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During the first weeks of life, microbial colonization of the gut impacts human immune system maturation and other developmental processes. In premature infants, aberrant colonization has been implicated in the onset of necrotizing enterocolitis (NEC), a life-threatening intestinal disease. To study the premature infant gut colonization process, genome-resolved metagenomics was conducted on 343 fecal samples collected during the first 3 months of life from 35 premature infants housed in a neonatal intensive care unit, 14 of whom developed NEC, and metaproteomic measurements were made on 87 samples. Microbial community composition and proteomic profiles remained relatively stable on the time scale of a week, but the proteome was more variable. Although genetically similar organisms colonized many infants, most infants were colonized by distinct strains with metabolic profiles that could be distinguished using metaproteomics. Microbiome composition correlated with infant, antibiotics administration, and NEC diagnosis. Communities were found to cluster into seven primary types, and community type switched within infants, sometimes multiple times. Interestingly, some communities sampled from the same infant at subsequent time points clustered with those of other infants. In some cases, switches preceded onset of NEC; however, no species or community type could account for NEC across the majority of infants. In addition to a correlation of protein abundances with organism replication rates, we found that organism proteomes correlated with overall community composition. Thus, this genome-resolved proteomics study demonstrated that the contributions of individual organisms to microbiome development depend on microbial community context.IMPORTANCE Humans are colonized by microbes at birth, a process that is important to health and development. However, much remains to be known about the fine-scale microbial dynamics that occur during the colonization period. We conducted a genome-resolved study of microbial community composition, replication rates, and proteomes during the first 3 months of life of both healthy and sick premature infants. Infants were found to be colonized by similar microbes, but each underwent a distinct colonization trajectory. Interestingly, related microbes colonizing different infants were found to have distinct proteomes, indicating that microbiome function is not only driven by which organisms are present, but also largely depends on microbial responses to the unique set of physiological conditions in the infant gut.

In the context of sustainable bioremediation of Low-density polyethylene (LDPE), in this study, several strategies were explored to enhance the LDPE degradation by the bacterium Enterobacter cloacae AKS7. Initially, Mineral oil and Tween 80 were used to test whether they could modulate microbial colonization and polymer degradation by AKS7. Results indicated Mineral oil could increase microbial colonization and LDPE degradation whereas Tween 80 compromised the same. Since LDPE holds hydrophobic characteristics, the organism showing higher cell-surface hydrophobicity could adhere efficiently to the polymer. Thus, the organism AKS7 was grown in media with different concentrations of glucose and ammonium sulphate to exhibit differences in cell-surface hydrophobicity. We noticed that with increasing cell-surface hydrophobicity, the microbial colonization and LDPE degradation got enhanced considerably. The observations indicated that cell-surface hydrophobicity promoted microbial colonization to LDPE that increased the degree of biodegradation. Besides, LDPE films were photo-oxidized before microbial exposure which showed that AKS7 could degrade ultra-violet (UV) treated LDPE more proficiently compared to the UV-untreated polymer. Moreover, AKS7 could colonize more effectively to the UV-treated LDPE in contrast to the untreated LDPE. Furthermore, it was observed that UV exposure increased the carbonyl bond index of the polymer which got utilized by the organism efficiently thereby increasing the polymer degradation. Hence, the observations indicated that effective microbial colonization to UV-treated LDPE films exhibited a promising metabolic activity that could show an enhanced degradation of LDPE. Therefore, AKS7 warrants to be considered as a promising organism for enhanced degradation of LDPE.

Colonization and development of the gut microbiome is a crucial consideration for optimizing the health and performance of livestock animals. This is mainly attributed to the fact that dietary and management practices greatly influence the gut microbiota, subsequently leading to changes in nutrient utilization and immune response. A favorable microbiome can be implanted through dietary or management interventions of livestock animals, especially during early life. In this review, we explore all the possible factors (for example gestation, colostrum, and milk feeding, drinking water, starter feed, inoculation from healthy animals, prebiotics/probiotics, weaning time, essential oil and transgenesis), which can influence rumen microbiome colonization and development. We discuss the advantages and disadvantages of potential strategies used to manipulate gut development and microbial colonization to improve the production and health of newborn calves at an early age when they are most susceptible to enteric disease. Moreover, we provide insights into possible interventions and their potential effects on rumen development and microbiota establishment. Prospects of latest techniques like transgenesis and host genetics have also been discussed regarding their potential role in modulation of rumen microbiome and subsequent effects on gut development and performance in neonatal ruminants.

The consumption of maternal feces (coprophagy) is commonly observed in healthy foals and is a proposed contributor to microbial colonization of the foal’s gastrointestinal tract (GIT). This study investigated the role of coprophagy in the establishment of fibrolytic bacteria in the foal GIT. Nine thoroughbred mares were dosed with chromic oxide, an indigestible marker, as a method to detect the occurrence of coprophagy by their foals. Foal fecal samples were collected from 12 h to 21 d after birth to measure chromic oxide and neutral detergent fiber (NDF) and to enumerate cellulolytic bacteria using culture-based techniques. Milk yield was estimated at 7 and 14 d postpartum. Coprophagy was detected as early as 3 d after birth and detected in all foals by 7 d of age. There were strong relationships between coprophagy and cellulolytic bacteria and NDF in foal feces at 7 d of age (r = 0.9703 and r = 0.7878, respectively; p < 0.05). Fecal NDF and chromic oxide concentrations were negatively related to milk yield (r = –0.8144 and r = –0.6966, respectively; p < 0.05), suggesting milk availability affected the incidence of coprophagy. Based on the relationships identified, maternal feces are an important source of fiber and live microbes for the foal, contributing to the development of the microbial community.

Feces enable frequent samplings for the same animal, which is valuable in studies investigating the development of the gut microbiome in piglets. Creep feed should prepare the piglet’s gut for the postweaning period and shape the microbiome accordingly. Little is known about the variation that is caused by differences in fecal color and consistency and different sample types (feces versus swab samples). Therefore, this study evaluated the age-related alterations in the microbiome composition (16S rRNA gene) in feces of suckling and newly weaned piglets in the context of nutrition and fecal consistency, color and sample type from day 2 to 34 of life. Feces from 40 healthy piglets (2 each from 20 litters) were collected on days 2, 6, 13, 20, 27, 30 and 34. Weaning occurred on day 28. Half of the litters only drank sow milk during the suckling phase, whereas the other half had access to creep feed from day 10. Creep feeding during the suckling phase influenced the age-related total bacterial and archaeal abundances but had less of an influence on the relative bacterial composition. Results further showed different taxonomic compositions in feces of different consistency, color and sample type, emphasizing the need to consider these characteristics in comprehensive microbiome studies.

A novel pre-treatment using corn steep liquor (CSL) and urea was developed to enhance the enzymatic saccharification and degradability of rice straw (RS). We used RS (1) without (Con) or with additives of (2) 5% urea (U), (3) 9% CSL and 2.5% urea (CU), and (4) 9% CSL and 5% urea (C5U). The result showed that the water-soluble carbohydrate (WSC) conversion of RS reached 69.32% after C5U pre-treatment. Scanning electron microscopy (SEM), Fourier transform infrared (FTIR) spectroscopy, and X-ray diffraction analysis (XRD) confirmed that the surface of pre-treated RS exposed more cellulose and hemicellulose due to the disruption of the resistant structure of lignocellulose. Pre-treated RS significantly decreased neutral detergent fiber (NDF) and acid detergent fiber (ADF) contents and increased crude protein (CP) content, microbial colonization, and induction of Carnobacterium and Staphylococcus attachment. Altogether, we concluded that pre-treatment of a combination of CSL and urea has the potential to improve the nutritive value of RS. [ABSTRACT FROM AUTHOR]

