Near-complete whole-genome sequence of Paenibacillus sp. nov. Strain J5C2022, a sucretolerant and endospore-forming bacterium isolated from highly concentrated sugar brine

Here, we present a 7.62-Mbp genome sequence of Paenibacillus sp. nov. strain J5C2022, a Gram-positive facultatively anaerobic bacterium that was isolated from 4-month-old fruit pickle brine and sequenced using the Illumina platform

Whole genome sequencing of Priestia megaterium isolated from the gut of sea cucumber (Holothuria leucospilota)

Priestia megatrium represents a bacterium of interest in a wide application of the field of biotechnology. Often it is sought after for its ability that boasts great rate for biosynthesis production of smaller biological molecules while also representing a suitable host to generate compounds such as cobalamin. The bacterium can also be found in a wide variety of habitats including sea water. Sea cucumbers have begun to be quite popular to a point of extinction in certain species. This interest could be associated to the uniqueness attributed to its gut microbiome or just the organism itself. Nevertheless, the presence of Priestia megaterium within the gut of Holothuria leucospilota might serve as rationale to the previous statement. Here, we describe a detailed genomic analysis of Priestia megaterium isolated from the gut of Holothuria leucospilota. Genomic DNA was extracted from nutrient broths which were incubated with pure cultures of Priestia megatrium which were previously isolated from the sea cucumber. Whole genome sequencing was carried out using an Oxford Nanopore Technology platform which used a long-read protocol. The study reported a complete genome of Priestia megatrium compromising of 5,323,711Â bp genome size with a GC content of 37.9Â . Finally, the annotated genome was submitted to the NCBI database. Overall, this study revealed the complete genome of Priestia megatrium and would serve to potentially explain its association towards the gut microbiome found within Holothuria leucospilota

Preliminary screening of bacterial and fungal communities from spontaneous fermentation of Durian pulps (tempoyak) using high-throughput amplicon sequencing

Fermentation is a method used to prolong the shelf-life and taste of fruit. Tempoyak is a fermented food made from durian pulps. Accumulating works were conducted to isolate and characterize the microbial communities using culture-dependent methods, with little effort in identifying the diversity using culture-independent approaches like next-generation sequencing (NGS) in tempoyak. The culture-dependent method showed several limitations such as tedious technique in plating, biasness in morphological identification and incompatibility of media selection for microbial growth. To date, the NGS allowed identification of the unculturable microbes up to species level. The purpose of this study is to screen the microbial communities in tempoyak using amplicon sequencing by targeting 16S rRNA and ITS2 for determining the diversity of bacterial and fungal communities respectively. On the other hand, this study also compared the complex microbial structure from the first day, T0 to day 14, T14 of the fermentation process. Here, we observed that sample T14 showed more diverse in both bacterial and fungal populations as compared to sample T0. Overall, genus Lactobacillus are the most abundant microbes representing the bacterial community. This study highlighted the importance of the NGS in characterizing the complex microbial communities in fermented food, for which could be useful to screen for potential unculturable microbial communities hindered by the limitation of culture-dependent approach

Isolation of meyerozyma caribbica, penicillium georgiense, and pichia kudriavzevii from harumanis mango (mangifera indica l.)

Microbes from the environment usually spoil fruits. Thus, this study was carried out to study fungi that play an important role in rot fruits. Several microbes were isolated using the culturedependent method, Penicillium georgiense, Meyerozyma caribbica, and Pichia kudriavzevii. All these gDNA extracted can be identified with their characteristic pathogenic properties or benefits through high-throughput sequencing technology and compared from the NCBI database's known sequence. This finding can be explored further in the future with further experimental validation processes

Evaluation of pre-treated healthcare wastes during COVID-19 pandemic reveals pathogenic microbiota, antibiotics residues, and antibiotic resistance genes against beta-lactams

The disposal of healthcare waste without prior elimination of pathogens and hazardous contaminants has negative effects on the environment and public health. This study aimed to profile the complete microbial community and correlate it with the antibiotic compounds identified in microwave pre-treated healthcare wastes collected from three different waste operators in Peninsular Malaysia. The bacterial and fungal compositions were determined via amplicon sequencing by targeting the full-length 16S rRNA gene and partial 18S with full-length ITS1–ITS2 regions, respectively. The antibiotic compounds were characterized using high-throughput spectrometry. There was significant variation in bacterial and fungal composition in three groups of samples, with alpha- (p-value = 0.04) and beta-diversity (p-values <0.006 and < 0.002), respectively. FC samples were found to acquire more pathogenic microorganisms than FA and FV samples. Paenibacillus and unclassified Bacilli genera were shared among three groups of samples, meanwhile, antibiotic-resistant bacteria Proteus mirabilis, Enterococcus faecium, and Enterococcus faecalis were found in modest quantities. A total of 19 antibiotic compounds were discovered and linked with the microbial abundance detected in the healthcare waste samples. The principal component analysis demonstrated a positive antibiotic-bacteria correlation for genera Pseudomonas, Aerococcus, Comamonas, and Vagococcus, while the other bacteria were negatively linked with antibiotics. Nevertheless, deep bioinformatic analysis confirmed the presence of blaTEM-1 and penP which are associated with the production of class A beta-lactamase and beta-lactam resistance pathways. Microorganisms and contaminants, which serve as putative indicators in healthcare waste treatment evaluation revealed the ineffectiveness of microbial inactivation using the microwave sterilization method. Our findings suggested that the occurrence of clinically relevant microorganisms, antibiotic contaminants, and associated antibiotic resistance genes (ARGs) represent environmental and human health hazards when released into landfills via ARGs transmission

