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PubMed Journals Articles About "Construction Three Half Linkage Maps Derived From Overwintering" RSS

08:40 EDT 2nd April 2020 | BioPortfolio

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Showing "Construction three half linkage maps derived from overwintering" PubMed Articles 1–25 of 10,000+

Construction of three half-sib SSR linkage maps derived from overwintering cultivated rice and segregation distortion loci mapping.

Segregation distortion is a common mechanism that has been observed in genetics and plant breeding, however, the mechanism of segregation distortion is unknown. In the present study, three half-sib F2 populations derived from three japonica overwinter (perennial) cultivar rice (W1, W2, and W3) crossed to the indica rice cultivar Minghui725 (MH725) were developed to construct three half-sib linkage maps. We established linkage map lengths of 2032.8, 2317.4, and 2108.7 cM with average intervals of 20.1, 20.5,...


Construction and integration of genetic linkage maps from three multi-parent advanced generation inter-cross populations in rice.

The construction of genetic maps based on molecular markers is a crucial step in rice genetic and genomic studies. Pure lines derived from multiple parents provide more abundant genetic variation than those from bi-parent populations. Two four-parent pure-line populations (4PL1 and 4PL2) and one eight-parent pure-line population (8PL) were developed from eight homozygous indica varieties of rice by the International Rice Research Institute (IRRI). To the best of our knowledge, there have been no reports on ...

High-density genetic linkage-map construction of hawthorn and QTL mapping for important fruit traits.

Few reports exist on QTL mapping of the important economic traits of hawthorn. We hybridized the cultivars 'Shandongdamianqiu' (female parent) and 'Xinbinruanzi' (male parent), and 130 F1 individuals and the two parents were used for RAD-seq, SNP development, and high-density linkage map construction. Three genetic maps were obtained, one for each of the parents and an integrated one. In these three maps, 17 linkage groups were constructed. The female and male parent maps contained 2657 and 4088 SNP markers...


Construction of High-Density Linkage Maps and Identification of Quantitative Trait Loci Associated with Verticillium Wilt Resistance in Autotetraploid Alfalfa ( L.).

Verticillium wilt (VW) of alfalfa is a devastating disease that causes forage yield reductions of up to 50% in the northern United States and Canada. The most effective method for controlling the disease is through the development and use of resistant varieties. To identify quantitative trait loci (QTL) for VW resistance in alfalfa, we used a full-sib population segregating for VW resistance. High-density linkage maps for both resistant and susceptible parents were constructed using single-dose alleles of s...

Multifamily QTL analysis and comprehensive design of genotypes for high-quality soft wheat.

Milling properties and flour color are essential selection criteria in soft wheat breeding. However, high phenotypic screening costs restrict selection to relatively few breeding lines in late generations. To achieve marker-based selection of these traits in early generations, we performed genetic dissection of quality traits using three doubled haploid populations that shared the high-quality soft wheat variety Kitahonami as the paternal parent. An amplicon sequencing approach allowed effective constructio...

Predicting Overwintering of Wheat Stripe Rust in Central and Northwestern China.

Stripe rust, caused by Westend. f. sp. Erikss. (), is an important disease of wheat. In China, management has focused on the Gansu region where the pathogen can complete its annual cycle, including oversummering and overwintering. From this region, inoculum is dispersed to the southern Yangtze River region in the late autumn/early winter and then to the main wheat production regions in the following spring. We used historical weather data (1995 to 2016) and field stripe rust assessment data (8 years) in...

Haruspex: A Neural Network for the Automatic Identification of Oligonucleotides and Protein Secondary Structure in Cryo-EM Maps.

In recent years, three-dimensional density maps reconstructed from single particle images obtained by electron cryo-microscopy (Cryo-EM) have reached unprecedented resolution. However, map interpretation can be challenging, in particular if the constituting structures require de-novo model building or are very mobile. Here, we demonstrate the potential of convolutional neural networks for the annotation of Cryo-EM maps: our network Haruspex has been trained on a carefully curated set of 293 experimentally d...

Dietary Scenedesmus ovalternus improves disease resistance of overwintering gibel carp (Carassius gibelio) by alleviating toll-like receptor signaling activation.