This study was designed to determine the concentration of pyrethroids in the environmental media, fish and intestinal parasites with corresponding oxidative stress biomarker response in Epe axis of the Lekki Lagoon, Lagos. Surface water, sediment, fish intestinal samples and the helminth parasite were collected and analyzed for pyrethroids. A total of 125 fish samples were procured. Length ranged from 15cm to 41cm and weight ranged from 36g to 883g. Intestinal samples from infected and non-infected individuals were analyzed for microbial colonization, and anti-oxidants; PRO, SOD, CAT, GSH, MDA and GPx. The three congeners of pyrethroids; Cyfluthrin, β-Cypermethrin and α-Cypermethrin were found in the surface water, sediment and fish but were not detected in the gut parasite. The congener with the highest concentration in surface water was β-Cypermethrin with concentrations of 14.896±6.17ppm but lower than α-Cypermethrin in the sediment. α-Cypermethrin was found in the sediment at the concentration level of 28.129±5.69 ppm, compared to Cyfluthrin and β-Cypermethrin with concentrations of 12.377±4.25 ppm and 14.714±6.38 ppm respectively. The fish intestine had low pyrethroid concentration as compared with the environmental concentrations; Cyfluthrin (1.721±2.61 ppm), β-Cypermethrin (1.411±2.18 ppm) and αCypermethrin (0.280±1.32 ppm) respectively. There were low parasitic infections in the fish host with eighteen specimens recorded to be infected with gastrointestinal helminth; Aspidogastrea africanus (trematode) with a prevalence of 34%. There was however higher prevalence of gut microflora (between 30.0% to 40.0%) among individuals infected with the gut trematode. The infected individuals had higher protein, superoxide dismutase (SOD), malondialdehyde (MDA), glutathione (GSH) and glutathione peroxidase (GPx) than the non-infected individuals. Superoxide dismutase (SOD) was the highly most induced; 394.21±48.63 min/mg protein, while catalase was the least induced. Combined effects of parasites and pesticides could induce stress in fish. The histopathological analysis of the infected individuals revealed. [ABSTRACT FROM AUTHOR]

This research investigated how exposure to moisture influences the biodeterioration of facade finishes in the hot-humid tropics of Enugu metropolis, Southeast Nigeria. Physical observations and experimental research strategy were used to collect data from 383 buildings in the study area. The data were analysed using descriptive and logistic regression analyses. The results showed that 53.5% were residential buildings and 88.5% had cementitious façade finishes with 66.8% of them having their façade finishes exposed to moisture. Further, 64% of the facade finishes, mainly of cementitious materials and paints were colonized by microorganisms with the most common microbes being fungi. Façade finishes exposed to moisture we found to be four times more likely to experience biodeterioration. The study concludes that in order to curb microbial colonization of façade finishes and the attendant adverse effects, architects should engage in design strategies that can minimize the level of exposure of façade finishes to moisture. [ABSTRACT FROM AUTHOR]

Abstract The abundantly available mica flakes were added in raw materials to manufacture pottery in Central Peninsular India during the early Iron Age (700-300 BCE) for storage and glittering. The micaceous potsherds from the excavated megalithic site of Nagpur were studied for their composition, manufacturing techniques, microstructural features, microbial colonization, and estimation of firing temperature. The analytical techniques used were micro-XRF, FTIR, XRD, FEG-SEM, mercury porosimetry (MIP), and thermal analysis. The XRF and SEM-EDX data revealed that the potteries were coated with aqueous iron oxide on either surface for red hue and subsequently fired at an estimated temperature of 700-750 °C in a reducing atmosphere as determined by vibrational and mineralogical analysis. The X-ray microscopy and FEG-SEM images showed a grey color sandwich layer representing the original clay composition between iron oxide-coated red surface layers. MIP showed that the fine ware had a high porosity of 21-26% with a void ratio (e) of 0.28-0.36. The loosely adhered mica flakes influenced the strength and stability of the pottery. The 16S rRNA gene sequencing identified the presence of Bacillus velezensis within the round and elongated pits within the potsherds drawing nutrients from minerals.

Background: Early-onset sepsis is an important cause of neonatal morbidity and mortality in the preterm population. Infants perceived to be at increased risk for early-onset sepsis are often treated empirically with broad-spectrum antibiotics while awaiting confirmatory blood cultures, despite an overall incidence of early-onset sepsis of 2-3% among extremely-low-birthweight (ELBW) infants. Recent observational studies associate perinatal antibiotic use with an increased incidence of necrotizing enterocolitis, late-onset sepsis, and mortality among ELBW infants. Given currently available data and variability in clinical practice, we designed a prospective multi-institutional randomized controlled trial to determine the safety of early antibiotic use in ELBW infants.Methods: The NICU Antibiotics and Outcomes (NANO) trial is a multicenter, double-blinded, randomized controlled trial. A sample of 802 ELBW preterm infants will undergo web-based stratified block randomization to receive empiric antibiotics (EA; ampicillin and gentamicin) or placebo during routine evaluation for early-onset sepsis. Participating sites will use preexisting institutional protocols for antibiotic dosage and duration. Infants born at participating sites with a gestational age of 29 weeks or less are eligible for enrollment. Exclusion criteria include maternal intrauterine infection, hemodynamic or respiratory instability, delivery by caesarean section for maternal indications without labor or prolonged rupture of membranes, and prior administration of antibiotics. The primary outcome is the composite incidence of necrotizing enterocolitis, late-onset sepsis, or death during participants' index hospitalization. Maternal and infant samples will be collected longitudinally and assessed for differences in microbiome composition and diversity.Discussion: The NANO trial is designed to compare the rate of adverse outcomes of EA use at birth versus placebo in ELBW preterm infants. If EA at birth worsens clinical outcomes, then the results of the trial may help providers decrease antibiotic utilization in the NICU and subsequently decrease the incidence of complications associated with early antibiotic use in ELBW infants. If we instead find that EA improve outcomes, then the trial will validate a longstanding clinical practice that has not previously been supported by high-quality data. Future studies will assess long-term clinical and microbial outcomes in infants who received empiric antibiotics following delivery.Trial Registration: Trial registration data: June 25, 2019  NCT03997266 . [ABSTRACT FROM AUTHOR]

The many ecological niches present in an organism harbor distinct microorganisms called microbiota. Different factors can influence the establishment of these commensal microbial communities. In a previous article, we have concluded that some bacterial lineages associated with the early larval stages of the Pacific blue shrimp Litopenaeus stylirostris could be acquired from the breeders via a potential vertical transmission. The present study was conducted in order to investigate this hypothesis. Using HiSeq sequencing of the V4 region of 16S rRNA gene, we analyzed the active microbiota associated with the eggs and the nauplii of L. stylirsotris as well as with the reproductive organs of their breeders. Microbial communities associated with the rearing water were also considered to discriminate environmental microbial lineages. Using these analyses, we highlight a set of core bacterial families present in all samples and composed of members of Colwelliaceae , Alteromonadaceae , Pseudoalteromonadaceae , Saccharospirillaceae , Oceanospirillaceae , Vibrionaceae , Burkholderiaceae , Rhodobacteraceae , Flavobacteraceae , and Corynebacteriaceae ; showing the importance of the environment in the establishment of the larval microbiota. We also present specific bacteria affiliated to the Arcobacteraceae , Rhodobacteraceae , Comamonadaceae , and Colwelliaceae families, which were only found in the breeders and their offspring strengthening the hypothesis of a potential vertical transmission shaping the active microbiota of the eggs and the nauplii of L. stylirostris. [ABSTRACT FROM AUTHOR]

