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Publications related to Gene Sequencing (10,000)
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Objectives: Shaokwan is one of the inhabitant regions of Hakka population in Guangdong province of southern China. Previous survey has reported that a higher prevalence of abnormal hemoglobin (Hb) in this region. However, large-scale survey on the molecular characteristics of abnormal hemoglobin in this south-north junctional region has not been re...
Article
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Background: The oral microbiota plays vital roles in both oral and systemic health, but limited studies have explored the transition of the female oral microbiota from preconception to pregnancy along with pronounced hormonal fluctuations. Aim: To characterize the oral microbiota among women in preconception and pregnancy through a prospective s...
Article
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Aim: To investigate associations between oral health-related conditions and the oral microbiome in a representative study sample of centenarians. Materials and methods: Clinical and microbial parameters from 54 centenarians were assessed in the Heidelberg Dental Centenarian Study. Plaque and salivary samples were collected, and the microbiota wa...
Article
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Introduction: Oral microbiota that established in the early years of life may influence the child's oral health in the long term. Until now, no consensus is reached about whether the development of the oral microbiota is more related with age increase or more with teeth eruption. Objective: To analyze the microbiota development of both saliva an...
Article
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The knowledge on how gut microbes contribute to the inflammatory bowel disease (IBD) at the onset of disease is still scarce. We compared gut microbiota in newly diagnosed, treatment-naïve adult IBD (Crohn's disease (CD) and ulcerative colitis (UC)) to irritable bowel syndrome (IBS) patients and healthy group. Mucosal and fecal microbiota of 49 pat...
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There is a growing debate about the involvement of the gut microbiome in COVID-19, although it is not conclusively understood whether the microbiome has an impact on COVID-19, or vice versa, especially as analysis of amplicon data in hospitalized patients requires sophisticated cohort recruitment and integration of clinical parameters. Here, we ana...
Article
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Due to the potential role of the gut microbiota and bile acids in the pathogenesis of both inflammatory bowel disease (IBD) and sporadic colorectal cancer, we aimed to determine whether these factors were associated with colorectal cancer in IBD patients. 215 IBD patients and 51 non-IBD control subjects were enrolled from 10 French IBD centers betw...
Article
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Aim: Periodontitis is a site-specific, chronic disease treated by non-surgical debridement of subgingival plaque. We aimed to determine the microbiome of sites that did not respond to this treatment (NR) compared with paired good responding (GR) sites before and after treatment. Materials and methods: In a longitudinal cohort study, clinical par...
Article
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Ulcerative colitis (UC) is a complex immune-mediated disease in which the gut microbiota plays a central role, and may determine prognosis and disease progression. We aimed to assess whether a specific microbiota profile, as measured by a machine learning approach, can be associated with disease severity in patients with UC. In this prospective pil...
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The gut microbiota was emerging as critical regulatory elements in shaping the outcome of cancer immunotherapy. However, the underlying mechanisms by which the gut commensal species enhance antitumor immunity remain largely unexplored. Here, we show that the gut microbiota from healthy individuals conferred considerable sensitivity to anti-PD-1 in...
Article
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Fusarium wilt caused by Fusarium oxysporum f.sp ciceris is one of the major diseases impacting chickpea productivity. Significant losses are reported by farmers due to the absence of effective wilt management options. Biological control using beneficial microorganisms in agriculture, is one of the promising alternatives and eco-friendly strategies...
Article
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Background: Severe-early childhood caries (S-ECC) a global problem of significant concern, commonly manifest on the occlusal, and proximal surfaces of affected teeth. Despite the major ecological differences between these two niches the compositional differences, if any, in the microbiota of such lesions is unknown. Methods: Deep-dentine caries...
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Genetic defects in SLC26A3 (DRA), an intestinal Cl-/HCO3- exchanger, result in congenital chloride diarrhea (CLD), marked by lifelong acidic diarrhea and a high risk of inflammatory bowel disease. Slc26a3-/- mice serve as a model to understand the pathophysiology of CLD and search for treatment options. This study investigates the microbiota change...
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Coronavirus disease 2019 (COVID-19) is a highly contagious disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The gold standard method for the diagnosis of SARS-CoV-2 depends on quantitative reverse transcription-polymerase chain reaction till now, which is time-consuming and requires expensive instrumentation, and the...