This study was conducted to investigate the effect of dietary Scenedesmus ovalternus on the growth and disease resistance of gibel carp (Carassius gibelio) during overwintering. Gibel carp (initial body weight: 90.39 ± 0.33 g) were fed with diets containing 0% or 4% Scenedesmus ovalternus (DS0 and DS4) for 4 weeks during the early overwintering period, and then all fish were left unfed during the late overwintering period. A bacterial challenge test using Aeromonas hydrophila was subsequently conduct...

Genome of an iconic Australian bird: High-quality assembly and linkage map of the superb fairy-wren (Malurus cyaneus).

The superb fairy-wren, Malurus cyaneus, is one of the most iconic Australian passerine species. This species belongs to an endemic Australasian clade, Meliphagides, which diversified early in the evolution of the oscine passerines. Today, the oscine passerines comprise almost half of all avian species diversity. Despite the rapid increase of available bird genome assemblies, this part of the avian tree has not yet been represented by a high-quality reference. To rectify that, we present the first high-quali...

Current trends in marine algae polysaccharides: The digestive tract, microbial catabolism, and prebiotic potential.

Marine algae contain unique polysaccharides which differ from terrestrial plant polysaccharides, having a different composition, substitution, and linkage types. These are non-digestible by digestive enzymes in humans. Remarkably, marine algae polysaccharides (MAPs) may selectively enhance the activities of some populations of beneficial bacteria and stimulate the production of functional metabolites by gut microbiota. The MAPs also stimulate a range of biological activities, such as anti-cancer, anti-oxida...

Genetic linkage of oxidative stress with cardiometabolic traits in an intercross derived from hyperlipidemic mouse strains.

Oxidative stress is associated with cardiometabolic traits in observational studies, yet the underlying causal relationship remains unclear. Apolipoprotein E-deficient (Apoe) mice develop significant hyperlipidemia and hyperglycemia on a Western diet. Here we conducted linkage analysis to investigate genetic connections between cardiometabolic traits and oxidative stress.

Influence of traffic accessibility on land use based on Landsat imagery and internet map: A case study of the Pearl River Delta urban agglomeration.

Taking the Pearl River Delta urban agglomeration, with its rapid economic and social development and dramatic changes in land use, as an example with which to conduct this research, this paper analyzes the influence of traffic accessibility on land use and socioeconomic development by using Internet maps, points of interest (POI), and data about land use and socioeconomic development. The results of this study are as follows: (1) the calculation results of traffic accessibility can reflect the real situatio...

Stiffness of cargo-motor linkage tunes Myosin VI motility and response to load.

We examine the effect of cargo-motor linkage stiffness on the mechanobiological properties of the molecular motor Myosin VI. We use the programmability of DNA nanostructures to modulate cargo-motor linkage stiffness and combine it with high precision optical trapping measurements to measure the effect of linkage stiffness on motile properties of Myosin VI. Our results reveal that a stiff cargo-motor linkage leads to shorter step sizes and load-induced anchoring of Myosin VI, while a flexible linkage results...

Genotyping-by-sequencing based QTL mapping for rice grain yield under reproductive stage drought stress tolerance.

QTLs for rice grain yield under reproductive stage drought stress (qDTY) identified earlier with low density markers have shown linkage drag and need to be fine mapped before their utilization in breeding programs. In this study, genotyping-by-sequencing (GBS) based high-density linkage map of rice was developed using two BCF mapping populations namely Swarna*2/Dular (3929 SNPs covering 1454.68 cM) and IR11N121*2/Aus196 (1191 SNPs covering 1399.68 cM) with average marker density of 0.37 cM to 1.18 c...

Performance evaluation of texture analysis based on kinetic parametric maps from breast DCE-MRI in classifying benign from malignant lesions.

To investigate the performance of texture analysis based on enhancement kinetic parametric maps derived from breast dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) in discriminating benign from malignant tumors.

Delayed effects of pyrene exposure during overwintering on the Arctic copepod Calanus hyperboreus.

Calanus hyperboreus is the largest copepod and a key species in the Arctic food web. During the spring bloom, C. hyperboreus builds up large lipid reserves, which enable it to survive and produce eggs during overwintering. The ecological effects of oil exposure on overwintering C. hyperboreus are unknown. The present study empirically tested if exposure to the polycyclic aromatic hydrocarbon (PAH) pyrene from crude oil affects the survival, egg production, and hatching success of overwintering C. hyperboreu...