Whole-genome sequence of a stenotrophomonas maltophilia isolate from tap water in an intensive care unit

Here, we present a 4,508,936-bp complete genome sequence of Stenotrophomonas maltophilia strain HW002Y, which was isolated from the tap water in an intensive care unit at Sultan Ahmad Shah Medical Centre at the International Islamic University of Malaysia (Kuantan, Pahang, Malaysia). Sequencing was performed using a Nanopore Flongle flow cell

Anti-neuroinflammatory effects of Hibiscus sabdariffa Linn. (Roselle) on Lipopolysaccharides-induced Microglia and neuroblastoma cells

Hibiscus sabdariffa Linn. (roselle) is a polyphenol rich fruit. This study aimed to identify the neuroprotective effect of roselle on LPS-induced cell proliferation and nitric oxide-induced free radical in microglia and neuroblastoma cells. MTT assay was used to identify the appropriate concentration of roselle and LPS for microglia and neuroblastoma cells proliferation study. Griess assay were used to determine the level of nitric oxide accumulated based on the reaction of Griess to estimate the activity of iNOS in nitric oxide production. The results showed that roselle at the concentration of 50 μg/mL and 100 μg/mL and LPS at concentration of 1 μg/mL does not give cytotoxic effect towards microglia C8-B4 and neuroblastoma LN18 cells. The roselle treatment at 50 μg/mL and 100 μg/mL showed a protective effect on LPS-induced microglia C8-B4 cells. However, in neuroblastoma LN18 cells, no protective effect was seen on both 50 μg/mL and 100 μg/mL of roselle treatment following induction with 1 μg/mL of LPS. On the other hand, the production of nitric oxide (NO) was reduced when LPS-induced microglia C8-B4 cells were treated with 50 μg/mL of roselle. Treatment of roselle at concentration 100 μg/mL on LPS-induced neuroblastoma LN18 cells also reduced the production of nitric oxide. As a conclusion, roselle had the ability to give neuroprotective effect by the inhibition of LPS induction activity on microglia activation for normal and cancer cells at different concentrations

Whole-genome sequence of a stenotrophomonas maltophilia isolate from tap water in an intensive care unit

Here, we present a 4,508,936-bp complete genome sequence of Stenotrophomonas maltophilia strain HW002Y, which was isolated from the tap water in an intensive care unit at Sultan Ahmad Shah Medical Centre at the International Islamic University of Malaysia (Kuantan, Pahang, Malaysia). Sequencing was performed using a Nanopore Flongle flow cell

Empagliflozin in Patients with Chronic Kidney Disease

Background The effects of empagliflozin in patients with chronic kidney disease who are at risk for disease progression are not well understood. The EMPA-KIDNEY trial was designed to assess the effects of treatment with empagliflozin in a broad range of such patients. Methods We enrolled patients with chronic kidney disease who had an estimated glomerular filtration rate (eGFR) of at least 20 but less than 45 ml per minute per 1.73 m(2) of body-surface area, or who had an eGFR of at least 45 but less than 90 ml per minute per 1.73 m(2) with a urinary albumin-to-creatinine ratio (with albumin measured in milligrams and creatinine measured in grams) of at least 200. Patients were randomly assigned to receive empagliflozin (10 mg once daily) or matching placebo. The primary outcome was a composite of progression of kidney disease (defined as end-stage kidney disease, a sustained decrease in eGFR to &lt; 10 ml per minute per 1.73 m(2), a sustained decrease in eGFR of &amp; GE;40% from baseline, or death from renal causes) or death from cardiovascular causes. Results A total of 6609 patients underwent randomization. During a median of 2.0 years of follow-up, progression of kidney disease or death from cardiovascular causes occurred in 432 of 3304 patients (13.1%) in the empagliflozin group and in 558 of 3305 patients (16.9%) in the placebo group (hazard ratio, 0.72; 95% confidence interval [CI], 0.64 to 0.82; P &lt; 0.001). Results were consistent among patients with or without diabetes and across subgroups defined according to eGFR ranges. The rate of hospitalization from any cause was lower in the empagliflozin group than in the placebo group (hazard ratio, 0.86; 95% CI, 0.78 to 0.95; P=0.003), but there were no significant between-group differences with respect to the composite outcome of hospitalization for heart failure or death from cardiovascular causes (which occurred in 4.0% in the empagliflozin group and 4.6% in the placebo group) or death from any cause (in 4.5% and 5.1%, respectively). The rates of serious adverse events were similar in the two groups. Conclusions Among a wide range of patients with chronic kidney disease who were at risk for disease progression, empagliflozin therapy led to a lower risk of progression of kidney disease or death from cardiovascular causes than placebo