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bacterial 16s ribosomal rna gene targeted sequencing  (Zymo Research)


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    Structured Review

    Zymo Research bacterial 16s ribosomal rna gene targeted sequencing
    Bacterial 16s Ribosomal Rna Gene Targeted Sequencing, supplied by Zymo Research, used in various techniques. Bioz Stars score: 99/100, based on 1176 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/target+sequence/16S/pmc12800435-178-9-25
    Average 99 stars, based on 1176 article reviews
    bacterial 16s ribosomal rna gene targeted sequencing - by Bioz Stars, 2026-10
    99/100 stars

    Images

    Related Articles

    Next-Generation Sequencing:

    Article Title: Interactions between vaginal, periurethral and urinary microbiota in genitourinary syndrome of menopause and the effects of local estrogen therapy.
    Article Snippet: Objectives: Alterations to the vaginal microbiota have been investigated in genitourinary syndrome of menopause but data regarding periurethral and urinary microbiota remain limited.. We aimed to characterize vaginal, periurethral, and urinary microbiota in clinically stratified postmenopausal women and to evaluate the effects of

    Article Title: Characterization of Soil Microbial Communities Associated with the Sustainability of Acacia Species in the Imam Turki Bin Abdullah Royal Reserve, Saudi Arabia.
    Article Snippet: .. The samples libraries were built using Zymo Quick-16S Plus NGS Library Prep Kit (V4). .. Furthermore, amplicons were sequenced on an Illumina MiSeq platform to generate 2 × 300 bp paired-end reads.

    Article Title: Repeated Sevoflurane Exposure Acutely Does Not Disrupt the Gut Microbiome in Young Adult Female Rats
    Article Snippet: .. 16S Metagenomic Illumina library preparation and sequencing GAL, KHAN, & MARTYNYUK University of Florida | Journal of Undergraduate Research | Volume 28 | 2026 Library preparation was done using the One Step PCR and Normalization-Free Quick 16S Plus NGS Library Prep Kit (V3-V4, UDI) (Zymo Research, Irvine, CA, USA). .. 25 ng of DNA was added to amplify the V3-V4 region with the exact primers 341f (CCTACGGGDGGCWGCAG) and 806r (GACTACNVGGGTMTCTAATCC), from the Zymo prep kit for library preparation.

    Article Title: Exploring medical food supplementation as an adjunct strategy for microbiota restoration and seizure reduction in CDKL5 deficiency disorder.
    Article Snippet: Microbial DNA was extracted from fecal samples using a Maxwell RSC Fecal Microbiome DNA Kit and the Maxwell instrument from Promega, following the manufacturer's instructions. .. Amplicon libraries were generated targeting the V3–V4 hypervariable regions of the bacterial 16S rRNA gene using the Quick- 16S NGS Library Prep Kit (Zymo Research), according to the manufacturer's protocol. .. Sequencing was performed on an Illumina MiSeq platform.

    Article Title: Lead Dynamics in Saline Aquaponics: Tissue Accumulation in Litopenaeus vannamei and Sesuvium portulacastrum and Root-Associated Bacterial Communities.
    Article Snippet: .. The V3–V4 region of the 16S rRNA gene was amplified with primers 341F/805R; libraries were prepared with the Quick-16S NGS Library Prep Kit (Zymo Research) and sequenced on an Illumina MiSeq platform (2 × 300 bp). ..

    Sequencing:

    Article Title: Repeated Sevoflurane Exposure Acutely Does Not Disrupt the Gut Microbiome in Young Adult Female Rats
    Article Snippet: .. 16S Metagenomic Illumina library preparation and sequencing GAL, KHAN, & MARTYNYUK University of Florida | Journal of Undergraduate Research | Volume 28 | 2026 Library preparation was done using the One Step PCR and Normalization-Free Quick 16S Plus NGS Library Prep Kit (V3-V4, UDI) (Zymo Research, Irvine, CA, USA). .. 25 ng of DNA was added to amplify the V3-V4 region with the exact primers 341f (CCTACGGGDGGCWGCAG) and 806r (GACTACNVGGGTMTCTAATCC), from the Zymo prep kit for library preparation.

