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Quantitative susceptibility mapping

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https://www.readbyqxmd.com/read/29142238/mapping-qtls-conferring-salt-tolerance-and-micronutrient-concentrations-at-seedling-stagein-wheat
#1
Babar Hussain, Stuart James Lucas, Levent Ozturk, Hikmet Budak
Soil salinization and degradation is one of the consequences of climate change. Identification of major salt tolerance genes and marker assisted selection (MAS) can accelerate wheat breeding for this trait. We genotyped 154 wheat F2 lines derived from a cross between salt tolerant and susceptible cultivars using the Axiom Wheat Breeder's Genotyping Array. A high-density linkage map of 988 single nucleotide polymorphisms (SNPs) was constructed and utilized for quantitative trait loci (QTL) mapping for salt tolerance traits and mineral concentrations under salinity...
November 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29138903/next-generation-sequencing-to-identify-candidate-genes-and-develop-diagnostic-markers-for-a-novel-phytophthora-resistance-gene-rpshc18-in-soybean
#2
Chao Zhong, Suli Sun, Yinping Li, Canxing Duan, Zhendong Zhu
A novel Phytophthora sojae resistance gene RpsHC18 was identified and finely mapped on soybean chromosome 3. Two NBS-LRR candidate genes were identified and two diagnostic markers of RpsHC18 were developed. Phytophthora root rot caused by Phytophthora sojae is a destructive disease of soybean. The most effective disease-control strategy is to deploy resistant cultivars carrying Phytophthora-resistant Rps genes. The soybean cultivar Huachun 18 has a broad and distinct resistance spectrum to 12 P. sojae isolates...
November 14, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/29138089/rapid-two-step-dipole-inversion-for-susceptibility-mapping-with-sparsity-priors
#3
Christian Kames, Vanessa Wiggermann, Alexander Rauscher
Quantitative susceptibility mapping (QSM) is a post-processing technique of gradient echo phase data that attempts to map the spatial distribution of local tissue magnetic susceptibilities. To obtain these maps, an ill-posed field-to-source inverse problem must be solved to remove non-local magnetic field perturbations. Current state-of-the-art algorithms which aim to solve the dipole inversion problem are plagued by the trade-off between reconstruction speed and accuracy. A two-step dipole inversion algorithm is proposed to bridge this gap...
November 11, 2017: NeuroImage
https://www.readbyqxmd.com/read/29130526/phase-processing-for-quantitative-susceptibility-mapping-of-regions-with-large-susceptibility-and-lack-of-signal
#4
Véronique Fortier, Ives R Levesque
PURPOSE: Phase processing impacts the accuracy of quantitative susceptibility mapping (QSM). Techniques for phase unwrapping and background removal have been proposed and demonstrated mostly in brain. In this work, phase processing was evaluated in the context of large susceptibility variations (Δχ) and negligible signal, in particular for susceptibility estimation using the iterative phase replacement (IPR) algorithm. METHODS: Continuous Laplacian, region-growing, and quality-guided unwrapping were evaluated...
November 11, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/29117707/susceptibility-of-iodine-concentration-map-of-dual-energy-contrast-enhanced-digital-mammography-for-quantitative-and-tumor-enhancement-assessment
#5
Yi-Shuan Hwang, Yun-Chung Cheung, Yu-Ying Lin, Hsiao-Lan Hsu, Hui-Yu Tsai
Background Dual-energy (DE) contrast-enhanced digital mammography (DE-CEDM) provides additional information on tumor angiogenesis. Purpose To investigate the susceptibility of reconstructing color-coded iodine concentration maps on the basis of quantitative calibrations of the iodine concentration and contrast-to-noise ratio (CNR) in DE-CEDM applications. Material and Methods A custom-made phantom filled with iodine concentrations in the range of 0.1-10 mg/cm(2) was used in calibrations. All DE images were acquired using the GE Senographe Essential system...
January 1, 2017: Acta Radiologica
https://www.readbyqxmd.com/read/29116426/high-resolution-language-mapping-of-broca-s-region-with-transcranial-magnetic-stimulation
#6
Katrin Sakreida, Inga Lange, Klaus Willmes, Stefan Heim, Ferdinand Binkofski, Hans Clusmann, Georg Neuloh
Broca's region, corresponding roughly to cytoarchitectonic areas 44 and 45 in the inferior frontal cortex, holds a multifunctional role in language processing, as shown, e.g., by functional imaging data. Neuro-navigated transcranial magnetic stimulation (TMS) enables complementary non-invasive mapping of cortical functions with high spatial resolution. Here, we report on detailed TMS language mapping of Broca's region in 12 healthy participants. The test protocol with an object naming task was adapted for high-resolution and semi-quantitative mapping of TMS-induced effects on speech and language performance...
