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GBS - DOAJ

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Last Updated: 02 August 2022

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GBS-Based SNP Map Pinpoints the QTL Associated With Sorghum Downy Mildew Resistance in Maize (Zea mays L.)

Sorghum downy mildew, triggered by the biotrophic fungi Peronosclerospora sorghi, threatens maize production around the world, including India. We used a recombinant inbred line population derived from a cross between resistant inbred line UMI936 and a more vulnerable inbred line UMI79 to determine quantitative trait loci associated with SDM resistance. SDM resistance was found in three settings [E1-field, E2-greenhouse, and E3-field], and it was also used to create the genetic linkage map by sequencing technology. The map features 1516 SNP markers in ten linkage groups, with a total length of 6924. 7 cM and an average marker distance of 4. 57 cM. Nine QTL were found on chromosome 1, 2, 3, 5, 6, and 7 across three cultures, according to the QTL's phenotype and marker analysis. qDMR3. 1 from chromosome 3 was found in more than one environment, explaining the 10. 3% and 13. 1% phenotypic variation.

Source link: https://doi.org/10.3389/fgene.2022.890133


Case Report: Post-COVID-19 Vaccine Recurrence of Guillain–Barré Syndrome Following an Antecedent Parainfectious COVID-19–Related GBS

We're looking for a unique combination of postcoronavirus disease 2019 vaccine GBS that occurred months after a severe COVID-related GBS was distributed within months. A 57-year-old man developed diplopia, right-side facial weakness, and gait instability that, along with electrophysiology and cerebrospinal fluid tests, resulted in a diagnosis of post-COVID-19 GBS. GBS recurred shortly after the first dose of the Pfizer/BioNTech vaccine was administered. Patients with recent COVID-19 vaccinations/revaccinations in patients with previous para-/post-COVID-19 GBS do deserve reappraisal, particularly if they are seropositive for ganglioside antibodies.

Source link: https://doi.org/10.3389/fimmu.2022.894872


Novel GBS-Based SNP Markers for Finger Millet and Their Use in Genetic Diversity Analyses

Eleusine coracana Gaertn, also known as finger millet, is a multipurpose crop used for food and feed and feed. For the analysis of crop gene pools and their genomics-led breeding, genomic tools are required. Finger millet germplasm from a variety of agro-ecologies was considered a safe way to determine its genetic diversity, thereby identifying potential candidates for breeding. The genotyping-by-sequencing technique was used to simultaneously identify novel single nucleotide polymorphism markers and genotype 288 finger millet accessions collected from Ethiopia and Zimbabwe in this research. A narrow range of observed heterozygosity and expected heterozygosity ranging from 0. 11 to 0. 26 percent was found within the two groups based on geographic location and the possibility of germplasm exchange. Finger millet accessions in Ethiopia vary moderately, with finger millet accessions from the northern region having the lowest incidence.

Source link: https://doi.org/10.3389/fgene.2022.848627


The GBS PI-2a pilus is required for virulence in mice neonates.

BACKGROUND: Streptococcus agalactiae is a common cause of sepsis and meningitis in newborns. In strain NEM316, we had previously described the pilus-encoding operon PI-2a. PilB, the bona fide pilin, is the main component, while PilA, the pilus associated adhesive, and PilC the pilus anchor are both accessory proteins integrated into the pilus backbone. METHODOLOGY/PRINCIPAL FINDINGS: Method: PHARMACOLOGY/PRINCIPAL FINDINGS: The role of the main pilin subunit PilB in systemic virulence was investigated in this research using 6-weeks old and newborn mice. We next looked at PilB's potential role in immunity to innate immune host defenses, i. e. In immortalized RAW 264. 7 murine macrophages, the isogenic u0394sodA mutant was not significantly different, while the isogenic u0394pilB mutant was more susceptible to death. We also tested the effects of five cationic antimicrobial peptides on WT and u0394pilB strains, finding no significant difference between WT and u0394pilB strains, although the isogenic dltA mutant showed increased sensitivity.

Source link: https://doi.org/10.1371/journal.pone.0018747


Enhancement of Glen Moy x Latham raspberry linkage map using GbS to further understand control of developmental processes leading to fruit ripening

Abstract Background The changing climate is changing the timing of main fruit ripening processes and increasing the incidence of fruit defects. To improve our understanding of raspberry fruit development's genetic stability, an enhanced genetic linkage map was created and used to analyze ripening phenotypic data. Using the recently developed dense genetic map, not only corroborated previously determined genetic locations, but also added genetic elements that regulate fruit ripening in raspberry. Conclusions: The QTL peaks were more precisely than in previous studies, aligned the QTLs with Glen Moy genome scaffolds, narrowed the range of potential candidate genes to these regions that can be used in other populations or gene expression studies, broadening the range of fruit ripening characteristics.

