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16S rRNA - DOAJ

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Last Updated: 10 June 2022

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RNA-Seq and 16S rRNA Analysis Revealed the Effect of Deltamethrin on Channel Catfish in the Early Stage of Acute Exposure

"However, the toxicological effects of Del on channel catfish remain uncertain. " In the early stages, pathological tests revealed that a high percentage of Del destroyed the intestinal and trunk kidney of channel catfish. These findings showed that apoptosis occurs in channel catfish's trunk kidneys during the early stages of acute exposure to Del. In addition, 16S RNA gene sequencing revealed that the intestinal microbiome in channel catfish treated with Del. We clarified the harmful effects of Del on channel catfish in the early stages of exposure, as well as discovering why fish under Del stress are more susceptible to bacterial infections and slow growth. ".

Source link: https://doi.org/10.3389/fimmu.2022.916100


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

"Starting feeding can help stimulate rumen growth and development in ruminants, but rumen formation is an important physiological challenge, since the mechanism of starter feeding remains unclear. " In this research, we performed an investigation of ruminal microbiota and their metabolites in yak calves to see how the ruminal microbiota and their metabolites promote the ruminal function. This research used 16S rRNA sequencing with liquid chromatography-mass spectrometry-based metabolomics to determine the effects of starter feeding on yak calves' ruminal microbiota diversity and metabolites. We developed the experiment using 20 yak calves that were divided into two groups based on feeding milk substituter; the control group was fed with alfa hay and starter while the treatment group was fed with alfalfa hay and starter; the treatment group was fed with alfalfa hay and starter. The RAS group notably promoted the growth success and ruminal development of yak calves during the preweaning period, including increases in body weight, chest girth, and rumen formation. A total of 37 metabolites were found between the RA group and the RAS group, of which 15 metabolites were restricted and 22 metabolites were downregulated relative to the RA group. According to metabolic pathway studies, upregulated the metabolites of the RAS group yak calves were linked to carbohydrate metabolism, ubiquinone, and other terpenoid-quinone biosynthesis, but a downregulated metabolic pathway was essential to xenobiotic biodegradation, metabolism, and nucleotide metabolism, according to metabolic pathway evaluations.

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


Development of novel heminested PCR assays based on mitochondrial 16s rRNA gene for identification of seven pecora species

"This paper details a series of seven new heminested PCR assays using specific primers developed based on species-specific polymorphism at the mitochondrial 16S rRNA gene for identification of Blackbuck, Goral, Nilgai, Hog deer, Chital, Sambar, and Thamin deer. " Results The mitochondrial 16S rRNA gene is the product of two amplifications of the mitochondrial 16S RNA gene, which were confirmed by the intended heminested PCR assays. PCR amplified a species-specific internal region of the 16S rRNA gene in the second stage of the first PCR along with one universal primer and another species-specific primer as the reverse or forward primer. The seven species' developed heminested PCR assays are extremely specific, reliable, and reproducible, and provide a reproducible method for measuring low copy number DNA obtained from decomposed or highly processed tissues," the validation results show.

Source link: https://doi.org/10.1186/1471-2156-6-42


Exploring the roles of and interactions among microbes in dry co-digestion of food waste and pig manure using high-throughput 16S rRNA gene amplicon sequencing

"Anaerobic digestion is one of the best available techniques for food waste and pig manure removal by generating methane-rich biogas. " Food waste and pig manure co-digestion can significantly reduce the reactor volume, capital loss, heating energy consumption, and digestate liquid management. This research sought to determine the effects of various inocula and substrate compositions on food waste and pig manure dry co-digestion systems, as well as the potential roles of the previously poorly described bacteria and their interactions with dry co-digestion-associated microbes. The inoculum factor was more influential in determining the microbial community structure than the substrate composition factor, according to it. In dry co-digestion systems, the inoculum played a more important role in determining the microbial community's structure than substrate composition. ".

Source link: https://doi.org/10.1186/s13068-018-1344-0


Role of aminoglycoside-modifying enzymes and 16S rRNA methylase (ArmA) in resistance of Acinetobacter baumannii clinical isolates against aminoglycosides

"Abstract INTRODUCTION: This research was conducted to determine the presence of genes encoding aminoglycoside-modifying enzymes and 16S rRNA methylase in Acinetobacter baumannii clinical isolates. METHHODS: We obtained 100 clinical isolates of A. baumannii and identified and confirmed them using microbiological tests and analysis of the OXA-51 gene. Results: Netilmicin and ciprofloxacin had the most and least effective antibiotics in this analysis, with 68% and 100% resistance rates, respectively. Among the 22 gene profiles identified in this research, the most common profiles included APH-VIA + ANT-Ia, and AAC-IIa + APH-Ia + APH-Ia. CONCLUSIONS: IMPACTION RESULTS: Proteins with a high minimum inhibitory concentration in isolates with the simultaneous presence of AME- and ArmA-coding genes indicated the importance of these genes in resistance to aminoglycosides. However, control of their transmission could be more effective in the treatment of A. T. infections. "The baumannii" is a baumannii.