November 7, 2017: Brain Structure & Function
https://www.readbyqxmd.com/read/29097315/mapping-of-thalamic-magnetic-susceptibility-in-multiple-sclerosis-indicates-decreasing-iron-with-disease-duration-a-proposed-mechanistic-relationship-between-inflammation-and-oligodendrocyte-vitality
#7
Ferdinand Schweser, Ana Luiza Raffaini Duarte Martins, Jesper Hagemeier, Fuchun Lin, Jannis Hanspach, Bianca Weinstock-Guttman, Simon Hametner, Niels P Bergsland, Michael G Dwyer, Robert Zivadinov
Recent advances in susceptibility MRI have dramatically improved the visualization of deep gray matter brain regions and the quantification of their magnetic properties in vivo, providing a novel tool to study the poorly understood iron homeostasis in the human brain. In this study, we used an advanced combination of the recent quantitative susceptibility mapping technique with dedicated analysis methods to study intra-thalamic tissue alterations in patients with clinically isolated syndrome (CIS) and multiple sclerosis (MS)...
October 30, 2017: NeuroImage
https://www.readbyqxmd.com/read/29092026/copd-gwas-variant-at-19q13-2-in-relation-with-dna-methylation-and-gene-expression
#8
Ivana Nedeljkovic, Lies Lahousse, Elena Carnero Montoro, Alen Faiz, Judith M Vonk, Kim de Jong, Diana A van der Plaat, Cleo C van Diemen, Maarten van den Berge, Ma'en Obeidat, Yohan Bossé, David C Nickle, Andre G Uitterlinden, Joyce B J van Meurs, Bruno H C Stricker, Guy G Brusselle, Dirkje S Postma, H Marike Boezen, Cornelia M van Duijn, Najaf Amin
Chronic obstructive pulmonary disease (COPD) is among the major health burdens in adults. While cigarette smoking is the leading risk factor, a growing number of genetic variations have been discovered to influence disease susceptibility. Epigenetic modifications may mediate the response of the genome to smoking and regulate gene expression. Chromosome 19q13.2 region is associated with both smoking and COPD, yet its functional role is unclear. Our study aimed to determine whether rs7937 (RAB4B, EGLN2), a top genetic variant in 19q13...
October 28, 2017: Human Molecular Genetics
https://www.readbyqxmd.com/read/29083524/automated-vessel-exclusion-technique-for-quantitative-assessment-of-hepatic-iron-overload-by-r2-mri
#9
Aaryani Tipirneni-Sajja, Ruitian Song, M Beth McCarville, Ralf B Loeffler, Jane S Hankins, Claudia M Hillenbrand
BACKGROUND: Extraction of liver parenchyma is an important step in the evaluation of R2*-based hepatic iron content (HIC). Traditionally, this is performed by radiologists via whole-liver contouring and T2*-thresholding to exclude hepatic vessels. However, the vessel exclusion process is iterative, time-consuming, and susceptible to interreviewer variability. PURPOSE: To implement and evaluate an automatic hepatic vessel exclusion and parenchyma extraction technique for accurate assessment of R2*-based HIC...
October 30, 2017: Journal of Magnetic Resonance Imaging: JMRI
https://www.readbyqxmd.com/read/29080143/quantitative-trait-loci-for-tuber-blackspot-bruise-and-enzymatic-discoloration-susceptibility-in-diploid-potato
#10
Agnieszka Hara-Skrzypiec, J Śliwka, H Jakuczun, E Zimnoch-Guzowska
Tuber tissue discolorations caused by impact (blackspot bruising) and enzymatic discoloration (ED) after tuber cutting are crucial quality traits of the cultivated potato. To understand the complex genetics of the traits, quantitative trait locus (QTL) analysis using diploid mapping population and diversity array technology (DArT) markers was performed. The phenotypic assessment included the complex evaluation of blackspot bruising susceptibility through two methods: rotating drum (B RD) and falling bolt (B FB) in combination with the evaluation of enzymatic discoloration...