Crossover interference and sex-specific genetic maps shape identical by descent sharing in close relatives.

Simulations of close relatives and identical by descent (IBD) segments are common in genetic studies, yet most past efforts have utilized sex averaged genetic maps and ignored crossover interference, thus omitting features known to affect the breakpoints of IBD segments. We developed Ped-sim, a method for simulating relatives that can utilize either sex-specific or sex averaged genetic maps and also either a model of crossover interference or the traditional Poisson model for inter-crossover distances. To c...

A hybrid approach to record linkage using a combination of deterministic and probabilistic methodology.

The disjointed healthcare system and the nonexistence of a universal patient identifier across systems necessitates accurate record linkage (RL). We aim to describe the implementation and evaluation of a hybrid record linkage method in a statewide surveillance system for congenital heart disease.

Organized Toe Maps in Extreme Foot Users.

Although the fine-grained features of topographic maps in the somatosensory cortex can be shaped by everyday experience, it is unknown whether behavior can support the expression of somatotopic maps where they do not typically occur. Unlike the fingers, represented in all primates, individuated toe maps have only been found in non-human primates. Using 1-mm resolution fMRI, we identify organized toe maps in two individuals born without either upper limb who use their feet to substitute missing hand function...

Identification and analysis of man-made geological product particles to aid forensic investigation of provenance in the built environment.

Small (sub-mm) fragments of construction materials derived from geological products are common components of soil and dust samples from urban and industrial environments. These particles increase the complexity of a soil through the admixture of man-made materials with natural minerals within the soil matrix. One application of such indicators is in nuclear security investigations, where there is a requirement to determine the origin and process history of a nuclear material discovered outside of regulatory...

Relativistic Anyon Beam: Construction and Properties.

Motivated by recent interest in photon and electron vortex beams, we propose the construction of a relativistic anyon beam. Following Jackiw and Nair [R. Jackiw and V. P. Nair, Phys. Rev. D 43, 1933 (1991).PRVDAQ0556-282110.1103/PhysRevD.43.1933] we derive an explicit form of the relativistic plane wave solution of a single anyon. Subsequently we construct the planar anyon beam by superposing these solutions. Explicit expressions for the conserved anyon current are derived. Finally, we provide expressions...

In vivo measurement of cytoplasmic organelle water fraction using diffusion-weighted imaging: Application in the malignant grading and differential diagnosis of gliomas.

Recently, we have proposed a theoretical modified tri-exponential model for multi-b-value diffusion-weighted imaging (DWI) to measure the cytoplasmic organelle water fraction (COWF). This study aims to investigate whether COWF maps are effective in evaluating the malignant degree of gliomas and distinguishing primary central nervous system lymphomas (PCNSL) from gliomas.We performed this retrospective study based on our prospectively collected data. All patients underwent preoperative multi-b-value DWI. Par...

Autumn shifts in cold tolerance metabolites in overwintering adult mountain pine beetles.

The mountain pine beetle, Dendroctonus ponderosae (Coleoptera: Curculionidae) is a major forest pest of pines in western North America. Beetles typically undergo a one-year life cycle with larval cold hardening in preparation for overwintering. Two-year life cycle beetles have been observed but not closely studied. This study tracks cold-hardening and preparation for overwintering by adult mountain pine beetles in their natal galleries. Adults were collected in situ between September and December 2016 for a...

The nonlinear structure of linkage disequilibrium.

The allele frequency dependence of the ranges of all measures of linkage disequilibrium is well-known. The maximum values of commonly used parameters such as r and D vary depending on the allele frequencies at each locus. However, though this phenomenon is recognized and accounted for in many studies, the comprehensive mathematical framework underlying the limits of linkage disequilibrium measures at various frequency combinations is often heuristic or empirical. Here, it is demonstrated that underlying thi...

Point-of-contact Interactive Record Linkage (PIRL): A software tool to prospectively link demographic surveillance and health facility data.

Linking a health and demographic surveillance system (HDSS) to data from a health facility that serves the HDSS population generates a research infrastructure for directly observed data on access to and utilization of health facility services. Many HDSS sites, however, are in areas that lack unique national identifiers or suffer from data quality issues, such as incomplete records, spelling errors, and name and residence changes, all of which complicate record linkage approaches when applied retrospectively...


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