    Article Title: Sugar-rich foods exacerbate antibiotic-induced microbiome disruption.
    Article Snippet: .. This study also used the following public resources: the USDA Food and Nutrient Database for Dietary Studies (FNDDS) 2015–2016 (https://www.ars.usda.gov/ northeast-area/beltsville-md-bhnrc/beltsville-human-nutrition-research-center/food-surveys-research-group/docs/fndds-download-databases/); the USDA Food Patterns Equivalents Database (FPED) 2015–2016; the NCBI 16S ribosomal RNA database of Bacteria and Archaea type strains (RefSeq Targeted Loci, BioProjects PRJNA33175 and PRJNA33317; at https://ftp.ncbi.nlm.nih.gov/blast/db/), downloaded in 2020 and used to assign taxonomy to the human amplicon sequence variants with blastn (BLAST+ v2.11.0); and the Zymo Research Database to assign taxonomy to the mouse 16S data with Uclust in QIIME v1.9.1; MetaPhlAn v4.0.5 with database mpa_vJan21_CHOCOPhlAnSGB_202103; the GENCODE mouse basic gene annotation release vM37 (GRCm39; https://www.gencodegenes.org/ mouse/release_M37.html), used for gene-level quantification of the mouse RNA sequencing; and the MSigDB Hallmark gene set collection (v2025.1.Mm, 50 gene sets), accessed through the msigdbr R package v25.1.1. ..

    Polymerase Chain Reaction:

    Article Title: Repeated Sevoflurane Exposure Acutely Does Not Disrupt the Gut Microbiome in Young Adult Female Rats
    Article Snippet: .. 16S Metagenomic Illumina library preparation and sequencing GAL, KHAN, & MARTYNYUK University of Florida | Journal of Undergraduate Research | Volume 28 | 2026 Library preparation was done using the One Step PCR and Normalization-Free Quick 16S Plus NGS Library Prep Kit (V3-V4, UDI) (Zymo Research, Irvine, CA, USA). .. 25 ng of DNA was added to amplify the V3-V4 region with the exact primers 341f (CCTACGGGDGGCWGCAG) and 806r (GACTACNVGGGTMTCTAATCC), from the Zymo prep kit for library preparation.

    Amplification:

    Article Title: Exploring medical food supplementation as an adjunct strategy for microbiota restoration and seizure reduction in CDKL5 deficiency disorder.
    Article Snippet: Microbial DNA was extracted from fecal samples using a Maxwell RSC Fecal Microbiome DNA Kit and the Maxwell instrument from Promega, following the manufacturer's instructions. .. Amplicon libraries were generated targeting the V3–V4 hypervariable regions of the bacterial 16S rRNA gene using the Quick- 16S NGS Library Prep Kit (Zymo Research), according to the manufacturer's protocol. .. Sequencing was performed on an Illumina MiSeq platform.

    Article Title: Lead Dynamics in Saline Aquaponics: Tissue Accumulation in Litopenaeus vannamei and Sesuvium portulacastrum and Root-Associated Bacterial Communities.
    Article Snippet: .. The V3–V4 region of the 16S rRNA gene was amplified with primers 341F/805R; libraries were prepared with the Quick-16S NGS Library Prep Kit (Zymo Research) and sequenced on an Illumina MiSeq platform (2 × 300 bp). ..

    Article Title: Sugar-rich foods exacerbate antibiotic-induced microbiome disruption.
    Article Snippet: .. This study also used the following public resources: the USDA Food and Nutrient Database for Dietary Studies (FNDDS) 2015–2016 (https://www.ars.usda.gov/ northeast-area/beltsville-md-bhnrc/beltsville-human-nutrition-research-center/food-surveys-research-group/docs/fndds-download-databases/); the USDA Food Patterns Equivalents Database (FPED) 2015–2016; the NCBI 16S ribosomal RNA database of Bacteria and Archaea type strains (RefSeq Targeted Loci, BioProjects PRJNA33175 and PRJNA33317; at https://ftp.ncbi.nlm.nih.gov/blast/db/), downloaded in 2020 and used to assign taxonomy to the human amplicon sequence variants with blastn (BLAST+ v2.11.0); and the Zymo Research Database to assign taxonomy to the mouse 16S data with Uclust in QIIME v1.9.1; MetaPhlAn v4.0.5 with database mpa_vJan21_CHOCOPhlAnSGB_202103; the GENCODE mouse basic gene annotation release vM37 (GRCm39; https://www.gencodegenes.org/ mouse/release_M37.html), used for gene-level quantification of the mouse RNA sequencing; and the MSigDB Hallmark gene set collection (v2025.1.Mm, 50 gene sets), accessed through the msigdbr R package v25.1.1. ..

    Generated:

    Article Title: Exploring medical food supplementation as an adjunct strategy for microbiota restoration and seizure reduction in CDKL5 deficiency disorder.
    Article Snippet: Microbial DNA was extracted from fecal samples using a Maxwell RSC Fecal Microbiome DNA Kit and the Maxwell instrument from Promega, following the manufacturer's instructions. .. Amplicon libraries were generated targeting the V3–V4 hypervariable regions of the bacterial 16S rRNA gene using the Quick- 16S NGS Library Prep Kit (Zymo Research), according to the manufacturer's protocol. .. Sequencing was performed on an Illumina MiSeq platform.

