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16S rRNA Sequencing - Crossref

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Last Updated: 10 June 2022

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Study on the airway microecology of pulmonary tuberculosis based on 16S rRNA sequencing

"Abstract Background: Pulmonary tuberculosis is a chronic respiratory disease of the respiratory system. " To characterize the respiratory microbiota composition of 30 tuberculosis patients and compared with 30 health controls, high-throughput 16S RNA gene sequencing was used. 30 pulmonary tuberculosis patients were divided into 12 people in the vulnerable group and 18 people in the drug-resistant group, according to their Gene Xpert results. The TB group's Alpha distribution is lower than that of the H group, and Beta representation is larger than that of the H group. Conclusion: Streptococcus infections in the DS0 group were significantly higher than those in the DR0 group, causing respiratory tract flora disorders, in which the relative abundance of Streptococcus was significantly different between rifampicin-sensitive and drug-resistant patients. ".

Source link: https://doi.org/10.21203/rs.3.rs-1667910/v1


Evaluating Starter Feeding on Ruminal Function in Yak Calves: Combined 16S rRNA Sequencing and Metabolomics

"Befor young ruminants, starter feeding can safely promote rumen growth and development in ruminants, but rumen formation is a significant physiological challenge, considering that the mechanism of starter feeding stimulation remains unclear. " In this research, we conducted an examination of ruminal microbiota and their metabolites in yak calves to see how the ruminal microbiota and their metabolites promote ruminal function. This research used 16S rRNA sequencing with liquid chromatography-mass spectrometry-based metabolomics to determine the effects of starter feeding on ruminal microbiota species and metabolites in yak calves. The control group was fed with alfalfa hay and starter, while the treatment group was fed with alfalfa hay and starter; we conducted the experiment using 20 yak calves that were divided equally into two groups based on feeding milk substituter; the control group was fed with alfalfa hay; the treatment group was fed with alfalfa hay and starter; and the treatment group was fed with alfalfa hay and starter; we conducted During the pre-weaning period, the RAS group notably promoted yak calves' growth and ruminal development, including increases in body mass, chest girth, and rumen formation. Compared to the RA group and the RAS group, a total of 37 metabolites were found between the RA group and the RAS group, of which 15 metabolites were upregulated and 22 metabolites were downregulated, with the RAS group being downregulated. The upregulated metabolic pathway of the RAS group yak calves was related to carbohydrate metabolism, ubiquinone, and other terpenoid-quinone biosynthesis, according to metabolic pathway evaluations, although the downregulated metabolic pathway was crucial to xenobiotic biodegradation, metabolism, and nucleotide metabolism.

Source link: https://doi.org/10.3389/fmicb.2022.821613


16S rRNA amplicon sequencing for epidemiological surveys of bacteria in wildlife: the importance of cleaning post-sequencing data before estimating positivity, prevalence and co-infection

"We investigated the possibility of new advances in 16S rRNA amplicon sequencing to enable multiplexing of large numbers of samples, which may have helped to increase our knowledge of the threat of zoonotic disease transmission among urban rodents in West Africa. " In Senegal, 208 Mus musculus domesticus, 189 Rattus rattus, 93 Mastomys natalensis, and 221 Mastomys erythroleucus demonstrated the implementation of this program using 711 commensal rodents from 24 villages, including 208 Mus musculus domesticus, 189 Rattus 93 Mastomys Bacterial incidence varied from 0% to 90% of individuals per site, including the bacterial taxon, rodent species, and location considered, with 26% of rodents showing coinfection. The 16S rRNA amplicon sequencing strategy outlined here has the advantage over other molecular diagnostic techniques of dealing with a broad range of bacterial pathogens without requiring assumptions about their presence in the samples. ".

Source link: https://doi.org/10.1101/039826


Sputum Microbiota in Coal Workers Diagnosed with Pneumoconiosis as Revealed by 16S rRNA Gene Sequencing

"Coal workeru2019s pneumoconiosis is a chronic lung disease induced by occupational exposure. " We present a pilot study that investigates the sputum microbiome as a potential non-invasive bacterial biomarker of CWP status. The physiology of bacterial populations in sputum samples varied greatly between patients and controls. Former and current miners did not differ between former and current miners, and the increasing presence of Streptococcus in sputum from CWP patients was only correlated with occupational pulmonary fibrosis. The sputum microbiota of CWP subjects differs from that of controls, for the first time.

Source link: https://doi.org/10.3390/life12060830


The Alteration of Intrauterine Microbiota in Chronic Endometritis Patients Based on 16s rRNA sequencing Analysis

"Abstract Background The endometritis chronic endometritis is a chronic and subtle inflammation disease that occurs in the endometrial stromal region, which is often asymptomatic or non-specific clinical signs. " Among them, patients with persistent endometritis were referred to the CE group and others were enrolled in the non-CE group. Conclusions The alpha diversity in the CE group was significantly higher than that in the non-CE group. Actinobacteriota and Cyanobacteria in CE group were significantly higher than those in the non-CE group. Moreover, the pathways involved arginine and proline metabolism and retinol metabolism were significantly enhanced in the CE group relative to the non-CE group, although pre-CE lipid and prenyltransferases' metabolism was significantly reduced in CE group. This report detailed the change in intrauterine microbiota in CE patients, raising the diagnosis rate of CE and assisting in the selection of antibiotic therapy for CE patients. ".