October 27, 2017: Molecular Genetics and Genomics: MGG
https://www.readbyqxmd.com/read/29079523/combining-images-and-anatomical-knowledge-to-improve-automated-vein-segmentation-in-mri
#11
Phillip G D Ward, Nicholas J Ferris, Parnesh Raniga, David L Dowe, Amanda C L Ng, David G Barnes, Gary F Egan
PURPOSE: To improve the accuracy of automated vein segmentation by combining susceptibility-weighted images (SWI), quantitative susceptibility maps (QSM), and a vein atlas to produce a resultant image called a composite vein image (CV image). METHOD: An atlas was constructed in common space from manually traced MRI images from ten volunteers. The composite vein image was derived for each subject as a weighted sum of three inputs; an SWI image, a QSM image and the vein atlas...
October 25, 2017: NeuroImage
https://www.readbyqxmd.com/read/29063047/data-analysis-in-the-post-genome-wide-association-study-era
#12
REVIEW
Qiao-Ling Wang, Wen-Le Tan, Yan-Jie Zhao, Ming-Ming Shao, Jia-Hui Chu, Xu-Dong Huang, Jun Li, Ying-Ying Luo, Lin-Na Peng, Qiong-Hua Cui, Ting Feng, Jie Yang, Ya-Ling Han
Since the first report of a genome-wide association study (GWAS) on human age-related macular degeneration, GWAS has successfully been used to discover genetic variants for a variety of complex human diseases and/or traits, and thousands of associated loci have been identified. However, the underlying mechanisms for these loci remain largely unknown. To make these GWAS findings more useful, it is necessary to perform in-depth data mining. The data analysis in the post-GWAS era will include the following aspects: fine-mapping of susceptibility regions to identify susceptibility genes for elucidating the biological mechanism of action; joint analysis of susceptibility genes in different diseases; integration of GWAS, transcriptome, and epigenetic data to analyze expression and methylation quantitative trait loci at the whole-genome level, and find single-nucleotide polymorphisms that influence gene expression and DNA methylation; genome-wide association analysis of disease-related DNA copy number variations...
December 2016: Chronic Dis Transl Med
https://www.readbyqxmd.com/read/29056394/strategically-acquired-gradient-echo-stage-imaging-part-i-creating-enhanced-t1-contrast-and-standardized-susceptibility-weighted-imaging-and-quantitative-susceptibility-mapping
#13
Yongsheng Chen, Saifeng Liu, Yu Wang, Yan Kang, E Mark Haacke
PURPOSE: To provide whole brain grey matter (GM) to white matter (WM) contrast enhanced T1W (T1WE) images, multi-echo quantitative susceptibility mapping (QSM), proton density (PD) weighted images, T1 maps, PD maps, susceptibility weighted imaging (SWI), and R2* maps with minimal misregistration in scanning times <5min. METHODS: Strategically acquired gradient echo (STAGE) imaging includes two fully flow compensated double echo gradient echo acquisitions with a resolution of 0...
October 19, 2017: Magnetic Resonance Imaging
https://www.readbyqxmd.com/read/29051208/redefining-the-pulvinar-sign-in-fabry-disease
#14
S Cocozza, C Russo, A Pisani, G Olivo, E Riccio, A Cervo, G Pontillo, S Feriozzi, M Veroux, Y Battaglia, D Concolino, F Pieruzzi, R Mignani, P Borrelli, M Imbriaco, A Brunetti, E Tedeschi, G Palma
BACKGROUND AND PURPOSE: The pulvinar sign refers to exclusive T1WI hyperintensity of the lateral pulvinar. Long considered a common sign of Fabry disease, the pulvinar sign has been reported in many pathologic conditions. The exact incidence of the pulvinar sign has never been tested in representative cohorts of patients with Fabry disease. The aim of this study was to assess the prevalence of the pulvinar sign in Fabry disease by analyzing T1WI in a large Fabry disease cohort, determining whether relaxometry changes could be detected in this region independent of the pulvinar sign positivity...