Aim: Study aims were to determine the most effective chlorhexidine concentration to be used in reducing microbial colonization in patients under mechanical ventilation and to examine the effect of oral care using different concentrations on the integrity of the oral mucous membranes. Design This research was a randomized controlled double‐blinded experimental study. Method: The sample of study consisted of the 116 adult patients who remained intubated. Oral care was given to patients 4 times/day as per nurse protocol. Every morning during for 4 days, the intraoral mucosa of all groups of patients was assessed. Microbial colonization samples from oral mucosa were taken in the morning before oral care. A determination of the species of microorganisms in these samples was made. Results: A statistically significant difference was found with regard to the reproduction of microorganisms between the oral mucosa samples taken from patients using 2% and 1% chlorhexidine solutions (P < 0.001). In the cultures taken from patients on the first and fourth days of intubation, a total of 36 different microorganisms were seen to be reproducing. Conclusion: It was concluded that the most effective oral solution for the prevention of microbial colonization in patients under mechanical ventilation was chlorhexidine 1%. Summary statement: What is already known about this topic? Oral hygiene with solutions scientifically proven to be effective in patient care can reduce bacterial colonization in the oral mucosa in patients under mechanical ventilation.Chlorhexidine gluconate is an oral antiseptic solution that is preferred for the reduction of microbial colonization, particularly in patients under mechanical ventilation. However, a concentration of chlorhexidine gluconate solution has not been standardized in the oral care of these patients. What this paper adds? This randomized controlled study will serve as guide to the use of the most suitable and effective solution of chlorhexidine in the oral care of patients under mechanical ventilation.Chlorhexidine 1% was effective to reduce bacterial load in oral mucosa. The implications of this paper: With patients on mechanical ventilation support, correct, effective and regular oral care by nurses is of the utmost importance.Nurses can play an active role in ensuring the integrity of the oral mucosa and increasing comfort with the oral care in patients under mechanical ventilation. [ABSTRACT FROM AUTHOR]

The many ecological niches present in an organism harbor distinct microorganisms called microbiota. Different factors can influence the establishment of these commensal microbial communities. In a previous article, we have concluded that some bacterial lineages associated with the early larval stages of the Pacific blue shrimp Litopenaeus stylirostris could be acquired from the breeders via a potential vertical transmission. The present study was conducted in order to investigate this hypothesis. Using HiSeq sequencing of the V4 region of 16S rRNA gene, we analyzed the active microbiota associated with the eggs and the nauplii of L. stylirsotris as well as with the reproductive organs of their breeders. Microbial communities associated with the rearing water were also considered to discriminate environmental microbial lineages. Using these analyses, we highlight a set of core bacterial families present in all samples and composed of members of Colwelliaceae, Alteromonadaceae, Pseudoalteromonadaceae, Saccharospirillaceae, Oceanospirillaceae, Vibrionaceae, Burkholderiaceae, Rhodobacteraceae, Flavobacteraceae, and Corynebacteriaceae; showing the importance of the environment in the establishment of the larval microbiota. We also present specific bacteria affiliated to the Arcobacteraceae, Rhodobacteraceae, Comamonadaceae, and Colwelliaceae families, which were only found in the breeders and their offspring strengthening the hypothesis of a potential vertical transmission shaping the active microbiota of the eggs and the nauplii of L. stylirostris.

ABSTRACT Symptoms of Clostridioides difficile infection (CDI) are attributed largely to two toxins, TcdA and TcdB. About 17–23% of C. difficile isolates produce binary toxin, which enhances C. difficile pathogenesis. Previously, we engineered the nontoxigenic C. difficile strain CCUG37785 (designated as CCUG37785) to express immunogenic fragments of TcdA and TcdB as an oral mucosal CDI vaccine candidate. In this study, we performed genomic and phenotypic analyses of CCUG37785 and evaluated its potential use for preventing and treating CDI. Whole genome sequencing showed that CCUG37785 is ribotype ST3 and lacks toxin genes. Comparative analyses of PaLoc and CdtLoc loci of CCUG37785 revealed 115-bp and 68-bp conserved fragments in these regions, respectively. Phenotypic comparisons between CCUG37785 and C. difficile R20291 (an epidemic hypervirulent BI/NAPI/027 strain, designated as R20291) found that CCUG37785 exhibited significantly higher adhesion and sporulation, significantly lower spore germination and biofilm formation, and comparable motility to R20291. We also showed that oral inoculation of CCUG37785 spores prior to infection with R20291 spores provided mice almost full protection against developing CDI. However, oral inoculation of CCUG37785 spores after infection with R20291 spores only provided minor protection against CDI. Further analysis showed that mice pretreated with CCUG37785 spores secreted significantly less R20291 spores, while mice treated with CCUG37785 spores after infection with R20291 secreted a comparable amount of R20291 spores to mice infected with R20291 spores only. Our data both highlight the potential use of CCUG37785 for the prevention of primary and recurrent CDI in humans and support its use as an oral mucosal vaccine carrier against CDI. IMPORTANCE Clostridioides difficile infection (CDI) symptoms range from diarrhea to intestinal inflammation/lesion and death and are mainly caused by two exotoxins, TcdA and TcdB. Active vaccination provides the attractive opportunity to prevent CDI and recurrence. No vaccine against CDI is currently licensed. Tremendous efforts have been devoted to developing vaccines targeting both toxins. However, ideally, vaccines should target both toxins and C. difficile cells/spores that transmit the disease and cause recurrence. Furthermore, C. difficile is an enteric pathogen, and mucosal/oral immunization would be particularly useful to protect the host against CDI considering that the gut is the main site of disease onset and progression. Data in our current study not only highlight the potential use of CCUG37785 to prevent primary and recurrent CDI in humans but also further support its use as an oral mucosal vaccine carrier against CDI.

Microbial cells that produce biofilms, or patinas, on historic buildings are affected by climatic changes, mainly temperature, rainfall and air pollution, all of which will alter over future decades. This review considers the colonization of stone buildings by microorganisms and the effects that the resultant biofilms have on the degradation of the structure. Conservation scientists require a knowledge of the potential effects of microorganisms, and the subsequent growth of higher organisms such as vascular plants, in order to formulate effective control strategies. The vulnerability of various structural materials (“bioreceptivity”) and the ways in which the environmental factors of temperature, precipitation, wind-driven rain and air pollution influence microbial colonization are discussed. The photosynthetic microorganisms, algae and cyanobacteria, are acknowledged to be the primary colonizers of stone surfaces and many cyanobacterial species are able to survive climate extremes; hence special attention is paid to this group of organisms. Since cyanobacteria require only light and water to grow, can live endolithically and are able to survive most types of stress, they may become even more important as agents of stone cultural property degradation in the future.

Introduction The oral cavity hosts diverse microorganisms affected by factors like pH, temperature, and oxygen levels, influencing disease potential. Dentists manage oral diseases and improve aesthetics using durable restorations. Understanding periodontal response to crowns and fixed partial dentures (FPDs) is essential for effective treatment. This study aims to assess the impact of FPDs on periodontal health by comparing microbial colonies in individuals with and without FPDs. The hypothesis is that there will be no difference in microbial flora and gingival health between the two groups. Materials and methods This in vitro study utilized 40 salivary samples divided into two groups: 20 from patients with FPDs/crowns (Group 1) and 20 from patients without (Group 2). Unstimulated saliva was collected, diluted, and cultured on nutrient agar and Sabouraud Dextrose Agar to quantify anaerobic bacteria and Candida colonies. Colony counts were scored from 0 to IV based on colony-forming unit (CFU), and microscopic examination identified the types of microbes present. Data were analyzed using an unpaired t-test with IBM SPSS Statistics for Windows, Version 26 (Released 2019; IBM Corp., Armonk, New York, United States), with significance set at p < 0.05. Results The independent t-test analysis showed significantly higher mean CFUs of anaerobic microbes in Group 1 (experimental) compared to Group 2 (control) (p = 0.000). However, mean CFUs of Candida did not significantly differ between groups (p = 0.194). Microscopic examination identified Enterococcus faecalis, Pseudomonas aeruginosa, Candida albicans, Staphylococcus aureus ,   and Streptococcus mutans in the experimental group, whereas the control group contained only Staphylococcus aureus and Streptococcus mutans. Conclusion Individuals with FPDs exhibit higher concentrations of anaerobic microbes and specific bacteria, suggesting an increased risk of gingival inflammation and emphasizing the importance of maintaining good oral hygiene., Competing Interests: Human subjects: Consent was obtained or waived by all participants in this study. Saveetha Dental College - Institutional Human Ethical Committee (SDC-IHEC) issued approval IHEC/SDC/PROSTHO-2105/24/110. Institutional Human Ethical Committee (SDC-IHEC)-Approval Certificate Principal investigator: Maaz Vohra (Registration Number: 152109005) Department: Prosthodontics This is in accordance with your study entitled “Impact of Fixed Partial Dentures on Oral Microbial Flora and Gingival Health: An In Vitro Assessment of Salivary Microbial Profiles” that has been presented in the Institutional Human Ethical Committee meeting held on June 13, 2024. The Ethics Committee has reviewed the study and documents furnished. The Saveetha Dental College and Hospital Institutional Ethics Committee (SDC-IHEC) is hereby issuing an “approved status” for the clinical trial to be conducted in its presented form (IHEC reference number: IHEC/SDC/PROSTHO-2105/24/110). Note: The Institutional Ethics Committee functions in accordance with the New Drugs and Clinical Trials Rules 2019. The SDC-IHEC follows procedures that are in compliance with the requirements of International Conference on Harmonization (ICH) guidance related to good clinical practice (GCP) and applicable Indian and international regulatory regulations. Animal subjects: All authors have confirmed that this study did not involve animal subjects or tissue. Conflicts of interest: In compliance with the ICMJE uniform disclosure form, all authors declare the following: Payment/services info: All authors have declared that no financial support was received from any organization for the submitted work. Financial relationships: All authors have declared that they have no financial relationships at present or within the previous three years with any organizations that might have an interest in the submitted work. Other relationships: All authors have declared that there are no other relationships or activities that could appear to have influenced the submitted work., (Copyright © 2024, Vohra et al.)