Source link: https://doi.org/10.1590/0037-8682-0599-2020


Biochemical identification and molecular characterization of Klebsiella pneumoniae isolated from street foods and drinks in Yogyakarta, Indonesia using 16S rRNA gene

Klebsiella pneumoniae isolated from street foods and drinks in Yogyakarta, Indonesia, is identified by molecular characterization by the 16S rRNA gene. Yogyakarta is Indonesia's most popular student city. Sadly, the majority of street vendors do not pay attention to food hygiene. Using the 16S RNA gene, this research seeks to identify the biochemical and molecular isolates of Klebsiella pneumoniae isolated from street foods and drinks in Yogyakarta. 120 samples of street foods and drinks sold at schools and other public venues were collected. The samples were enumerated in CCA medium to isolate contaminated Klebsiella spp. The results of biochemical analysis revealed 11 isolates confirmed as K. pneumoniae and one isolate as K. oxytoca. Only 10 isolates were identified as K. pneumoniae among infected patients' respiratory and urinary tract, according to the phylogenetic analysis, according to the phylogenetic analysis. In addition, 2 isolates were identified as Citrobacter sp. ".

Source link: https://doi.org/10.13057/biodiv/d221228


Molecular analysis of pathogenic Escherichia coli isolated from cow meat in Yogyakarta, Indonesia using 16S rRNA gene

"Molecular investigation of pathogenic Escherichia coli isolated from cow meat in Yogyakarta, Indonesia, using the 16S rRNA gene. " Pathogenic Escherichia coli is one of the foodborne disease agents that cause diarrhea. It is critical to be able to detect pathogenic E. coli isolated from cow meat. Using Polymerase Chain Reaction, this research aims to determine nucleotide sequence of pathogenic E. coli isolated from cow meat in Yogyakarta, Indonesia. These fifteen isolates have been screened for eae target gene, and then amplification of the 16S rRNA gene was carried out using primers 27F and 1492R. To determine the connection to reference strains available at the GenBank, a Phylogenetic tree reconstruction was done on the fifteen isolates of pathogenic E. coli. These fifteen isolates have small genetic distance to the reference strains, and they are also in the same clade with reference strains, and the fifteen isolates have little genetic distance to the reference strains.

Source link: https://doi.org/10.13057/biodiv/d221050


Wolbachia 16S rRNA haplotypes detected in wild Anopheles stephensi in eastern Ethiopia

"Anopheles stephensi, an invasive mosquito commonly found in South Asia and the Middle East, was recently discovered in eastern and central Ethiopia and capable of transmitting both P. falciparum and P. vivax. In order to reduce malaria transmission, the discovery of this vector in the Horn of Africa and widespread insecticide resistance has led to the development of new vector control strategies. Wolbachia can be used to limit the mosquito population by depletion or indefinitely reduce malaria transmission by population replacement. Stephensi gathered from eastern Ethiopia in 2018 and tested for Wolbachia with a 16S targeted PCR assay, as well as multilocus strain typing PCR assays. The Ethiopian haplotype 2 is distinguished from other sequences in the subclade by a bootstrap value of 89. "These results are the first signs of wild Wolbachia populations in wild An" in wild An. ".

Source link: https://doi.org/10.1186/s13071-022-05293-9


Predictive Microbial Community and Functional Gene Expression Profiles in Pineapple Peel Fermentation Using 16S rRNA Gene Sequences

"Pineapple peel is a by-product that can be used as a raw material for functional beverages and has the ability to be used as a by-product. " Traditional PP fermentation has so far paid no attention to the microbial community and its role in the fermentation process. As a result, the latest study looked at the microbial populations and their roles during PP fermentation. It was clear that microenvironmental conditions had an influence on the microbial composition of PP fermentation. Moreover, functional analysis showed that carbohydrate metabolism was the most common metabolic pathway during the fermentation process. ".

Source link: https://doi.org/10.3390/fermentation8050194


16S rRNA gene identification and phylogenetic analysis of dhofar toad (Bufo dhufarensis) from riyadh province, saudi arabia

"By analyzing genetic variation within evolutionary lineages using sequence analysis, we were able to determine the degree of genetic variation of the Dhofar toad. " Using suitable primers, we obtained 27 samples from Bufo dhufarensis and analyzed the samples for DNA extraction and PCR. For the first time, the 16S ribosomal RNA gene sequences in toads from Riyadh Province were determined for the first time and submitted in a public gene repository. based on the 16S rRNA gene, this is the first analysis of Bufo dhufarensis in Riyadh Province's genetic diversity.

Source link: https://doi.org/10.1016/j.jksus.2022.101972

* 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