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singlenucleotidepolymorphism, etc ; DNA; Trachinotus ovatus; chromosomes; genes; Show all 5 Subjects
Abstract:
... It is difficult to distinguish the sexes of Trachinotus ovatus based on appearance, and little data about sex-determining genes are available for this species. Here, we generated 200 F2 individuals using the parents R404 and R403. DNA samples were collected from 50 individuals of each sex and aggregated into sex-specific DNA pools. Specific-locus amplified fragment sequencing was integrated with b ...
singlenucleotidepolymorphism, etc ; DNA; hybridization; hydrogels; ionic strength; Show all 5 Subjects
Abstract:
... Hydrogel microparticle-based nucleic acid assays are an attractive detection platform based on their multiplexing capabilities with high sensitivity and specificity. A particular area of interest is single-nucleotide polymorphism (SNP) sensing, where multiple SNPs should be identified in a highly reliable yet economical manner. However, hydrogel microparticles leveraging probe-target hybridization ...
singlenucleotidepolymorphism, etc ; agronomy; cucumbers; genomics; genotyping; phylogeny; transcriptome; Show all 7 Subjects
Abstract:
... Marker-assisted background selection is a powerful molecular tool that can enhance breeding efficiency through the analysis of a large number of markers representing the entire genomic background for precise selection. In the present study, the transcriptomes of 38 cucumber inbred lines with diverse traits were sequenced for single nucleotide polymorphism (SNP) mining for practical application to ...
singlenucleotidepolymorphism, etc ; Escherichia coli O157; genetic variation; monitoring; phylogeny; temperature; Show all 6 Subjects
Abstract:
... Single-nucleotide polymorphisms (SNPs) are one of the most common forms of genetic variation and as such are powerful tools for the identification of bacterial strains, their genetic diversity, phylogenetic analysis, and outbreak surveillance. In this study, we used 15 sets of SNP-containing primers to amplify and sequence the target Escherichia coli. Based on the combination of the 15-sequence pr ...
singlenucleotidepolymorphism, etc ; Bayesian theory; Coffea canephora; genetic distance; hybrids; trees; yields; Show all 7 Subjects
Abstract:
... The choice of parents is a vital first step in any variety development process. This is particularly imperative in tree crops that require minimally 15–20 years to complete a varietal development. The present study was conducted to determine genetic distances (GDs) between parental clones of Robusta coffee hybrids and assess the relationship between GD and hybrid performance. The experimental mate ...
singlenucleotidepolymorphism, etc ; capsaicinoids; carotenoids; cosmetics; genes; germplasm; hot peppers; marker-assisted selection; oleoresins; pepper; Show all 10 Subjects
Abstract:
... Pepper is a crucial vegetable as well as spice crop, fruits of which contain numerous bioactive compounds such as capsaicinoids, capsinoids, carotenoids, and oleoresin. Because of the increased demand for eco-friendly products, increasing attention has been paid toward the bioactive compounds in pepper. Hot pepper fruits have potential applications in the pharmaceutical and cosmeceutical industrie ...
singlenucleotidepolymorphism, etc ; Duroc; Sus scrofa; chromosomes; genes; genomics; genotyping; haplotypes; industry; quantitative traits; swine; Show all 11 Subjects
Abstract:
... The number of teats is a morphological trait of high economic relevance for the pig industry. Here, to dissect the genomic architecture of this trait in the Italian Duroc pig population, we present the results of genome-wide association studies in this Italian heavy pig breed. A total of 1,162 pigs, for which the number of teats was recorded, was genotyped with two high-throughput single nucleotid ...
Rosalia Di Gerlando; Salvatore Mastrangelo; Marco Tolone; Ilaria Rizzuto; Anna Maria Sutera; Angelo Moscarelli; Baldassare Portolano; Maria Teresa Sardina
singlenucleotidepolymorphism, etc ; gene ontology; genes; genetic relationships; immune response; lipid metabolism; phenotypic variation; sheep; Show all 8 Subjects
Abstract:
... Copy number variants (CNVs) are one of the major contributors to genetic diversity and phenotypic variation in livestock. The aim of this work is to identify CNVs and perform, for the first time, a CNV-based population genetics analysis with five Italian sheep breeds (Barbaresca, Comisana, Pinzirita, Sarda, and Valle del Belìce). We identified 10,207 CNVs with an average length of 1.81 Mb. The bre ...
singlenucleotidepolymorphism, etc ; DNA; capillary electrophoresis; genetic markers; genotyping; hairs; microsatellite repeats; molecular biology; nuclear genome; Show all 9 Subjects
Abstract:
... BACKGROUND: Hair is a frequently encountered biological evidence in personal identification. The amount of nuclear DNA that can be extracted from a single strand of rootless hair is most limited, making the detection of short tandem repeat (STR) polymorphisms difficult. To overcome these limitations, deletion/insertion polymorphisms (DIP) as a new type of genetic marker have shown their benefits i ...
singlenucleotidepolymorphism, etc ; genes; genetic variation; haplotypes; mitochondria; mitochondrial DNA; nucleotide sequences; pastoralism; phylogeny; yaks; China; Show all 11 Subjects
Abstract:
... The yak is one of the important livestock unique to the pastoral areas of the Qinghai–Tibet Plateau. In this study, the genetic diversity and phylogenetic relationships of four yak populations in Tibet Naqu and Ali were assessed using mitochondrial cytochrome genes (CytB). Results showed that the full length of the CytB gene sequences of 129 yak individuals in the four populations was 1140 bp, and ...