Infections in hematopoietic stem cell transplant (HSCT) remain one of the major causes for morbidity and mortality, and it is still unclear whether knowledge of microbial colonization is important. In this single-center study, we collected weekly surveillance cultures in pediatric recipients of allogenic HSCT from five different body regions and tested for bacteria and fungi. Between January 2010 and December 2021, we collected 1095 swabs from 57 recipients of allogeneic HSCTs (median age: 7.5 years, IQR 1–3: 2.5–11.9). The incidence of positive microbiological cultures (n = 220; 20.1%) differed according to the anatomic localization (p < 0.001) and was most frequent in the anal region (n = 98), followed by the genital, pharyngeal and nasal regions (n = 55, n = 37 and n = 16, respectively). Gram-positive bacteria (70.4%) were the most commonly isolated organisms, followed by fungi (18.6%), Gram-negative (5.5%), non-fermenting bacteria (1.4%), and other flora (4.1%). No association with increased risk of infection (n = 32) or septicemia (n = 7) was noted. Over time, we did not observe any increase in bacterial resistance. We conclude that there is no benefit to surveillance of microbial colonization by culture-based techniques in pediatric HSCT. Sequencing methods might enhance the detection of pathogens, but its role is still to be defined.

Introduction: Patients with chronic pancreatitis (CP) as well as with pancreatic head carcinoma (CA) undergo the surgical intervention named "pylorus-preserving pancreatoduodenectomy according to Traverso-Longmire (PPPD)", which allowed a comparative analysis of the postoperative courses. The hypothesis was that patients with CA would have worse general as well as immune status than patients with CP due to the severity of the tumor disease and that this would be reflected in the more disadvantageous early postoperative outcome after PPPD. Methods : With the aim of eliciting the influence of the different diagnoses, the surgical outcome of all consecutive patients who underwent surgery at the Dept. of General, Abdominal, Vascular and Transplant Surgery at the University Hospital at Magdeburg between 2002 and 2015 (inclusion criterion) was recorded and comparatively evaluated. Early postoperative outcome was characterized by general and specific complication rate indicating morbidity, mortality, and microbial colonization rate, in particular surgical site infection (SSI, according to CDC criteria). In addition, microbiological findings of swabs and cultures from all compartments as well as preoperative and perioperative parameters from patient records were retrospectively documented and used for statistical comparison in this systematic retrospective unicenter observational study (design). Results : In total, 192 cases with CA (68.1%) and 90 cases with CP (31.9%) met the inclusion criteria of this study. Surprisingly, there were similar specific complication rates of 45.3% (CA) vs. 45.6% (CP; p = 0.97) and in-hospital mortality, which differed only slightly at 3.65% (CA) vs. 3.3% (CP; p = 0.591); the overall complication rate tended to be higher for CA at 23.4% vs. 14.4% (CP; p = 0.082). Overall, potentially pathogenic germs were detected in 28.9% of all patients in CP compared to 32.8% in CA ( p = 0.509), and the rate of SSI was 29.7% (CA) and 24.4% (CP; p = 0.361). In multivariate analysis, CA was found to be a significant risk factor for the development of SSI (OR: 2.025; p = 0.048); the underlying disease had otherwise no significant effect on early postoperative outcome. Significant risk factors in the multivariate analysis were also male sex for SSI and microbial colonization, and intraoperatively transfused red cell packs for mortality, general and specific complications, and surgical revisions. Conclusions : Based on these results, a partly significant, partly trending negative influence of the underlying disease CA, compared to CP, on the early postoperative outcome was found, especially with regard to SSI after PPPD. This influence is corroborated by the international literature.

In the context of sustainable bioremediation of Low-density polyethylene (LDPE), in this study, several strategies were explored to enhance the LDPE degradation by the bacterium Enterobacter cloacae AKS7. Initially, Mineral oil and Tween 80 were used to test whether they could modulate microbial colonization and polymer degradation by AKS7. Results indicated Mineral oil could increase microbial colonization and LDPE degradation whereas Tween 80 compromised the same. Since LDPE holds hydrophobic characteristics, the organism showing higher cell-surface hydrophobicity could adhere efficiently to the polymer. Thus, the organism AKS7 was grown in media with different concentrations of glucose and ammonium sulphate to exhibit differences in cell-surface hydrophobicity. We noticed that with increasing cell-surface hydrophobicity, the microbial colonization and LDPE degradation got enhanced considerably. The observations indicated that cell-surface hydrophobicity promoted microbial colonization to LDPE that increased the degree of biodegradation. Besides, LDPE films were photooxidized before microbial exposure which showed that AKS7 could degrade ultra-violet (UV) treated LDPE more proficiently compared to the UV-untreated polymer. Moreover, AKS7 could colonize more effectively to the UV-treated LDPE in contrast to the untreated LDPE. Furthermore, it was observed that UV exposure increased the carbonyl bond index of the polymer which got utilized by the organism efficiently thereby increasing the polymer degradation. Hence, the observations indicated that effective microbial colonization to UV-treated LDPE films exhibited a promising metabolic activity that could show an enhanced degradation of LDPE. Therefore, AKS7 warrants to be considered as a promising organism for enhanced degradation of LDPE. [ABSTRACT FROM AUTHOR]

Microbial colonization of the human gastrointestinal tract plays an important role in establishing health and homeostasis. However, the time-dependent functional signatures of microbial and human proteins during early colonization of the gut have yet to be determined. To this end, we employed shotgun proteomics to simultaneously monitor microbial and human proteins in fecal samples from a preterm infant during the first month of life. Microbial community complexity increased over time, with compositional changes that were consistent with previous metagenomic and rRNA gene data. More specifically, the function of the microbial community initially involved biomass growth, protein production, and lipid metabolism, and then switched to more complex metabolic functions, such as carbohydrate metabolism, once the community stabilized and matured. Human proteins detected included those responsible for epithelial barrier function and antimicrobial activity. Some neutrophil-derived proteins increased in abundance early in the study period, suggesting activation of the innate immune system. Likewise, abundances of cytoskeletal and mucin proteins increased later in the time course, suggestive of subsequent adjustment to the increased microbial load. This study provides the first snapshot of coordinated human and microbial protein expression in a preterm infant's gut during early development.

The complex microbiome colonizing the gastrointestinal tract (GIT) of ruminants plays an important role in the development of the immune system, nutrient absorption and metabolism. Hence, understanding GIT microbiota colonization in neonatal ruminants has positive impacts on host health and productivity. Microbes rapidly colonize the GIT after birth and gradually develop into a complex microbial community, which allows the possibility of GIT microbiome manipulation to enhance newborn health and growth and perhaps induce lasting effects in adult ruminants. This paper reviews recent advances in understanding how host-microbiome interactions affect the GIT development and health of neonatal ruminants. Following initial GIT microbiome colonization, continuous exposure to host-specific microorganisms is necessary for GIT development and immune system maturation. Furthermore, the early GIT microbial community structure is significantly affected by early life events, such as maternal microbiota exposure, dietary changes, age and the addition of prebiotics, probiotics and synbiotics, supporting the idea of microbial programming in early life. However, the time window in which interventions can optimally improve production and reduce gastrointestinal disease as well as the role of key host-specific microbiota constituents and host immune regulation requires further study.