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A new generation of community- and population-based research is combining measures of social context, experience, and behavior with direct measures of physiology, gene sequence and function, and health. Studies drawing on models and methods from the social and biological sciences have the potential to illuminate the multilevel mechanisms through wh...
Article
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Background Sini Decoction (SND), a classic Chinese medicine prescription, has been proved to have a good effect on heart failure (HF), whereas its underlying mechanism is still unclear. In order to explore the therapeutic mechanism of SND, we combined with 16S rRNA gene sequencing to analyze the composition of gut microflora in rats with HF. Mater...
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Background Successful rhizosphere colonization by plant growth promoting rhizobacteria (PGPR) is of crucial importance to perform the desired plant growth promoting activities. Since rhizocompetence is a dynamic process influenced by surrounding environmental conditions. In the present study, we hypothesized that bacterial isolates obtained from di...
Article
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Background B1 cells are self-renewing innate-like B lymphocytes that provide the first line of defense against pathogens. B1 cells primarily reside in the peritoneal cavity and are known to originate from various fetal tissues, yet their developmental pathways and the mechanisms underlying maintenance of B1 cells throughout adulthood remain unclear...
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Background Mycobacterium colombiense is an acid-fast, non-motile, rod-shaped mycobacterium confirmed to cause respiratory disease and disseminated infection in immune-compromised patients, and lymphadenopathy in immune-competent children. It has virulence mechanisms that allow them to adapt, survive, replicate, and produce diseases in the host. To...
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Background Polycyclic aromatic hydrocarbons (PAHs) such as anthracene are one of the most toxic contaminants to our environment. Microbial biodegradation of these xenobiotics is a cost-effective technological solution. The present study aimed to recover some bacterial isolates from Beni-Suef Governorate in Egypt with high capabilities of anthracene...
Article
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Background Cockayne syndrome (CS) is a rare autosomal recessive disorder caused by mutations in ERCC6/CSB or ERCC8/CSA that participate in the transcription-coupled nucleotide excision repair (TC-NER) of UV-induced DNA damage. CS patients display a large heterogeneity of clinical symptoms and severities, the reason of which is not fully understood,...
Article
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Osteoarthritis (OA) is a widespread chronic degenerative joint disease characterized by the degeneration of articular cartilage or inflamed joints. Our findings indicated that treatment with artemisinin (AT) downregulates the protein levels of MMP3, MMP13, and ADAMTS5, which are cartilage degradation-related proteins in OA, and inhibits the express...
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This study aimed to identify significant mutations in CCN3 gene in osteosarcoma, and to explore the influence of this gene on cell invasion and differentiation and the underlying mechanism. Sanger sequencing was used to identify CCN3 gene sequence in human osteosarcoma cell lines, peripheral blood mononuclear cells (PBMC), and osteosarcoma tissues....
Preprint
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Finfish aquaculture is a fast-growing primary industry and is increasingly common in coastal ecosystems. Bacterioplankton is ubiquitous in marine environment and respond rapidly to environmental changes. Changes in bacterioplankton community are not well understood in semi-enclosed stratified embayments. This study aims to examine aquaculture effec...
Article
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Gram-stain-positive, aerobic, non-spore-forming strains CCNWLXL 1-35T, CCNWLXL 12-2 and CCNWLXL 21-a, were isolated from wheat rhizosphere from Yangling, Shaanxi Province, China. Comparison of the 16S rRNA gene sequences showed that they belonged to the genus Arthrobacter and were closely related to Arthrobacter globiformis NBRC 12137T (97.95% simi...
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α-Galactosidase (α-D-galactosidase galactohydrolase; EC 3.2.1.22), is an industrially important enzyme that hydrolyzes the galactose residues in galactooligosaccharides and polysaccharides. The industrial production of α-galactosidase is currently insufficient owing to the high production cost, low production efficiency and low enzyme activity. Rec...
Article
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A violacein-producing bacterium was isolated from a mud sample collected near a hot spring on Kümbet Plateau in Giresun Province and named the GK strain. According to the phylogenetic tree constructed using 16S rRNA gene sequence analysis, the GK strain was identified and named Janthinobacterium sp. GK. The crude violacein pigments were separated i...
