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Genome sequencing

Tìm thấy 20+ kết quả cho từ khóa "Genome sequencing"

Population analysis of the Korean native duck using whole-genome sequencing data

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Although some recent stud- ies have investigated the unique characteristics of the Korean native duck [17–20], whole genome-level studies for the Korean native duck still lag behind other domes- tic animals and duck breeds.. To address this, we apply a population-level genome ana- lysis based on whole-genome sequencing data from popula- tions of various duck breeds including KD.

Adaptation of Oxford Nanopore technology for hepatitis C whole genome sequencing and identification of within-host viral variants

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Adaptation of Oxford Nanopore technology for hepatitis C whole genome sequencing and identification of within-host viral. High throughput characterization of full genome, within-host variants is still not possible despite advances in next generation sequencing. This limitation constrains viral genomic studies that depend on accurate identification of hemi-genome or whole genome, within-host variants, especially those occurring at low frequencies.

Whole-genome sequencing of wild Siberian musk deer (Moschus moschiferus) provides insights into its genetic features

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However, the whole-genome sequencing of Siberian musk deer has not been performed, and their potential value has yet to be discovered.. In this study, we perform high-quality whole-genome sequencing of three wild Siberian musk deer (WSMD) from Mongolia, and transcriptome sequencing of one mixture of tissue from a naturally died female WSMD..

Whole genome sequencing of Mycobacterium tuberculosis isolates and clinical outcomes of patients treated for multidrug-resistant tuberculosis in Tanzania

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Whole genome sequencing of Mycobacterium tuberculosis for detection of drug resistance: a systematic review. Removing the bottleneck in whole genome sequencing of mycobacterium tuberculosis for rapid drug resistance analysis: a call to action. Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti- tuberculosis drug resistance. Whole genome sequencing to complement tuberculosis drug resistance surveys in Uganda.

Whole genome sequencing of Nontuberculous Mycobacterium (NTM) isolates from sputum specimens of cohabiting patients with NTM pulmonary disease and NTM isolates from their environment

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Whole genome sequencing of. Nontuberculous Mycobacterium (NTM) isolates from sputum specimens of co- habiting patients with NTM pulmonary disease and NTM isolates from their environment. However, recent studies using next-generation sequencing (NGS) have reported trans- continental spread of Mycobacterium abscessus among patients with cystic fibrosis..

PacBio genome sequencing reveals new insights into the genomic organisation of the multi-copy ToxB gene of the wheat fungal pathogen Pyrenophora tritici-repentis

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To date a number of Ptr whole genome sequencing projects involving race 5 isolates (ToxB-producing) have not been able to determine if the ToxB loci are clustered or dispersed [12, 13] in the genome. We therefore undertook genome sequencing via PacBio long read technology to resolve the number, organization and dis- tribution of ToxB loci within the genome of a race 5 iso- late (DW5).

QuantTB – a method to classify mixed Mycobacterium tuberculosis infections within whole genome sequencing data

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In contrast, whole genome sequencing offers sensitive views of the genetic differences between strains of M.. Full list of author information is available at the end of the article. one of the oldest diseases in the world - continues to devastate the lives of millions per year. Finally, spoligo- typing analyzes a series of 43 spacer oligonucleotides in the directed repeat region [12].

Microevolution within ST11 group Clostridioides difficile isolates through mobile genetic elements based on complete genome sequencing

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Full list of author information is available at the end of the article Wu et al. based on complete whole genome sequencing to provide a better understanding of the microevolution within the ST11 group of C. Genomic features of the three C. difficile isolates. The three isolates 10,010 (new RT), 12,038 (new RT), and 21,062 (RT 078) used in this study have same MLST type (ST11) and toxin gene profile ( tcdA + tcdB + cdtA/B. The genome sizes of the three C.

Multi-trait GWAS using imputed highdensity genotypes from whole-genome sequencing identifies genes associated with body traits in Nile tilapia

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Multi-trait GWAS using imputed high- density genotypes from whole-genome sequencing identifies genes associated with body traits in Nile tilapia. Some of the lead single nucleotide polymorphisms (SNPs) were found within important functional candidate genes previously associated with growth-related traits in other terrestrial species.

Genome sequencing of Mycobacterium pinnipedii strains: Genetic characterization and evidence of superinfection in a South American sea lion (Otaria flavescens)

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Unfortunately, gen- ome sequencing of the isolates was not undertaken at the time, precluding opportunities to better explore the gen- etic makeup of these bacteria, including the possibility of intra-host bacterial clonal variants (i.e. pinnipedii strains described by Bos et al. Therefore, the objectives of the present study were to sequence and compare two M. The genome sequencing and assembly of the two M..