Objectives: Tunneled-cuffed catheters (TCCs) are widely used in maintenance hemodialysis patients. However, microbial colonization in catheters increases the likelihood of developing various complications, such as catheter-related infection (CRI), catheter failure, hospitalization, and death. Identification of the risk factors related to microorganism colonization may help us reduce the incidence of these adverse events. Therefore, a retrospective analysis of patients who underwent TCC removal was conducted.Methods: From a pool of 389 adult patients, 145 were selected for inclusion in the study. None of the patients met the diagnostic criteria for CRI within 30 days before recruitment. The right internal jugular vein was the unique route evaluated. The catheter removal procedure was guided by digital subtraction angiography. Catheter tips were collected for culture. Biochemical and clinical parameters were collected at the time of catheter removal.Results: The average age of this cohort was 55.46 ± 17.25 years. A total of 45/145 (31.03%) patients were verified to have a positive catheter culture. The proportions of gram-positive bacteria, gram-negative bacteria, and fungi were 57.8, 28.9, and 13.3%, respectively. History of CRI [odds ratio (OR) = 2.44, 95% confidence interval (CI) 1.09 to 5.49], fibrin sheath (OR = 2.93, 95% CI 1.39–6.19), white blood cell (WBC) count ≥5.9 × 109/l (OR = 2.31, 95% CI 1.12–4.77), moderate (OR = 4.87, 95% CI 1.61–14.78) or severe central venous stenosis (CVS) (OR = 4.74, 95% CI 1.16–19.38), and central venous thrombosis (CVT) (OR = 3.41, 95% CI 1.51–7.69) were associated with a significantly increased incidence of microbial colonization in a univariate analysis. Central venous disease (CVD) elevated the risk of microbial colonization, with an OR of 3.37 (1.47–7.71, P = 0.004). A multivariate analysis showed that both CVS and CVT were strongly associated with catheter microbial colonization, with ORs of 3.06 (1.20–7.78, P = 0.019) and 4.13 (1.21–14.05, P = 0.023), respectively. As the extent of stenosis increased, the relative risk of catheter microbial colonization also increased. In patients with moderate and severe stenosis, a sustained and significant increase in OR from 5.13 to 5.77 was observed.Conclusions: An elevated WBC count and CVD can put hemodialysis patients with TCCs at a higher risk of microbial colonization, even if these patients do not have the relevant symptoms of infection. Avoiding indwelling catheters is still the primary method for preventing CRI.

The European Parliament recently approved a new law banning single-use plastic items for 2021 such as plastic plates, cutlery, straws, cotton swabs, and balloon sticks. Transition to a bioeconomy involves the substitution of these banned products with biodegradable materials. Several materials such as polylactic acid (PLA), polybutylene adipate terephthalate (PBAT), poly(butylene succinate) (PBS), polyhydroxybutyrate-valerate (PHBV), Bioplast, and Mater-Bi could be good candidates to substitute cotton swabs, but their biodegradability needs to be tested under marine conditions. In this study, we described the microbial life growing on these materials, and we evaluated their biodegradability in seawater, compared with controls made of non-biodegradable polypropylene (PP) or biodegradable cellulose. During the first 40 days in seawater, we detected clear changes in bacterial diversity (Illumina sequencing of 16S rRNA gene) and heterotrophic activity (incorporation of 3H-leucine) that coincided with the classic succession of initial colonization, growth, and maturation phases of a biofilm. Biodegradability of the cotton swab sticks was then tested during another 94 days under strict diet conditions with the different plastics as sole carbon source. The drastic decrease of the bacterial activity on PP, PLA, and PBS suggested no bacterial attack of these materials, whereas the bacterial activity in PBAT, Bioplast, Mater-Bi, and PHBV presented similar responses to the cellulose positive control. Interestingly, the different bacterial diversity trends observed for biodegradable vs. non-biodegradable plastics allowed to describe potential new candidates involved in the degradation of these materials under marine conditions. This better understanding of the bacterial diversity and activity dynamics during the colonization and biodegradation processes contributes to an expanding baseline to understand plastic biodegradation in marine conditions and provide a foundation for further decisions on the replacement of the banned single-used plastics.

The European Parliament recently approved a new law banning single-use plastic items for 2021 such as plastic plates, cutlery, straws, cotton swabs, and balloon sticks. Transition to a bioeconomy involves the substitution of these banned products with biodegradable materials. Several materials such as polylactic acid (PLA), polybutylene adipate terephthalate (PBAT), poly(butylene succinate) (PBS), polyhydroxybutyrate-valerate (PHBV), Bioplast, and Mater-Bi could be good candidates to substitute cotton swabs, but their biodegradability needs to be tested under marine conditions. In this study, we described the microbial life growing on these materials, and we evaluated their biodegradability in seawater, compared with controls made of non-biodegradable polypropylene (PP) or biodegradable cellulose. During the first 40 days in seawater, we detected clear changes in bacterial diversity (Illumina sequencing of 16S rRNA gene) and heterotrophic activity (incorporation of 3H-leucine) that coincided with the classic succession of initial colonization, growth, and maturation phases of a biofilm. Biodegradability of the cotton swab sticks was then tested during another 94 days under strict diet conditions with the different plastics as sole carbon source. The drastic decrease of the bacterial activity on PP, PLA, and PBS suggested no bacterial attack of these materials, whereas the bacterial activity in PBAT, Bioplast, Mater-Bi, and PHBV presented similar responses to the cellulose positive control. Interestingly, the different bacterial diversity trends observed for biodegradable vs. non-biodegradable plastics allowed to describe potential new candidates involved in the degradation of these materials under marine conditions. This better understanding of the bacterial diversity and activity dynamics during the colonization and biodegradation processes contributes to an expanding baseline to understand plastic biodegradation in marine conditions and provide a foundation for further decisions on the replacement of the banned single-used plastics. [ABSTRACT FROM AUTHOR]

Microbial invasions underlie host-microbe interactions resulting in pathogenesis and probiotic colonization. In this study, we explore the effects of the microbiome on microbial invasion in Drosophila melanogaster. We demonstrate that gut microbes Lactiplantibacillus plantarum and Acetobacter tropicalis improve survival and lead to a reduction in microbial burden during infection. Using a microbial interaction assay, we report that L. plantarum inhibits the growth of invasive bacteria, while A. tropicalis reduces this inhibition. We further show that inhibition by L. plantarum is linked to its ability to acidify its environment via lactic acid production by lactate dehydrogenase, while A. tropicalis diminishes the inhibition by quenching acids. We propose that acid from the microbiome is a gatekeeper to microbial invasions, as only microbes capable of tolerating acidic environments can colonize the host. The methods and findings described herein will add to the growing breadth of tools to study microbe-microbe interactions in broad contexts. [Display omitted] • Gut microbes protect Drosophila from microbial invasion • Environmental acidification by the microbiome inhibits invasive organisms • Microbial interaction assay reveals how community composition alters environmental chemistry Barron et al. demonstrate that interactions between members of the Drosophila microbiome influence the pH of the fly environment. Acidification by the microbiome, primarily through production of lactic acid by bacteria, protects the host from invasive microbes. [ABSTRACT FROM AUTHOR]

Abstract Early colonization of intestinal microbiota during the neonatal stage plays an important role on the development of intestinal immune system and nutrients absorption of the host. Compared to the normal birth weight (NBW) piglets, intrauterine growth restricted (IUGR) piglets have a different intestinal microbiota during their early life, which is related to maternal imprinting on intestinal microbial succession during gestation, at birth and via suckling. Imbalanced allocation of limited nutrients among fetuses during gestation could be one of the main causes for impaired intestinal development and microbiota colonization in neonatal IUGR piglets. In this review, we summarized the potential impact of maternal imprinting on the colonization of the intestinal microbiota in IUGR piglets, including maternal undernutrition, imbalanced allocation of nutrients among fetuses, as well as vertical microbial transmission from mother to offspring during gestation and lactation. At the same time, we give information about the current maternal nutritional strategies (mainly breastfeeding, probiotics and prebiotics) to help colonization of the advantageous intestinal microbiota for IUGR piglets.