Article
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CRISPR screening is a powerful tool to identify host factors for pathogenic agents including viruses and bacterial toxins. Here, we present a protocol to conduct a genome-scale CRISPR screen on HeLa cells for host factors involved in the toxin action of Clostridioides difficile TcdB4. We describe in detail how to prepare the library, set up the scr...
Article
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Two bacterial strains, KH365_2 T and KH569_7, were isolated from the cecum contents of wild-derived house mice. The strains were characterized as Gram-negative, rod-shaped, strictly anaerobic, and non-motile. Phylogenetic analysis based on 16S rRNA gene sequences revealed that both strains were most closely related to Bacteroides uniformis ATCC 849...
Article
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Tartary buckwheat (Fagopyrum tataricum L. Gaertn., TB) is an ancient minor crop and an important food source for humans to supplement nutrients such as flavonoids and essential amino acids. Amino acid transporters (AATs) play critical roles in plant growth and development through the transport of amino acids. In this study, 104 AATs were identified...
Article
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Patients with preoperative stress are prone to postoperative emotional deficits. However, the underlying mechanisms are largely unknown. Here, we characterize the changes of microbial composition and specific metabolites after anesthesia/surgery in rats with preoperative stress based on 16S rRNA gene sequencing and non-targeted metabolomics techniq...
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The growing need for probiotics has emerged due to the imbalances in the gut microbiota. Changes in the microflora of the gut lead to various disorders. Hence, the consumption of probiotics is imperative and rewarding. They provide various benefits when consumed, including antagonistic activities against pathogens by lowering pH to inhibit the grow...
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In the present study, the taxonomic position of Bacillus tepidiphilus was re-evaluated. Bacillus tepidiphilus (B. tepidiphilus) SYSU G01002T showed the highest 16S rRNA gene sequence similarity with the type strain Peribacillus alkalitolerans (P. alkalitolerans) (97.7%). In the phylogenetic (based on 16S rRNA sequence) and phylogenomic (based on 71...
Article
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Head blight or scab caused by Fusarium graminearum (FG), once ranked as a minor disease in wheat, is now emerging as one of the economically important diseases in India. The present study represents the first in-depth population genetic analysis of the FG from the northern wheat belt of India. In this study, multiple conserved gene sequences compri...
Article
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A new species, Euurobracon bhaskarai , Quicke sp. nov. , from West Java, Indonesia, is described, illustrated and differentiated from other members of the genus. It is closely related to the type species of the genus, E. yokahamae Dalla Torre, 1898, which is known from China, India, Japan, Laos, South Korea and Thailand. Euurobracon yokahamae is re...
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The polymorphisms in Insulin-like Growth Factor Binding Protein-3 (IGFBP-3) and Growth Hormone (GH) have an effect on mammalian growth control, development and reproduction activity. This investigation aimed to study the polymorphism in IGFBP-3 and GH genes, and detect their association with body weights and growth performance of several sheep bree...
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The catastrophic spread of COVID-19 pandemic, uncontrolled by modern medical science, regardless of whether it is artificial or not, clearly shows the limits of human mind and knowledge to resist this and other similar challenges. The purpose of this work is to show the danger of dual-use biotechnologies in the development of fundamentally new a...
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Background Colored barley, which may have associated human health benefits, is more desirable than the standard white variety, but the metabolites and molecular mechanisms underlying seedcoat coloration remain unclear. Results Here, the development of Tibetan hulless barley was monitored, and 18 biological samples at 3 seedcoat color developmental...
Article
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Large stocks of carbon and nitrogen stored in permafrost regions can potentially feed back to global biogeochemical cycles under climate warming. To understand the response of microbial communities to environmental changes, this study investigated the spatial distribution of bacterial communities in the upper layers (0-10, 10-20, and 20-30 cm) of s...
Article
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Vertebrates need suitable lipases to digest lipids for the requirement of energy and essential nutrients; however, the main digestive lipase genes of fishes have certain controversies. In this study, two types of digestive lipase genes (pancreatic lipase ( pl ) and bile salt-activated lipase ( bsal )) were identified in mammals and fishes. The neig...
Conference Paper
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Spanish ibex (Capra pyrenaica) is a wild goat at Europe mainly Spain region. According to IUCN Red List, this species has a conservation status of Least Concern. This study was carried out to observe the genetic diversity in the partial mitochondrial Cytochrome-b (Cyt-b) gene (342 bp) of Spanish ibex with a meta-analysis study. Total fifty (50) Cyt...