Source link: https://doi.org/10.1186/s12863-018-0666-z


Low-depth genotyping-by-sequencing (GBS) in a bovine population: strategies to maximize the selection of high quality genotypes and the accuracy of imputation

In contrast, only a few studies used the GBS technique in animal populations, and some of those that have been published did not investigate the quality of the genotypes that have been developed by the bioinformatic pipelines. PstI and MspI's combination of PstI and MspI was more useful for sequencing bovine GBS libraries than single digestions with PstI or ApeKI, according to the authors. Generic genotype calling accuracy can be obtained using low read-depth thresholds, according to our results, if markers are simultaneously checked for genotype quality scores. We also show that factors such as the minimum call rate and the minor allele frequency can influence the accuracy of imputation of missing GBS results. When GBS and SNP50 array genotypes were mixed before imputation, the most accuracies of suspected GBS markers were discovered with the FIMPUTE program. PstI/MspI GBS was used to enhance the output of the GBS technique in animal populations, assay as a low-cost high-density genotyping system. The results presented here regarding read-depth and genotype quality filtering may be helpful to several GBS applications, including genome-wide association studies, where the goal population must be increased to ensure the number of markers genotyped across the target population while maintaining the consistency of genotypes.

Source link: https://doi.org/10.1186/s12863-017-0501-y


An improved genotyping by sequencing (GBS) approach offering increased versatility and efficiency of SNP discovery and genotyping.

We've also investigated the use of GBS in soybean in the current probe. To change the degree of complexity reduction, we've developed a new library preparation procedure in lieu of designing a novel analysis pipeline to call SNPs and indels from the resulting sequence reads. We obtained 5. 5 million reads and processed them using our pipeline, using ApeKI for GBS library preparation and sequencing on an Illumina GAIIX machine. A 98% success rate was reported for validation of over 400 genotypes at a series of randomly chosen SNPs using Sanger sequencing. During GBS library assembly preparation, we then explored the use of selective primers to achieve a higher degree of difficulty reduction. The effort to find high quality SNPs here will be both helpful for marker assisted genomics and the identification of available genetic resources for efficient utilization of a variety of species.

Source link: https://doi.org/10.1371/journal.pone.0054603


Antepartum Membrane Stripping in GBS Carriers, Is It Safe? (The STRIP-G Study).

Many physicians who are interested in Group B Streptococcus colonized patients prefer not to sweep the membranes. We conducted 'the STRIP-G study' in order to see if maternal and neonatal outcomes were affected by GBS carrier status in women undergoing membrane stripping. We compared the prevalence of composite adverse neonatal outcomes among the three study groups' researchers, while the secondary outcome measure was composite adverse maternal outcomes. However, composite adverse maternal outcomes were recorded in 8, 31, and 2 in the GBS-positive, GBS-negative, and unknown groups, respectively; while composite adverse maternal outcomes were recorded in 9, 31, and 5 in the GBS-positive, GBS-negative, and unknown groups, respectively. CONCLUSIONS: Antepartum membrane stripping in GBS carriers seems to be a safe obstetric surgical procedure that does not adversely influence maternal or neonatal outcomes.

Source link: https://doi.org/10.1371/journal.pone.0145905


Putative autoimmune mechanisms for Acute Disseminated Encephalomyelitis (ADEM) and Guillain-Barré Syndrome (GBS) associated with SARS-CoV-2 infection

SARS-CoV-2, the novel coronavirus severe acute respiratory syndrome virus that causes the continuing COVID-19 pandemic pandemic, has several forms of neurological disease, including Acute Disseminated Encephalomyelitis and Guillain-Barru00e9 Syndrome, among other forms of autoimmune encephalitis, stroke, encephalopathy, delirium, and cranial neuropathies. At Queen Square National Hospital for Neurology and Neurosurgery, London, UK, I have carried out a literature search as well as drawn on my own findings from the COVID-19 and encephalitis multidisciplinary meetings at King Square National Hospital for Neurology and Neurosurgery.

Source link: https://doi.org/10.47795/VJFZ4701


Construction of a high-density integrated genetic linkage map of rubber tree (Hevea brasiliensis) using genotyping-by-sequencing (GBS)

We developed a high-density integrated genetic linkage map of rubber tree, the sole commercial rubber plantation of high-quality natural rubber, here. In two rubber tree populations, we used a genotyping-by-sequencing technique to simultaneously identify and genotype single nucleotide polymorphism markers. Population P and C maps with population P and C included 1,704 and 1,719 markers and 1,874 cM, respectively, with 1,704 and 1,719 markers covering 2,041 cM and 1,874 cM. With one SNP marker in every 0. 89 cM, the composite map showed a significant increase in marker density, with one SNP marker in every 0. 89 cM. This is the most dense genetic map in rubber tree to date, according to our reports. This integrated map enabled us to anchor 28,965 contigs, covering 135 Mb or 12% of the circulating rubber tree genome. We reported that GBS is a robust and cost-effective method for gathering a single set of genome-wide SNP data useful for creating integrated linkage maps from multiple populations of a highly diverse agricultural species, which is particularly robust.

Source link: https://doi.org/10.3389/fpls.2015.00367

* 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