The abundantly available mica flakes were added in raw materials to manufacture pottery in Central Peninsular India during the early Iron Age (700-300 BCE) for storage and glittering. The micaceous potsherds from the excavated megalithic site of Nagpur were studied for their composition, manufacturing techniques, microstructural features, microbial colonization, and estimation of firing temperature. The analytical techniques used were micro-XRF, FTIR, XRD, FEG-SEM, mercury porosimetry (MIP), and thermal analysis. The XRF and SEM-EDX data revealed that the potteries were coated with aqueous iron oxide on either surface for red hue and subsequently fired at an estimated temperature of 700-750 °C in a reducing atmosphere as determined by vibrational and mineralogical analysis. The X-ray microscopy and FEG-SEM images showed a grey color sandwich layer representing the original clay composition between iron oxide-coated red surface layers. MIP showed that the fine ware had a high porosity of 21- 26% with a void ratio (e) of 0.28-0.36. The loosely adhered mica flakes influenced the strength and stability of the pottery. The 16S rRNA gene sequencing identified the presence of Bacillus velezensis within the round and elongated pits within the potsherds drawing nutrients from minerals. [ABSTRACT FROM AUTHOR]

Plastic is omnipresent in the oceans and serves as a surface for biofilm-forming microorganisms. Plastic debris comprises different polymers, which may influence microbial colonization; here, we evaluated whether polymer type affects bacterial biofilm formation. Quantifying the biofilm on polyethylene (PE), polypropylene (PP) or polystyrene (PS) pellets by six marine bacterial strains (Vibrio , Pseudoalteromonas , Phaeobacter) demonstrated that each strain had a unique colonization behavior with either a preference for PS or PP over the other polymer types or no preference for a specific plastic type. PE, PP and PS pellets were exposed to natural seawater microbiota using free-living or total communities as inoculum. Microbial assembly as determined by 16S rRNA (V4) amplicon sequencing was affected by the composition of the initial inoculum and also by the plastic type. Known polymer and hydrocarbon degraders such as Paraglaciecola , Oleibacter and Hydrogenophaga were found in the plastic biofilms. Thus, on a community level, bacterial colonization on plastic is influenced by the microorganisms as well as the polymer type, and also individual strains can demonstrate polymer-specific colonization. [ABSTRACT FROM AUTHOR]

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The aerial portion of a plant, namely the leaf, is inhabited by pathogenic and non-pathogenic microbes. The leaf's physical and chemical properties, combined with fluctuating and often challenging environmental factors, create surfaces that require a high degree of adaptation for microbial colonization. As a consequence, specific interactive processes have evolved to establish a plant leaf niche. Little is known about the impact of the host immune system on phyllosphere colonization by non-pathogenic microbes. These organisms can trigger plant basal defenses and benefit the host by priming for enhanced resistance to pathogens. In most disease resistance responses, microbial signals are recognized by extra- or intracellular receptors. The interactions tend to be species specific and it is unclear how they shape leaf microbial communities. In natural habitats, microbe–microbe interactions are also important for shaping leaf communities. To protect resources, plant colonizers have developed direct antagonistic or host manipulation strategies to fight competitors. Phyllosphere-colonizing microbes respond to abiotic and biotic fluctuations and are therefore an important resource for adaptive and protective traits. Understanding the complex regulatory host–microbe–microbe networks is needed to transfer current knowledge to biotechnological applications such as plant-protective probiotics. Microbial colonization of above-ground parts of plants is a dynamic and interactive process that requires a high degree of adaptation. Understanding complex host–microbe–microbe interactions is key to new strategies for plant protection. [ABSTRACT FROM AUTHOR]

Background: Hospital-acquired infections (HAIs) and microbial colonization are a worldwide serious threat for human health. Neurological patients with infections who undergo rehabilitation have a significantly poor recovery. The effect of microbial colonization on the functional outcome in severe acquired brain injury (sABI) subjects is still unclear.Aim: The aim of this multicenter observational study was to describe the clinical impact of HAIs and colonization on the functional outcome of sABI subjects admitted to inpatient neurorehabilitation.Methods: Patients were assigned to three groups: infected (INF), not infected (noINF), and colonized (COL). The Glasgow Coma Scale (GCS), the Rancho Los Amigos Levels of Cognitive Functioning Scale, Disability Rating Scale, and modified Barthel Index (mBI) assessments were performed both at admission and discharge.Results: Two hundred sixty-five (92 female/173 male) patients were enrolled: 134 were assigned to INF, 63 to COL, and 68 to noINF. In the INF group, 231 culture specimens were found positive for bloodstream (44.2%), respiratory tract (25.5%), urinary tract (18.6%), gastrointestinal tract (8.3%), skin (3%), and cerebrospinal fluid (0.4%) infections. After rehabilitation, all groups showed a significant improvement in all assessment tests, except for the noINF group that did not show any improvement in GCS. Both noINF and COL groups showed a significantly higher gain in mBI than the INF group (p = 0.000). The COL group showed a significantly higher gain than the noINF group in GCS (p = 0.001). A significantly lower improvement was detected in the INF group than the COL and noINF groups. The rate of patients who needed functional isolation was higher in the INF group than the COL group. Length of stay (LOS) (in days) was 56 ± 50.7, 88.3 ± 55, and 101.3 ± 73.6 for noINF, INF, and COL groups, respectively. The number of deaths in the INF group was significantly higher (24.6%) than the noINF group (7.4%) (p = 0.005) and comparable to the COL group (19%).Conclusion: Colonized sABI patients obtained a similar functional outcome to that of subjects who had no infections, even if they needed a significantly higher LOS.

ABSTRACT Plant roots influence the soil microbiota via physical interaction, secretion, and plant immunity. However, it is unclear whether the root fraction or soil is more important in determining the structure of the prokaryotic or eukaryotic community and whether this varies between plant species. Furthermore, the leaf (phyllosphere) and root microbiotas have a large overlap; however, it is unclear whether this results from colonization of the phyllosphere by the root microbiota. Soil, rhizosphere, rhizoplane, and root endosphere prokaryote-, eukaryote-, and fungus-specific microbiotas of four plant species were analyzed with high-throughput sequencing. The strengths of factors controlling microbiota structure were determined using permutational multivariate analysis of variance (PERMANOVA) statistics. The origin of the phyllosphere microbiota was investigated using a soil swap experiment. Global microbial kingdom analysis conducted simultaneously on multiple plants shows that cereals, legumes, and Brassicaceae establish similar prokaryotic and similar eukaryotic communities inside and on the root surface. While the bacterial microbiota is recruited from the surrounding soil, its profile is influenced by the root itself more so than by soil or plant species. However, in contrast, the fungal microbiota is most strongly influenced by soil. This was observed in two different soils and for all plant species examined. Microbiota structure is established within 2 weeks of plant growth in soil and remains stable thereafter. A reciprocal soil swap experiment shows that the phyllosphere is colonized from the soil in which the plant is grown. IMPORTANCE Global microbial kingdom analysis conducted simultaneously on multiple plants shows that cereals, legumes, and Brassicaceae establish similar prokaryotic and similar eukaryotic communities inside and on the root surface. While the bacterial microbiota is recruited from the surrounding soil, its profile is influenced by the root fraction more so than by soil or plant species. However, in contrast, the fungal microbiota is most strongly influenced by soil. This was observed in two different soils and for all plant species examined, indicating conserved adaptation of microbial communities to plants. Microbiota structure is established within 2 weeks of plant growth in soil and remains stable thereafter. We observed a remarkable similarity in the structure of a plant’s phyllosphere and root microbiotas and show by reciprocal soil swap experiments that both fractions are colonized from the soil in which the plant is grown. Thus, the phyllosphere is continuously colonized by the soil microbiota.