Whole genome sequencing and comparative genomic analysis of oleaginous red yeast Sporobolomyces pararoseus NGR identifies candidate genes for biotechnological potential and ballistospores-shooting

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Genome sequencing of the strain NGR was performed utilizing the Illumina HiSeq 2500 platform (Illumina, USA). After sequencing, quality control of the raw reads was performed, which involved trimming the reads using Trimmomatic (version by remov- ing the Nextera adapter and linker sequences (for the mate-pair libraries) and TruSeq adapters (for the pair- end libraries).

Complete nontuberculous mycobacteria whole genomes using an optimized DNA extraction protocol for long-read sequencing

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Mycobacterial DNA extraction for whole-genome sequencing from early positive liquid (MGIT) cultures. Ultra-long read sequencing protocol for RAD004, on protocols.Io.. Assembly of the mycobacterial Cell Wall. scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation. visualizing and processing long-read sequencing data

Whole genome sequencing of Borrelia miyamotoi isolate Izh-4: Reference for a complex bacterial genome

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Results: We used multiple available sequencing methods, including Pacific Bioscience single-molecule real-time technology (SMRT) and Oxford Nanopore technology (ONT) supplemented with highly accurate Illumina sequences, to explore the suitability for whole genome assembly of the Russian B.

Assessing genomic diversity and signatures of selection in Jiaxian Red cattle using whole-genome sequencing data

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Whole-genome

Whole-genome analysis of probiotic product isolates reveals the presence of genes related to antimicrobial resistance, virulence factors, and toxic metabolites, posing potential health risks

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According to the cell morphology and 16S rDNA sequence, the differ- ent candidate isolates were ready for whole genome sequencing.. Whole-genome sequencing. Whole-genome sequencing was performed on both the Illumina HiSeq Xten platform (Illumina, California, USA) at GeneSeeq Co., Ltd. The ANI of each assembly against the genome of the reference strain was calculated using Fas- tANI. tygs.dsmz.de) [39] and Ribosomal Multilocus Sequence Typing (rMLST, https://pubmlst.org/bigsdb?

Identification and population genetic analyses of copy number variations in six domestic goat breeds and Bezoar ibexes using next-generation sequencing

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CNVs distribute ubiquitously in the goat genome. (ARS1), the second runs of whole-genome sequencing data of the nine goats showed coverage depth of 25×. These CNVRs covered 266.71 Mb (10.80%) of the goat. 1 Genome-wide characteristics of CNVs in the goat genome. a A distribution histogram of the CNV length. The total number and length of the CNVRs identified in each population were provided in Add- itional file 5..

Organelle genome composition and candidate gene identification for Nsa cytoplasmic male sterility in Brassica napus

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With the development of genome sequencing technology, organelle genomes of Nsa CMS line and its maintainer line were sequenced by pyro-sequencing technology, and comparative analysis of the organelle genomes was carried out to characterize the organelle genome composition of Nsa CMS as well as to identify the candidate Nsa CMS-associated genes..

Characterization of genome-wide variations induced by gamma-ray radiation in barley using RNA-Seq

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In contrast, whole-transcriptome analysis with total RNA sequencing (RNA-Seq) reveal all coding genes and also multiple forms of noncoding RNAs, offering a cost-effective alter- native to the whole-genome sequencing for investigating genetic variants in coding regions, in which mutations are likely to lead to the change of phenotype..

Population structure, genetic diversity, and selective signature of Chaka sheep revealed by whole genome sequencing

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We randomly selected CKA sheep (n = 10) for the study from 305 individuals scattered on the prairie [26].. spectrophotometry (IMPLEN, CA, USA), and the Qubit®. 15 Avgqual:20 Minlen:35 Tophred:33) was used to trim the sequencing reads, and FASTQC was used to assess the quality of the raw sequencing data. The average sequencing depth was obtained for the 10 CKA sheep was 7.68×.

The complete chloroplast genome of greater duckweed (Spirodela polyrhiza 7498) using PacBio long reads: Insights into the chloroplast evolution and transcription regulation

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The chloroplast genome sequencing has become routine and less expensive with the delivery of high-throughput sequencing technologies, allowing us to deeply investigate genomics and transcriptomics of duckweed organelles.. Results: Here, the complete chloroplast genome of Spirodela polyrhiza 7498 (SpV2) is assembled by PacBio sequencing.