Introduction to Whole Genomic

Whole genomic sequencing was conducted to reveal the potential ecological roles of strain YPW1 for the environment.

Differential gene expression analysis at the whole genomic level identified a set of 92 protein-coding and 16 RNA-coding genes which exhibited differential expression in men and women (fold of change cutoff at 1.

Subsequent whole genomic sequencing analysis (WGS) did not reveal a consensus resistance locus, although many have point mutations in genes encoding redox-relevant proteins such as superoxide dismutase (TgSOD2) and ribonucleotide reductase.

We have analyzed the effects of whole genomic open reading frames (ORFs) of ASFV China 2018/1 on the activation of cGAS-STING pathway, and found that p17 was able to inhibit cGAS-STING mediated type I IFN production by targeting STING, altering its capacity to recruit both TBK1 and IKKε.

The development of a potential vaccine was initiated as soon as the whole genomic sequence of the coronavirus was publicly available and it has progressed at a frenetic pace.

696 × 10-3 per site per year based on whole genomic sequences, with subgroup IIb isolates having evolved faster than those of subgroup IIa.

Via whole genomic resequencing analysis of two artificially selective breeds (Haiyifeng12 and Zhongkehong) and a hatchery reference population (Jiaonan), we acquired a total of 3,885,213 high quality SNPs and 22,312 SSRs.

The second scheme followed the canonical MIRU-VNTR path coupled with a whole genomic amplification step, by which a second unsuspected overlapping cluster (C2) was detected in the same prison.

In this investigation, we document that SOX4 is a key regulator of human endometrial stromal cells (hESCs) decidualization by directly regulating PRL and FOXO1 expression as revealed by whole genomic binding of SOX4 assay and RNA-Seq.

8 mol% for the genus, based on the whole genomic sequences.

In this study, we aimed to investigate the presence of horizontally acquired antibiotic resistance genes among chicken gut microbiota members in 259 isolates with known whole genomic sequences.

Whole genomic sequences from sewage-associated staphylococcus isolates (20 S.

We further used multi-omics analyses that complementarily integrate whole genomic, transcriptomic, proteomic, and metabolic insights to identify enzyme-coding genes responsible for PVC degradation and proposed a putative biodegradation pathway by the bacterial strain.

Full-length balancer chromosomes would be particularly useful because of the capacity to maintain whole genomic traits.

Multiplex real-time PCR is a common method for confirming SARS-CoV-2 infection, however, additional tests, such as whole genomic sequencing, are required to reveal the presence or type of viral mutation.

Despite many bioinformatic solutions for analyzing sequencing data, few options exist for targeted sequence retrieval from whole genomic sequencing (WGS) data with the ultimate goal of generating a phylogeny.

The microarray screened whole genomic imbalances in DNA from peripheral blood for 25 cases (excluded Klinefelter syndrome patients) and testicular FNAC sample for 2 cases.

Our results show, despite advancement with transcriptomic and whole genomic data, the value of mitochondrial data for the reconstruction of phylogenies.

Whole genomic comparison between strain SM2-FT and close relatives suggested a novel species of a novel genus.

While the whole genomic sequence of SARS-CoV-2 had been revealed, it was also demonstrated that the genome of SARS-CoV-2 exhibits identity with the genome of SARS-CoV and MERS-CoV with ratios of 80% and 50% respectively.

The phylogenetic tree based on the whole genomic data of strains YZ01T, YZ02 and YZ03 suggested that these three strains formed a single monophyletic cluster in the genus Lactobacillus, indicating that it belonged to a new species.

Closer investigations allowed us to discover for the first time that these embryos were superficially contaminated by TYLCSV DNA but whole genomic molecules were not detectable.

METHODS Whole genomic DNA of strain P094-1 was sequenced using the Pacific Biosciences platform.

Based on a whole genomic sequencing approach, we developed 56,181 SNPs that allowed a clear differentiation of S.

acidoterrestris in the literature, and the first to use Hoechst 33258 as indicator with whole genomic DNA molecules.