Examining how seagrass decomposition contributes to trophic pathways in marine ecosystems is crucial in understanding seagrass production. Decomposition rates of seagrasses may depend on many factors such as chemical composition and microbial colonization. In this study, microbial colonization and changes in chemical composition of decomposing material (necromass) of Smooth Ribbon Seagrass, Cymodocea rotundata of Bogtong Bay, Lahuy Island, Caramoan, Philippines were monitored. Seagrass litter were placed in litterbags and incubated in the seagrass meadow in situ for 56 d. Serial dilution, viable plate counts and microbial oxygen consumption analyses were done and gravimetry, Kjeldahl method and acid hydrolysis were used respectively to measure the change in carbohydrate, protein and nitrogen content of the decomposing necromass. Results showed that the decomposition processing rate was 0.27 to 2.51% biomass (g dw) loss per day with a half-life of 2.36 to 2.88 d. Growth of bacteria was greater than fungi throughout the course of experiment. Bacterial abundance (CFU mL-1) fluctuated throughout the experimental period while fungal abundance initially increased but gradually decreased and the initially observed marine fungi ceased to grow in decaying litter until the end of the experiment indicating that heterotrophic bacteria contribute more in the decomposition of seagrass litter. Oxygen consumption as well as protein, lipids and nitrogen content of litter decreased by as over the days of incubation. Therefore, as decomposition proceeds, litter biomass was leached resulting in carbohydrate content loss. But the remaining tissues of decaying C. rotundata were eventually colonized by bacteria and fungi. This further contributes to mineralization of the litter and gradual release of nutrients that could be considered as important trophic inputs to the ecosystem.

Background: Hospital-acquired infections (HAIs) and microbial colonization are a worldwide serious threat for human health. Neurological patients with infections who undergo rehabilitation have a significantly poor recovery. The effect of microbial colonization on the functional outcome in severe acquired brain injury (sABI) subjects is still unclear. Aim: The aim of this multicenter observational study was to describe the clinical impact of HAIs and colonization on the functional outcome of sABI subjects admitted to inpatient neurorehabilitation. Methods: Patients were assigned to three groups: infected (INF), not infected (noINF), and colonized (COL). The Glasgow Coma Scale (GCS), the Rancho Los Amigos Levels of Cognitive Functioning Scale, Disability Rating Scale, and modified Barthel Index (mBI) assessments were performed both at admission and discharge. Results: Two hundred sixty-five (92 female/173 male) patients were enrolled: 134 were assigned to INF, 63 to COL, and 68 to noINF. In the INF group, 231 culture specimens were found positive for bloodstream (44.2%), respiratory tract (25.5%), urinary tract (18.6%), gastrointestinal tract (8.3%), skin (3%), and cerebrospinal fluid (0.4%) infections. After rehabilitation, all groups showed a significant improvement in all assessment tests, except for the noINF group that did not show any improvement in GCS. Both noINF and COL groups showed a significantly higher gain in mBI than the INF group (p = 0.000). The COL group showed a significantly higher gain than the noINF group in GCS (p = 0.001). A significantly lower improvement was detected in the INF group than the COL and noINF groups. The rate of patients who needed functional isolation was higher in the INF group than the COL group. Length of stay (LOS) (in days) was 56 ± 50.7, 88.3 ± 55, and 101.3 ± 73.6 for noINF, INF, and COL groups, respectively. The number of deaths in the INF group was significantly higher (24.6%) than the noINF group (7.4%) (p = 0.005) and comparable to the COL group (19%). Conclusion: Colonized sABI patients obtained a similar functional outcome to that of subjects who had no infections, even if they needed a significantly higher LOS. [ABSTRACT FROM AUTHOR]

In the study,Pseudomonas sp. K6 and Pseudomonas monteilii were found to form an enhanced biofilm when cultured in the presence of organic acids and sugars. Here, the highest biofilm could be observed for Pseudomonas sp. K6 (3.08 ± 0.13) and P. monteilii (1.99 ± 0.12) when cultured in presence of 10 µM malic acid. However, maximum production of indole 3 acetic acid (IAA) was observed with 25 µM succinic acid treatment for Pseudomonas sp. K6 (24.33 ± 0.57 µg ml−1) and with 25 µM galactose for P. monteilii (20 ± 0.0 µg ml−1). At the same time, Pseudomonas sp. K6 solubilized the highest quantity of phosphate in the presence of 50 µM citric acid (21.33 ± 0.0 µM) and P. monteilii was observed to produce 32.66 ± 1.25 µM soluble phosphate in the presence of 10 µM galactose. The results of the study demonstrate the role of organic acids and sugars in the enhancement of biofilm formation, IAA production and phosphate solubilization in selected Pseudomonas spp. and highlight the potential use of rhizobacteria in conjugation with supplement for the agricultural applications. [ABSTRACT FROM AUTHOR]

Macroalgae surfaces are considered as potentially suitable substrata present underwater for the dynamic epibiotic microbiome. They secrete various organic substances as nutrients for the multiplication of bacteria and the formation of microbial biofilms. The microbial biofilm itself acts as a biological defence mechanism to prevent the establishment of pathogenic microbes as well as to protect the surface of the seaweed from the macrofoulers. In most cases, the presence and diversity of these organisms are host-specific. The macroalgal host and their associated microbiont are often referred to as a 'Holobiont'. The surface-associated microbiome of macroalgae plays a crucial role in the growth, morphogenesis and defence in the normal favourable environmental conditions of the macroalgae (Symbiotism). Whereas, when there is a change i.e. reversed, unfavourable conditions, the microbiome reverses its symbiotic nature and affects growth and degrades the macroalgae by causing different diseases in different species (Parasitism). In parallel, marine macroalgae employ different defence mechanisms, a physical defence such as continuous shedding of the outer layer of cells, and the mucilaginous covering and chemical defence such as the production of secondary metabolites. The following chapter focuses on the macroalgal surface-associated microbiome and its defence system with a certain number of relevant examples from related literature on this subject. [ABSTRACT FROM AUTHOR]

Objectives: To assess the admission prevalence of third-generation cephalosporin-resistant Enterobacterales (3GCREB) and to assess whether risk factors vary by β-lactamase genotype.Methods: Adult patients were recruited within 72 h of admission to general wards of six university hospitals in 2014 and 2015. Rectal swabs were screened for 3GCREB and isolates were analysed phenotypically and genotypically. Patients were questioned on potential risk factors. Multivariable analyses were performed to identify risk factors for 3GCREB colonization and for specific β-lactamases.Results: Of 8753 patients screened, 828 were 3GCREB positive (9.5%). Eight hundred and thirteen isolates were available for genotyping. CTX-M-15 was the most common ESBL (38.0%), followed by CTX-M-1 (22.5%), CTX-M-14 (8.7%), CTX-M-27 (7.5%) and SHV-ESBL (4.4%). AmpC was found in 11.9%. Interestingly, 18 Escherichia coli isolates were AmpC positive, 12 of which (67%) contained AmpC on a gene of plasmid origin [CMY (n = 10), DHA (n = 2)]. Risk factors for 3GCREB colonization varied by genotype. Recent antibiotic exposure and prior colonization by antibiotic-resistant bacteria were risk factors for all β-lactamases except CTX-M-14 and CTX-M-27. Travel outside Europe was a risk factor for CTX-M-15 and CTX-M-27 [adjusted OR (aOR) 3.49, 95% CI 2.88-4.24 and aOR 2.73, 95% CI 1.68-4.43]. A previous stay in a long-term care facility was associated with CTX-M-14 (aOR 3.01, 95% CI 1.98-4.59). A preceding hospital stay in Germany increased the risk of CTX-M-15 (aOR 1.27, 95% CI 1.14-1.41), while a prior hospital stay in other European countries increased the risk of SHV-ESBL colonization (aOR 3.85, 95% CI 1.67-8.92).Conclusions: The detection of different ESBL types is associated with specific risk factor sets that might represent distinct sources of colonization and ESBL-specific dissemination routes. [ABSTRACT FROM AUTHOR]