    Food & Beverages:

    Article Title: Sugar-rich foods exacerbate antibiotic-induced microbiome disruption.
    Article Snippet: .. This study also used the following public resources: the USDA Food and Nutrient Database for Dietary Studies (FNDDS) 2015–2016 (https://www.ars.usda.gov/ northeast-area/beltsville-md-bhnrc/beltsville-human-nutrition-research-center/food-surveys-research-group/docs/fndds-download-databases/); the USDA Food Patterns Equivalents Database (FPED) 2015–2016; the NCBI 16S ribosomal RNA database of Bacteria and Archaea type strains (RefSeq Targeted Loci, BioProjects PRJNA33175 and PRJNA33317; at https://ftp.ncbi.nlm.nih.gov/blast/db/), downloaded in 2020 and used to assign taxonomy to the human amplicon sequence variants with blastn (BLAST+ v2.11.0); and the Zymo Research Database to assign taxonomy to the mouse 16S data with Uclust in QIIME v1.9.1; MetaPhlAn v4.0.5 with database mpa_vJan21_CHOCOPhlAnSGB_202103; the GENCODE mouse basic gene annotation release vM37 (GRCm39; https://www.gencodegenes.org/ mouse/release_M37.html), used for gene-level quantification of the mouse RNA sequencing; and the MSigDB Hallmark gene set collection (v2025.1.Mm, 50 gene sets), accessed through the msigdbr R package v25.1.1. ..

    Bacteria:

    Article Title: Sugar-rich foods exacerbate antibiotic-induced microbiome disruption.
    Article Snippet: .. This study also used the following public resources: the USDA Food and Nutrient Database for Dietary Studies (FNDDS) 2015–2016 (https://www.ars.usda.gov/ northeast-area/beltsville-md-bhnrc/beltsville-human-nutrition-research-center/food-surveys-research-group/docs/fndds-download-databases/); the USDA Food Patterns Equivalents Database (FPED) 2015–2016; the NCBI 16S ribosomal RNA database of Bacteria and Archaea type strains (RefSeq Targeted Loci, BioProjects PRJNA33175 and PRJNA33317; at https://ftp.ncbi.nlm.nih.gov/blast/db/), downloaded in 2020 and used to assign taxonomy to the human amplicon sequence variants with blastn (BLAST+ v2.11.0); and the Zymo Research Database to assign taxonomy to the mouse 16S data with Uclust in QIIME v1.9.1; MetaPhlAn v4.0.5 with database mpa_vJan21_CHOCOPhlAnSGB_202103; the GENCODE mouse basic gene annotation release vM37 (GRCm39; https://www.gencodegenes.org/ mouse/release_M37.html), used for gene-level quantification of the mouse RNA sequencing; and the MSigDB Hallmark gene set collection (v2025.1.Mm, 50 gene sets), accessed through the msigdbr R package v25.1.1. ..

    RNA Sequencing:

    Article Title: Sugar-rich foods exacerbate antibiotic-induced microbiome disruption.
    Article Snippet: .. This study also used the following public resources: the USDA Food and Nutrient Database for Dietary Studies (FNDDS) 2015–2016 (https://www.ars.usda.gov/ northeast-area/beltsville-md-bhnrc/beltsville-human-nutrition-research-center/food-surveys-research-group/docs/fndds-download-databases/); the USDA Food Patterns Equivalents Database (FPED) 2015–2016; the NCBI 16S ribosomal RNA database of Bacteria and Archaea type strains (RefSeq Targeted Loci, BioProjects PRJNA33175 and PRJNA33317; at https://ftp.ncbi.nlm.nih.gov/blast/db/), downloaded in 2020 and used to assign taxonomy to the human amplicon sequence variants with blastn (BLAST+ v2.11.0); and the Zymo Research Database to assign taxonomy to the mouse 16S data with Uclust in QIIME v1.9.1; MetaPhlAn v4.0.5 with database mpa_vJan21_CHOCOPhlAnSGB_202103; the GENCODE mouse basic gene annotation release vM37 (GRCm39; https://www.gencodegenes.org/ mouse/release_M37.html), used for gene-level quantification of the mouse RNA sequencing; and the MSigDB Hallmark gene set collection (v2025.1.Mm, 50 gene sets), accessed through the msigdbr R package v25.1.1. ..