After extracting whole genomic DNA from all the samples, the DNA concentration and purity were analyzed.

The toolkit features many independent core workflows for both whole genomic and transcriptomic data analysis.

DNA damage levels in cervical epithelial cells were assessed using the chromatin dispersion test (CDT) and controlled in parallel with DNA breakage detection coupled with florescent in situ hybridization (DBD‒FISH) using whole genomic DNA probes.

The G+C content of the genomic DNA calculated from the whole genomic sequence was 46.

Asymmetric somatic hybridization is an efficient strategy for crop breeding by introducing exogenous chromatin fragments, which leads to whole genomic shock and local chromosomal shock that induces genome-wide genetic variation including indel (insertion and deletion) and nucleotide substitution.

By conducting the whole genomic sequencing, we also investigated the relatedness of this strain with an additional 120 global contextual Salmonella enterica serovar Telelkebir (S.

haemolytica based on whole genomic sequences with the capsular gene region as target.

TRIM3 depletion inhibits breast cancer cell proliferation and invasion, while the unbiased RNA sequencing data indicates that TRIM3 is required for the activation of estrogen signaling in whole genomic scale.

Whole genomic sequencing data and biochemical classification of B.

We recently developed a new strategy, named combined long amplicon sequencing (CoLAS), which is a method for simultaneously analysing the whole genomic DNA region and, also, the full-length cDNA of the disease-causative gene with long-range PCR-based NGS.

The whole genomic sequencing of Pseudomonas rhizosphaerae was perform using Illumina-based and the read length obtained from the sequencing data was 88,559,000 bp.

RNA was extracted followed by library construction and sequencing for whole genomic transcriptome.

Background of the better vitality of plants was investigated by whole genomic gene expression profiling and showed an enhanced response to wounding, jasmonic acid, oxidative detoxification, and chloroplast activity.

Objective: We paired random and passive surveillance nucleic acid testing with analysis of viral whole genomic sequences to detect and describe breakthrough infections, focusing in a university community.

A whole genomic duplication detected after the separation of Passifloroideae and Malesherbioideae suggests that the base number of Passifloraceae most probably was x = 7, which by dysploidy and polyploidy generated x = 12 for the subfamily Passifloroideae.

Whole genomic DNA was extracted and sequenced using Oxford Nanopore MinION and Illumina NovaSeq 6000 platforms.

Remarkably, driver mutations in as few as about 160 genes out of the whole genomic complement account for nearly all tumorigenesis.

To resolve the potential genetic cause of SCZ and ASD in the proband and her sibling, whole genomic screening of chromosomal rearrangements by array-comparative genomic hybridization (CGH) was performed using SurePrint G3 Human CGH + SNP Microarray 4 × 180 K.

Whole genomic sequencing showed that the strain GXB02 simultaneously has both reassortant and recombinant characteristics with segments A and B being derived from recombinant intermediate vaccine strain and classic strains of IBDV.

Whole genomic sequencing (WGS) was performed to investigate potential resistant determinants.

The whole genomic analysis was found to be normal (46, XX).

Different variants of FISH can be used to retrieve information on genomes from (almost) base pair to whole genomic level, as besides only second and third generation sequencing approaches can do.

discus hannai from the two populations using whole genomic bisulfite sequencing (WGBS), exhibited different epigenetic patterns.

Thus, this research focused on using whole genomic genotypes from the Taiwan Biobank for exploring the association between Al concentrations in plasma and renal function.

While the whole genomic additive effect was estimated using the genomic relationship matrix (GRM) constructed from all SNPs, the regional genomic additive effect was estimated from a GRM matrix constructed from the SNPs within each region.

Conclusions Epidemiological and clinical findings, viral whole genomic sequences, and serological evidence, provided evidence for the re-infection of SFTSV rather than prolonged viral shedding or relapse of the original infection.