Plastic debris in aquatic environments is rapidly colonized by a diverse community of microorganisms, often referred to as the "Plastisphere." Given that common plastics are derived from fossil fuels, one would expect that Plastispheres should be enriched with obligate hydrocarbon-degrading bacteria (OHCB). So far, though, different polymer types do not seem to exert a strong effect on determining the composition of the Plastisphere, and putative biodegrading bacteria are only found as rare taxa within these biofilms. Here, we show through 16S rRNA gene sequencing that the enrichment of a prominent OHCB member on weathered and non-weathered polyethylene only occurred at early stages of colonization (i.e., after 2 days of incubation in coastal marine water; 5.8% and 3.7% of relative abundance, respectively, vs. 0.6% on glass controls). As biofilms matured, these bacteria decreased in relative abundance on all materials (< 0.3% after 9 days). Apart from OHCB, weathered polyethylene strongly enriched for other distinct organisms during early stages of colonization, such as a specific member of the Roseobacter group and a member of the genus Aestuariibacter (median 26.9% and 1.8% of the community, respectively), possibly as a consequence of the availability of short-oxidized chains generated from weathering. Our results demonstrate that Plastispheres can vary in accordance with the weathering state of the material and that very early colonizing communities are enriched with taxa that can potentially degrade hydrocarbons. Given the lack of persistent enrichment and overall community convergence between materials over time, common non-hydrolysable polymers might not serve as an important source of carbon for mature Plastispheres once the labile substrates generated from weathering have been depleted. [ABSTRACT FROM AUTHOR]

Background: Post-exposure prophylaxis (PEP) for close contacts of invasive meningococcal disease (IMD) cases is recommended in most countries to avoid secondary cases by eradicating supposed meningococcal colonization. Currently, rifampicin, ciprofloxacin and ceftriaxone are recommended in many countries including Germany. Azithromycin has been shown to eradicate meningococcal colonization.Objectives: To assess the azithromycin susceptibility of invasive Neisseria meningitidis isolates.Methods: A subset of German invasive meningococcal isolates from 2006-18 was selected for this study. Azithromycin MIC was determined using broth microdilution and agar gradient diffusion.Results: Azithromycin MICs as determined by broth microdilution ranged from <0.003 to 2 mg/L (median 0.50 mg/L, Q75 1 mg/L). All isolates were susceptible to azithromycin according to the CLSI breakpoint (95% CI 0.0%-1.5%). There was no significant correlation between MICs determined by broth microdilution and agar gradient diffusion. Nevertheless, the two methods were consistent regarding the categorization of all isolates as susceptible.Conclusions: Azithromycin is an eligible antibiotic for PEP of IMD close contacts. It is approved for adults as well as children and may even be used in pregnancy. Because of easier application and lower toxicity, it might be an alternative to rifampicin and ciprofloxacin, as we found no resistant isolates. Since a gonococcal gene associated with elevated azithromycin MICs has been reported in N. meningitidis, careful monitoring of the emergence of resistant strains is nevertheless necessary for meningococci. Lack of concordance of MICs between broth microdilution and agar gradient diffusion needs to be considered. [ABSTRACT FROM AUTHOR]

Objectives: To develop and validate a clinical model to identify patients admitted to hospital with community-acquired infection (CAI) caused by pathogens resistant to antimicrobials recommended in current CAI treatment guidelines.Methods: International prospective cohort study of consecutive patients admitted with bacterial infection. Logistic regression was used to associate risk factors with infection by a resistant organism. The final model was validated in an independent cohort.Results: There were 527 patients in the derivation and 89 in the validation cohort. Independent risk factors identified were: atherosclerosis with functional impairment (Karnofsky index <70) [adjusted OR (aOR) (95% CI) = 2.19 (1.41-3.40)]; previous invasive procedures [adjusted OR (95% CI) = 1.98 (1.28-3.05)]; previous colonization with an MDR organism (MDRO) [aOR (95% CI) = 2.67 (1.48-4.81)]; and previous antimicrobial therapy [aOR (95% CI) = 2.81 (1.81-4.38)]. The area under the receiver operating characteristics (AU-ROC) curve (95% CI) for the final model was 0.75 (0.70-0.79). For a predicted probability ≥22% the sensitivity of the model was 82%, with a negative predictive value of 85%. In the validation cohort the sensitivity of the model was 96%. Using this model, unnecessary broad-spectrum therapy would be recommended in 30% of cases whereas undertreatment would occur in only 6% of cases.Conclusions: For patients hospitalized with CAI and none of the following risk factors: atherosclerosis with functional impairment; previous invasive procedures; antimicrobial therapy; or MDRO colonization, CAI guidelines can safely be applied. Whereas, for those with some of these risk factors, particularly if more than one, alternative antimicrobial regimens should be considered. [ABSTRACT FROM AUTHOR]

Pediatric burn injuries are vulnerable to severe complications, most often infection, making prompt and precise diagnosis of bacterial bioburden vital to preventing detrimental consequences and optimizing patients' outcomes. Currently, burn wounds are assessed for infection via examining the clinical signs and symptoms of infection, which can be confirmed by swab culture analysis. While the former approach is subjective and experience-dependant, the latter technique is susceptible to missing subsurface, biofilm-associated colonization, and any peripheral bacterial burden, and also delays confirmation by up to 5 days. The MolecuLight i:X is a handheld, noncontact fluorescence imaging device, which can reveal real-time information about clinically significant levels of bacteria and their biodistribution in surface and subsurface burn wound tissues. We conducted a single-center observational study to assess the device efficacy in identifying critical bacterial levels in pediatric burn wounds and to test the children's compliance and the overall feasibility of the device integration into the current diagnostic practice. Ten patients with 16 wounds were recruited and assessed for the presence or absence of clinical signs and symptoms of infection and the presence or absence of bacterial fluorescence on images, with swabs taken to confirm findings. Results demonstrate the device's ability to visualize clinically significant bacterial burden and to localize distribution of pathogens. All clinicians agreed on the high compliance with the device and high feasibility of incorporating the device into routine wound assessments. The results of this study may pave the way toward including bacterial fluorescence imaging into the standard diagnostic algorithm for pediatric burn population. [ABSTRACT FROM AUTHOR]

Background: Infection and colonization with multi-resistant Acinetobacter baumannii causes therapeutic and economic problems in the nosocomial setting. Due to the sensitivity issue of screening schemes for A. baumannii, it is difficult to implement adequate transmission prevention measures. The high discriminatory power of WGS for transmission-chain analysis provides us with the necessary tool to study and identify transmission events. We retrospectively sequenced and analysed 39 A. baumannii isolates from 2012-15 to search for possible missed transmission events.Methods: Molecular typing by WGS was performed for non-repetitive (n=39) carbapenem-resistant A. baumannii. Retrospective assessment of patient records was performed to investigate and confirm possible transmission events.Results: Between July 2012 and September 2015, A. baumannii was isolated from 268 patients, of which 16% (42/268) were carbapenem resistant. Thirty-nine of these isolates were recoverable and sequenced. Fifteen percent (6/39) of these were resistant to all antibiotics tested. Most isolates belong to the circulating IC2 clonal type. SNP analysis revealed four potential outbreak clusters. Two of these clusters showed high concordance with the local spatio-temporal epidemiology, suggesting that transmission events were very likely.Conclusions: Our data suggest that there were two independent transmission events, which would have been missed by conventional MLST owing to high clonality. The routine implementation of WGS can optimize surveillance and initiation of suitable containment measures. In addition, emerging resistance to salvage therapy is a major therapeutic problem and should be monitored closely. [ABSTRACT FROM AUTHOR]

The assessment of MDRO infection and colonization should include the identification of known carriers, the detection of hospital-specific and healthcare-associated acquisition, an estimation of the burden of serious infection, an understanding of the reservoir affecting the transmission of MDROs, and an evaluation of the effect of intervention. Several strategies can be used to obtain data that aid in this assessment. We have defined and categorized the recommended metrics for each of these aspects of measuring MDRO infection and colonization, for use by healthcare facilities. © 2008 by The Society for Healthcare Epidemiology of America. All rights reserved.