Source link: https://doi.org/10.21203/rs.3.rs-1705621/v1


Characterisation of the human uterine microbiome in non-pregnant women through deep sequencing of the V1-2 region of the 16S rRNA gene

"It is widely believed that the uterine cavity in non-pregnant women is sterile, as well as a premise to the long-standing belief that human infants develop in a sterile uterine environment," the human bacterial metacommunity's size is unclear. We sought to find the putative presence of a uterine microbiome in a selected group of non-pregnant women by deep sequencing of the V1-2 hypervariable region of the 16S ribosomal RNA gene in an exploratory study. Endometrial tissue and mucus harvesting was done by a transcervical device that could produce endometrial biopsy while still avoiding cervicovaginal contamination. In all samples, there were 15 phylotypes out of 183 unique 16S rRNA gene amplicon sequences. Community architecture in more than a quarter of the endometrial bacterial community was very similar to that of B. xylanisolvens, B. taomicron, B. fragility, and undetermined Pelomonas taxon in more than a quarter of the women included. Six women had predominance of L. crispatus or L. iners in the absence of the Bacteroides core, according to the singular phylotype type. Nevertheless, the uterine microbiota are expected to play a previously unrecognized role in uterine physiology and human reproduction, which is consistent with our understanding of the human microbiome. Further research is therefore required to determine community ecology and dynamics of the uterine microbiota, as well as the role of the uterine microbiome in health and disease.

Source link: https://doi.org/10.7717/peerj.1602


Analysis of 16S rRNA sequencing in advanced colorectal cancer tissue samples.

"163 Background: Changes in the colon's microbiota composition may have contributed to colorectal cancer pathogenesis. We analyzed 16S rRNA sequencing results from tumor tissue samples of senior CRC patients to see if there were potential correlations between microbiome composition and clinical outcomes for this research. Methods: One hundred and thirty three new advanced CRC patients in St. Vincent'u2019s Hospital in Korea were enrolled. To process sequence data and determine the microbiome composition of each tumor, we used three separate bioinformatic applications. Results: In a microbiome control sample, the classification results of three different analytic pipelines were compared. The right-side colony, 30. 8% from the left-side colony, and 47. 7% from the rectum were distributed over primary sites, 27. 5% from the rectum. Rectal cancers had higher alpha diversity than left- or right-side colon cancers, according to the primary site. A raised serum CEA level at diagnosis and the presence of lung metastasis were both found to be correlated to increased alpha-diversity, a global indicator of microbiome composition. Patients who lived more than two years and patients who died within two years were most likely to suffer beta-diversity. We discovered that the presence of Fusobacterium nucleatum in CRC tissue was a strong predictor of poor overall health, as well as old age and liver metastasis, based on the DADA2 findings. Conclusions: This report points to potential correlations between microbiome composition and clinical parameters of advanced CRC. Microbiomarkers can be a useful diagnostic tool in this population, especially microbial biomarkers. ".

Source link: https://doi.org/10.1200/jco.2022.40.4_suppl.163


Species level resolution of female bladder microbiota from 16S rRNA amplicon sequencing

"Abstract In the absence of sickness, the human bladder is full of bacteria. " The demand for studying these bacteria and their connection with bladder disease is on the rise. Using 16S rRNA amplicon sequencing, we found out whether accurate species-level identification of bladder bacteria is possible. To correctly identify bladder bacteria, we tested the ability of several classification schemes, each consisting of a reference database, a 16S rRNA gene variable region, and a taxonomic classification scheme to accurately distinguish bladder bacteria. Importance Species-level data can expand our knowledge of links between bladder microbiota and bladder disease, such as lower urinary tract symptoms and urinary tract infections. bacterial genetics and classification The ability to identify bacterial species is dependent on large databases of sequences, algorithms that use statistics and readily available computer hardware, as well as knowledge of bacterial genetics and classification. The choice of taxomic database and a fragmented region of the 16S rRNA gene sequence makes species level identification possible," according to Our findings.

Source link: https://doi.org/10.1101/2020.10.27.358408


What does 16S rRNA gene-targeted next generation sequencing contribute to the study of infective endocarditis in valve tissue?

"Abstract Infective endocarditis is a severe and life-threatening disease. " In this study, next-generation sequencing of the V3-V4 region of the 16S RNA gene was performed in 27 heart-valve tissues of patients treated by IE. The same bacterial species was present in 24 cases, the same genus to 23 cases, and the same species was found in 13 cases. Staphylococcus aureus was present in a newly undiagnosed patient, enabling the microbiological diagnosis to be carried out in a larger sample than with previously used techniques. The remaining two patients had no coincidence between traditional and NGS microbiological diagnoses. In conclusion: In conclusion: In conclusion: One case of IE without using a traditional model was able to be diagnosed by a 16S rRNA gene-targeted NGS. Nonetheless, the application of metagenomics to the analysis of IE in resected heart valves has no benefit over those of BC and/or PCR. ".

Source link: https://doi.org/10.1101/2021.01.23.21250364

* Please keep in mind that all text is summarized by machine, we do not bear any responsibility, and you should always check original source before taking any actions

* Please keep in mind that all text is summarized by machine, we do not bear any responsibility, and you should always check original source before taking any actions