To analyze the whole genomic sequence of one TSWV isolate, ’Blackberry lilykr1’, L, M, and S genome segments were sequenced and analyzed by comparison of nucleotide sequences of the three segments with corresponding sequences of other TSWV isolates.

Core genome MLST (cgMLST) is a high-resolution molecular typing method based on whole genomic sequencing for accurate bacterial tracing.

We studied by a whole genomic approach and trios genotyping, 12 de novo, nonrecurrent small supernumerary marker chromosomes (sSMC), detected as mosaics during pre‐ or postnatal diagnosis and associated with increased maternal age.

We aimed to study whole genomic lncRNA expression patterns in colorectal adenoma–carcinoma transition and to analyze the underlying functional interactions of aberrantly expressed lncRNAs.

DNA-DNA hybridization and whole genomic comparison, mandatory to taxonomically separate strain 924/12T from the type strain of L.

Whole genomic DNA was extracted and sequenced using the Illumina HiSeq 4000 platform.

In this study, based on affinity purification of labeled biotin at the 3′-end of miRNAs, we established an efficiently experimental method to screen miRNA binding sequences in the whole genomic regions in vivo.

In summary, the results indicate that Rhizobium genomic clusters, as defined by whole genomic identities, might be part of a continuous process of evolutionary divergence that includes the core and the extrachromosomal elements leading to species formation.

The phylogenetic analysis was performed using high-quality whole genomic sequence data of multiple species with neighbor-joining (NJ) and maximum likelihood (ML) methods.

Methods: Screening of the IDS gene was performed in six individuals (three patients and their mothers) through whole genomic DNA extraction from peripheral blood followed by PCR and Sanger sequencing.

METHODS Whole genomic DNA from A.

Whole genomic sequencing and phylogenetic analysis of the five phages indicated that they are novel and belong to the Siphoviridae family.

METHODS Whole genomic DNA from E.

New technologies, such as functional MRI, continuous neurophysiological assessment, and whole genomic approaches to rapid diagnosis may further enhance clinical protocols and neonatal precision medicine.

Whole genomic comparison between the two strains revealed a digital DNA-DNA hybridization estimate of 75.

Whole genomic sequencing of these paired samples was performed using the Illumina MiSeq platform.

Explicitly fitting effects for major genes or QTL that account for a large percentage of variation in a whole genomic prediction model may increase prediction accuracy.

In whole genomic transcriptional analysis, 1,6-hexanediol significantly downregulated the expression of a set of genes that were enriched in cytokine-cytokine receptor interactions, WNT signaling pathway, ECM-receptor interaction, MAPK signaling pathway and focal adhesion.

After extraction of whole genomic DNA from blood samples and design of primers for 16 genes, the genotyping was performed by Tetra primer ARMS PCR, and the validation of single nucleotide polymorphisms was determined by DNA sequencing.

That is tosay, the target d60 DNA region narrowed down with eachback cross generation, enabling identification of the targetDNA mutation point by whole genomic seq uencing.

The nucleolus contains multiple copies of ribosomal (r)DNA, which indicate sites of frequent replication stress and suggest the existence of a mechanism to prevent replication stress–related rDNA instability and the possibility that such a mechanism contributes to the whole genomic stability against replication stress.

Plasmodium falciparum whole genomic DNA was compared with parasites cultured in red blood cells (RBCs) with known parasitemia and boiled at 95°C for 5 minutes for lysis of RBCs/parasites then diluted 1:2.

METHODS Whole genomic DNA was sequenced using an Illumina HiSeq platform.

METHODS Whole genomic DNA was sequenced using an Illumina MiSeq platform.

Detection and whole genomic characterization of Bovine Papillomavirus type 1 associated with severe mammary cutaneous warts in Turkey.

Biopsy material DNA was amplified using whole genomic amplification kit «Picoplex WGA kit» according to the instruction of the manufacturer company.

Using whole genomic sequencing and phylogenetic analysis, investigators found a highly clonal outbreak from the German manufacturing site of the heater-cooler water units.