Lucas Matias Gomes-Messias; Rosana Pereira Vianello; Joney Pereira Monteiro-Júnior; Luana Alves Rodrigues; Ana Paula Simplício Mota; Helton Santos Pereira; Leonardo Cunha Melo; Bodo Raatz; Thiago Lívio Pessoa Oliveira de Souza
singlenucleotidepolymorphism, etc ; anthracnose; beans; disease resistance; early selection; leaf spot; marker-assisted selection; resistance genes; Show all 8 Subjects
Abstract:
... The implementation of molecular tools that help the early selection of genotypes carrying target alleles increases efficiency and reduces the time and costs of breeding programs. The present study aimed the molecular characterization and validation of Single Nucleotide Polymorphism (SNP) targeting disease resistance alleles for assisted selection. A total of 376 common bean lines with contrasting ...
singlenucleotidepolymorphism arrays, etc ; Brassica oleracea var. sabellica; cabbage; chromosome mapping; genetic variation; haplotypes; kale; vegetable crops; Show all 8 Subjects
Abstract:
... Brassica oleracea is a vegetable crop with an amazing morphological diversity. Among the various crops derived from B. oleracea, kale has been in the spotlight globally due to its various health-benefitting compounds and many different varieties. Knowledge of the existing genetic diversity is essential for the improved breeding of kale. Here, we analyze the interrelationships, population structure ...
singlenucleotidepolymorphism, etc ; DNA; agriculture; alleles; cluster analysis; cultivars; genetic distance; grapes; loci; markets; population structure; China; Show all 12 Subjects
Abstract:
... We aimed to develop a set of single nucleotide polymorphism (SNP) markers that can be used to distinguish the main cultivated grape (Vitis L.) cultivars in China and provide technical support for domestic grape cultivar protection, cultivar registration, and market rights protection. A total of 517 high-quality loci were screened from 4 241 729 SNPs obtained by sequencing 304 grape accessions usin ...
singlenucleotidepolymorphism, etc ; Meloidogyne chitwoodi; Solanum bulbocastanum; chromosomes; genomics; marker-assisted selection; microsatellite repeats; phenotype; potatoes; profitability; Show all 10 Subjects
Abstract:
... Meloidogyne chitwoodi is a major threat to potato production in the Pacific Northwest region of the United States. Infected tubers are rendered unmarketable; hence, growers’ profitability is adversely affected. Breeding for nematode resistance is a long-term process and phenotyping the segregating populations for nematode resistance is the most time-consuming and laborious part of the process. Usi ...
... The present study was undertaken to develop a simple, robust, and reliable polymerase chain reaction-based molecular marker that can identify a critical nonsense mutation in a receptor like protein (RLP) gene of tomato. The Solyc04g014400 locus was found to code for a RLP with leucine-rich repeats, a trans-membrane domain, and characteristic three-dimensional structure. In silico analysis revealed ...
singlenucleotidepolymorphism, etc ; alleles; domestication; genome-wide association study; genotype; genotyping; linkage disequilibrium; panicles; phenotype; plant height; rice; Show all 11 Subjects
Abstract:
... Transposable elements (TEs) are a major force in the production of new alleles during domestication; nevertheless, their use in association studies has been limited because of their complexity. We have developed a TE genotyping pipeline (TEmarker) and applied it to whole-genome genome-wide association study (GWAS) data from 176 Oryza sativa subsp. japonica accessions to identify genetic elements a ...
... Escherichia coli is the main bacterial cause of major economic losses and animal welfare issues in poultry production. In this study, we investigate the effect of an autogenous vaccine on E. coli strains longitudinally isolated from broiler breeder flocks on two farms. In total, 115 E. coli isolates were sequenced using Illumina technologies, and compared based on a single-nucleotide polymorphism ...
... BACKGROUND: Type 2 diabetes (T2DM) susceptibility varies among different populations and is affected by gene single nucleotide polymorphism (SNP). Insulin-like growth factor (IGF)-1 gene, which has many SNP loci, is involved in T2DM pathogenesis. However, the relationship of IGF-1 gene polymorphism with T2DM in Uyghur population is less studied. OBJECTIVE: To investigate the relationship between T ...
... Despite the availability of numerous molecular markers in maize, effective evaluation of all types of germplasm resources, accurate identification of varieties and analysis of a large number of materials in a timely, low‐cost manner is challenging. Here, we present Maize6H‐60K, a genome‐wide single nucleotide polymorphism (SNP) array to facilitate maize genotyping. We first identified 160 million ...
Kassa Semagn; Muhammad Iqbal; José Crossa; Diego Jarquin; Reka Howard; Hua Chen; Darcy H. Bemister; Brian L. Beres; Harpinder Randhawa; Amidou N’Diaye; Curtis Pozniak; Dean Spaner
singlenucleotidepolymorphism arrays, etc ; cultivars; grain protein; management systems; marker-assisted selection; models; organic production; phenotype; prediction; spring wheat; Show all 10 Subjects
Abstract:
... KEY MESSAGE: Using phenotype data of three spring wheat populations evaluated at 6–15 environments under two management systems, we found moderate to very high prediction accuracies across seven traits. The phenotype data collected under an organic management system effectively predicted the performance of lines in the conventional management and vice versa. There is growing interest in developing ...