Article
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Alzheimer’s disease (AD) is the most common form of dementia worldwide. The biological mechanisms underlying the pathogenesis of AD aren’t completely clear. Studies have shown that the gut microbiota could be associated with AD pathogenesis; however, the pathways involved still need to be investigated. To explore the possible pathways of the involv...
Article
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The aim of this study was to characterize the mutational landscape of patients with FLT3 -mutated acute myeloid leukemia (AML) treated within the randomized CALGB 10603/RATIFY trial evaluating intensive chemotherapy plus the multi-kinase inhibitor midostaurin versus placebo. We performed sequencing of 262 genes in 475 patients: mutations occurring...
Article
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One bacterial species and five fungi were isolated from the mural paintings of the Egyptian tomb of Khety (Tomb No. 17, 11th Dyn.). The antimicrobial activity of lemon and thyme essential oils (EOs) diluted in ethanol 70% was evaluated against the bacterial isolate (related to the genus Alcaligenes and the species faecalis identified using 16 rRNA...
Article
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A novel Gram-stain negative, aerobic and ovoid to short rod shaped bacterium with a single polar flagellum, named strain B57T, was isolated from sediment of Clam Island, Liaoning Province, China. The optimal growth of this strain was found to occur at 37 °C, pH 6–6.5, and in the presence of 2% (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gen...
Article
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A novel Gram-staining negative, strictly aerobic, rod-shaped, and non-motile bacterium, designated strain 9Alg 56T, was isolated from the red alga Tichocarpus crinitus. The phylogenetic analysis based on 16S rRNA gene sequences placed the novel strain within the family Rhodobacteraceae, the order Rhodobacterales, the class Alphaproteobacteria, the...
Article
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Strain Az39T of Azospirillum is a diazotrophic plant growth-promoting bacterium isolated in 1982 from the roots of wheat plants growing in Marcos Juárez, Córdoba, Argentina. It produces indole-3-acetic acid in the presence of l-tryptophan as a precursor, grows at 20-38 °C (optimal 38 °C), and the cells are curved or spiral-shaped, with diameters ra...
Article
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Current coronavirus pandemic is unprecedented and the global response to a great extent, has demonstrated how unprepared we were, despite the past experiences of earlier 'flu' pandemics. Now we are in the third year of the pandemic, with the fifth COVID surge rising in many countries. The pandemic started, with the emergence of Alpha variant from W...
Article
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The quorum sensing (QS) system plays a significant role in the bacteria-bacteria or plant-bacteria relationships through signal molecules. However, little is known about the distribution and functional diversity of QS bacteria in the root environment of Suaeda glauca and Phragmites australis in coastal wetlands. We explored the bacterial community...
Article
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Genetic relationships between rabies virus (RABV) isolates recovered from dogs, jackals, and cattle in Georgia and their closest relatives were investigated by comparing their nucleoprotein (N) gene sequences. Multiple isolates from dogs and cattle were found to share identical N gene sequences, indicating a risk of dog-to-cattle rabies transmissio...
Article
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A novel Gram-negative, facultative anaerobic, rod-shaped, and non-motile bacterium with bio-degradation potential of polycyclic aromatic hydrocarbons (PAHs) and uranium bio-reduction, designated as RCRI7T, was isolated from Qurugöl Lake water near Tabriz city. Strain RCRI7T can grow in the absence of NaCl and tolerates up to 3% NaCl (optimum, 0-0.5...
Article
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A novel moderately halophilic, Gram-stain-negative, catalase- and oxidase-positive, strictly aerobic, non-sporulating, non-motile rod, designated strain JSM 104105 T, was isolated from human faeces. Strain JSM 104105 T was able to grow with 0.5–18% (w/v) NaCl (optimum 4–9%), at pH 6–10.5 (optimum pH 7–8) and at 10–40 °C (optimum 30 °C) in complex m...
Article
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Strains Marseille-Q5893 (= CSUR Q5893 = CECT 30496) and Marseille-Q5883 (= CSUR Q5883 = CECT 30497) were isolated from vaginal samples using the culturomics approach. The 16S rRNA gene sequences of each strain were sequenced and then compared by BLASTn to the NCBI database. Strains Marseille-Q5893 and Marseille-Q5883 were most closely related to An...