacin MeSH
- periostitida * farmakoterapie MeSH
- ústa MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
Halophilic archaea are one of the microorganism groups that have adapted to living in high saline environments and are important in terms of their potential use in biotechnology industry. One of the most important compounds they have, carotenoid, is used in food, cosmetics, and medical industries. The selected strain was identified as an extremely halophilic and thermophilic archaeon, Haloterrigena thermotolerans K15, based on morphological, biochemical, and physiological evidence as well as 16S rRNA analysis and screened by a scanning electron microscope and an atomic force microscope for the first time. The carotenoid contents of H. thermotolerans K15 isolated from Salt Lake (Tuz Gölü, Turkey) were determined by RP-HPLC-DAD and their isomers were characterized according to UV-Vis spectra by cis peak intensity and spectral fine structure. In addition to all-trans bacterioruberin as a major carotenoid, many isomers of the bacterioruberin such as monoanhydrobacterioruberin and bisanhydrobacterioruberin were also found. The antioxidant activity of carotenoid extract from H. thermotolerans was analyzed by the 2,2-diphenyl-1-picrylhydrazyl radical scavenging method. The carotenoid extract showed antioxidant activity statistically significantly higher than ascorbic acid and butylated hydroxytoluene as reference compounds (p < 0.05). This is the first study about carotenoid characterization and antioxidant activity of H. thermotolerans K15. The obtained results suggest the potential use of H. thermotolerans K15 products as a substitute for synthesized chemical carotenoids and antioxidants.
- MeSH
- antioxidancia * MeSH
- Halobacteriaceae * genetika MeSH
- karotenoidy MeSH
- RNA ribozomální 16S genetika MeSH
- Publikační typ
- časopisecké články MeSH
Identification of filamentous fungi based on morphological features is the most available approach used in clinical mycology laboratories. However, MALDI-TOF mass spectrometry is currently invaluable for identification of microorganisms because of its rapidity, simplicity, and accuracy. This study aimed to find the optimal way of identifying filamentous fungi using MALDI-TOF MS.The sample comprised 193 isolates of filamentous fungi. The identification started with morphological assessment. Then isolates were identified using MALDI-TOF MS, both directly from culture and following culture in liquid media with extraction. Subsequently, identification of 20 selected isolates was compared by sequencing of the benA gene, ITS1-5,8-ITS2, and D1-D2 LSU regions.Based on morphological criteria, 17 genera of fungi were identified. With MALDI-TOF MS performed directly from culture, nine isolates were identified to the genus level and 184 to the species level, with a total of 75 species being noted. With the MALDI-TOF MS extraction method, 190 isolates were identified to the species level, with 43 species being noted. The rates of agreement between identification using morphology and the MALDI-TOF MS direct method were 58.55% at the genus level and 22.24% at the species level. The rates of agreement between identification using morphology and the MALDI-TOF MS extraction method were 84.97% at the genus level and 46.11% at the species level. Using sequencing, 87.5% agreement was found for identification with the MALDI-TOF MS extraction method, as compared with only 43.75% for the direct method.The results suggest that the optimal approach to identification of filamentous fungi is a combination of morphological features and MALDI-TOF MS using the extraction method.
Triacylglycerols (TAGs) containing positional isomers of hypogeic (Hy), palmitoleic (Po), and palmitvaccenic (Pv) acids from three microorganisms (top-fermenting brewer's yeast Saccharomyces cerevisiae, green alga Coccomyxa elongata, and arbuscular mycorrhizal (AM) fungus Rhizophagus irregularis) were analyzed. Dozens of regioisomers and enantiomers of TAGs containing one, two or three hexadecenoic acids have been identified by means of reversed phase chromatography/mass spectrometry (RP-HPLC/MS). The regioisomers of TAGs containing two palmitic acids and any hexadecenoic acid were separated. Analysis of regioisomers of TAGs having one Pv residue showed that asymmetric molecular species such as PvPP or PPPv were dominant in Rhizophagus. TAGs were also analyzed on a chiral phase column and nine molecular species of TAGs containing two palmitic and any of three hexadecenoic acids were separated and identified. In the case of TAGs containing one palmitic and two hexadecenoic acids, the separation was successful only if the hexadecenoic acids were identical. Separation of TAGs containing three hexadecenoic acids was successful only if all three hexadecenoic acids were identical. Regardless of the type of TAG, it was found that TAGs in the AM fungus and containing palmitvaccenic acid bound at the sn-1 position of the glycerol backbone were dominant, suggesting similarity in the biosynthesis of the different TAGs. The covalent adduct chemical ionization method was used for identification of TAGs as adduct with (1-methyleneimino)-1-ethenyl ion, which reacted with double bond of the unsaturated fatty acid. Tandem MS thus makes it possible to identify TAGs containing various hexadecenoic acids.
BACKGROUND: Clinical findings do not accurately predict laboratory diagnosis of influenza. Early identification of influenza is considered useful for proper management decisions in primary care. OBJECTIVE: We evaluated the diagnostic value of the presence and the severity of symptoms for the diagnosis of laboratory-confirmed influenza infection among adults presenting with influenza-like illness (ILI) in primary care. METHODS: Secondary analysis of patients with ILI who participated in a clinical trial from 2015 to 2018 in 15 European countries. Patients rated signs and symptoms as absent, minor, moderate, or major problem. A nasopharyngeal swab was taken for microbiological identification of influenza and other microorganisms. Models were generated considering (i) the presence of individual symptoms and (ii) the severity rating of symptoms. RESULTS: A total of 2,639 patients aged 18 or older were included in the analysis. The mean age was 41.8 ± 14.7 years, and 1,099 were men (42.1%). Influenza was microbiologically confirmed in 1,337 patients (51.1%). The area under the curve (AUC) of the model for the presence of any of seven symptoms for detecting influenza was 0.66 (95% confidence interval [CI]: 0.65-0.68), whereas the AUC of the symptom severity model, which included eight variables-cough, fever, muscle aches, sweating and/or chills, moderate to severe overall disease, age, abdominal pain, and sore throat-was 0.70 (95% CI: 0.69-0.72). CONCLUSION: Clinical prediction of microbiologically confirmed influenza in adults with ILI is slightly more accurate when based on patient reported symptom severity than when based on the presence or absence of symptoms.
- MeSH
- chřipka lidská * diagnóza epidemiologie MeSH
- dospělí MeSH
- horečka MeSH
- kašel MeSH
- klinické laboratorní techniky MeSH
- lidé středního věku MeSH
- lidé MeSH
- primární zdravotní péče MeSH
- Check Tag
- dospělí MeSH
- lidé středního věku MeSH
- lidé MeSH
- mužské pohlaví MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- randomizované kontrolované studie MeSH