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    Image Search Results


    Input and Output of each stage

    Journal: Current Protocols

    Article Title: A Guide to Enzymatic Targeted Methylation Sequencing Bioinformatics Workflow: Best Practices

    doi: 10.1002/cpz1.70464

    Figure Lengend Snippet: Input and Output of each stage

    Article Snippet: Targeted methylation profiling was performed using the NEBNext EM‐seq Kit combined with the Twist Targeted Methylation Sequencing platform (Twist Bioscience, USA), following the manufacturer's instructions (New England Biolabs, ; “Twist Targeted Methylation Sequencing Protocol | Twist Bioscience,” accessed July 30, 2025).

    Techniques: Sequencing, Methylation, Analysis, Control, Tiling

    Estimated duration of the complete analysis

    Journal: Current Protocols

    Article Title: A Guide to Enzymatic Targeted Methylation Sequencing Bioinformatics Workflow: Best Practices

    doi: 10.1002/cpz1.70464

    Figure Lengend Snippet: Estimated duration of the complete analysis

    Article Snippet: Targeted methylation profiling was performed using the NEBNext EM‐seq Kit combined with the Twist Targeted Methylation Sequencing platform (Twist Bioscience, USA), following the manufacturer's instructions (New England Biolabs, ; “Twist Targeted Methylation Sequencing Protocol | Twist Bioscience,” accessed July 30, 2025).

    Techniques: Analysis, QC/EQA/Proficiency, Sequencing, Methylation, Tiling

    Cherp serving an effective treatment target for IS (A) The neuron counts of cluster 3 and 5. (B) The Cherp expression in each cluster. (C) The WB image of Cherp expression after OGD/R process. (D) The IF images of Cherp expression after OGD/R process. Scale bars = 100 μm. (E) The efficiency validation of Cherp knocking down using shRNA. (F) The cell viability assay after Cherp knocking down. (G) LDH leakage assay after Cherp knocking down. (H) TUNEL assay after Cherp knocking down. Scale bars = 100 μm. (I) WB image of apoptosis-related markers after Cherp knocking down. (J) Morphology of cerebral edema in sham, MCAO and MCAO-shRNA intervention groups at 72 h post-surgery. (K) TTC staining of cerebral infarction in sham, MCAO and MCAO-shRNA intervention groups at 72 h post-surgery (Dashed area represents the infarcted brain region). (L) Statistics analysis of brain water content ( n = 5 mice/group). (M) Quantification of infarct area ( n = 5 mice/group). (N) The functional enrichment of Cherp high cells related pathways. (O) The intracellular calcium imaging after Cherp knocking down. Scale bars = 100 μm (P) Quantitative analysis of intracellular Ca 2+ fluorescence intensity in primary neurons under indicated conditions ( n = 3 independent experiments). Data are presented as mean ± SD. ∗ p < 0.05, ∗∗ p < 0.01, ∗∗∗ p < 0.001 and ∗∗∗∗ p < 0.0001 as determined by Student’s t test.

    Journal: iScience

    Article Title: Decoding neuron-specific lineage to identify diagnostic biomarkers and therapeutic targets for ischemic stroke

    doi: 10.1016/j.isci.2026.116257

    Figure Lengend Snippet: Cherp serving an effective treatment target for IS (A) The neuron counts of cluster 3 and 5. (B) The Cherp expression in each cluster. (C) The WB image of Cherp expression after OGD/R process. (D) The IF images of Cherp expression after OGD/R process. Scale bars = 100 μm. (E) The efficiency validation of Cherp knocking down using shRNA. (F) The cell viability assay after Cherp knocking down. (G) LDH leakage assay after Cherp knocking down. (H) TUNEL assay after Cherp knocking down. Scale bars = 100 μm. (I) WB image of apoptosis-related markers after Cherp knocking down. (J) Morphology of cerebral edema in sham, MCAO and MCAO-shRNA intervention groups at 72 h post-surgery. (K) TTC staining of cerebral infarction in sham, MCAO and MCAO-shRNA intervention groups at 72 h post-surgery (Dashed area represents the infarcted brain region). (L) Statistics analysis of brain water content ( n = 5 mice/group). (M) Quantification of infarct area ( n = 5 mice/group). (N) The functional enrichment of Cherp high cells related pathways. (O) The intracellular calcium imaging after Cherp knocking down. Scale bars = 100 μm (P) Quantitative analysis of intracellular Ca 2+ fluorescence intensity in primary neurons under indicated conditions ( n = 3 independent experiments). Data are presented as mean ± SD. ∗ p < 0.05, ∗∗ p < 0.01, ∗∗∗ p < 0.001 and ∗∗∗∗ p < 0.0001 as determined by Student’s t test.

    Article Snippet: The shRNA sequences targeting Cherp were generated at Sangon Biotech.

    Techniques: Expressing, Biomarker Discovery, shRNA, Viability Assay, TUNEL Assay, Staining, Functional Assay, Imaging, Fluorescence