October 19, 2017: AJNR. American Journal of Neuroradiology
https://www.readbyqxmd.com/read/29044887/quantitative-mapping-of-genetic-similarity-in-human-heritable-diseases-by-shared-mutations
#15
Huiying Zhao, Yuedong Yang, Yutong Lu, Matthew Mort, David N Cooper, Zhiyi Zuo, Yaoqi Zhou
Many genetic diseases exhibit considerable epidemiological comorbidity and common symptoms, which provokes debate about the extent of their etiological overlap. The rapid growth in the number of known disease-causing mutations in the Human Gene Mutation Database (HGMD) has allowed us to characterise genetic similarities between diseases by ascertaining the extent to which identical genetic mutations are shared between diseases. Using this approach, we show that 41.6% of disease pairs in all possible pairs (42, 083) exhibit a significant sharing of mutations (P-value < 0...
October 17, 2017: Human Mutation
https://www.readbyqxmd.com/read/29033965/novel-alleles-of-two-tightly-linked-genes-encoding-polygalacturonase-inhibiting-proteins-vrpgip1-and-vrpgip2-associated-with-the-br-locus-that-confer-bruchid-callosobruchus-spp-resistance-to-mungbean-vigna-radiata-accession-v2709
#16
Anochar Kaewwongwal, Jingbin Chen, Prakit Somta, Alisa Kongjaimun, Tarika Yimram, Xin Chen, Peerasak Srinives
Nearly all mungbean cultivars are completely susceptible to seed bruchids (Callosobruchus chinensis and Callosobruchus maculatus). Breeding bruchid-resistant mungbean is a major goal in mungbean breeding programs. Recently, we demonstrated in mungbean (Vigna radiata) accession V2802 that VrPGIP2, which encodes a polygalacturonase inhibiting protein (PGIP), is the Br locus responsible for resistance to C. chinensis and C. maculatus. In this study, mapping in mungbean accession V2709 using a BC11F2 population of 355 individuals revealed that a single major quantitative trait locus, which controlled resistance to both C...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29031721/cdkal1-a-type-2-diabetes-susceptibility-gene-regulates-mitochondrial-function-in-adipose-tissue
#17
Colin J Palmer, Raphael J Bruckner, Joao A Paulo, Lawrence Kazak, Jonathan Z Long, Amir I Mina, Zhaoming Deng, Katherine B LeClair, Jessica A Hall, Shangyu Hong, Peter-James H Zushin, Kyle L Smith, Steven P Gygi, Susan Hagen, David E Cohen, Alexander S Banks
OBJECTIVES: Understanding how loci identified by genome wide association studies (GWAS) contribute to pathogenesis requires new mechanistic insights. Variants within CDKAL1 are strongly linked to an increased risk of developing type 2 diabetes and obesity. Investigations in mouse models have focused on the function of Cdkal1 as a tRNA(Lys) modifier and downstream effects of Cdkal1 loss on pro-insulin translational fidelity in pancreatic β-cells. However, Cdkal1 is broadly expressed in other metabolically relevant tissues, including adipose tissue...
October 2017: Molecular Metabolism
https://www.readbyqxmd.com/read/29030748/neuroimaging-of-cavernous-malformations
#18
REVIEW
Maxim Mokin, Siviero Agazzi, Lowell Dawson, Christopher T Primiani
PURPOSE OF REVIEW: Cerebral cavernous malformations (CCMs) are common vascular abnormalities often discovered on imaging as an incidental finding. The most common clinical presentations of CCMs include seizure, headache, focal neurological deficits, and intracranial hemorrhage. This article discusses the most recent guidelines including imaging diagnostic criteria and radiographic standards of CCMs and reviews the utility of currently available imaging techniques. RECENT FINDINGS: Gradient echo T2*-weighted imaging and susceptibility-weighted imaging are the recommended imaging protocols for evaluation of suspected CCMs...
October 13, 2017: Current Pain and Headache Reports
https://www.readbyqxmd.com/read/29023982/medi-0-morphology-enabled-dipole-inversion-with-automatic-uniform-cerebrospinal-fluid-zero-reference-for-quantitative-susceptibility-mapping
#19
Zhe Liu, Pascal Spincemaille, Yihao Yao, Yan Zhang, Yi Wang
PURPOSE: To develop a quantitative susceptibility mapping (QSM) method with a consistent zero reference using minimal variation in cerebrospinal fluid (CSF) susceptibility. THEORY AND METHODS: The ventricular CSF was automatically segmented on the R2* map. An L2 -regularization was used to enforce CSF susceptibility homogeneity within the segmented region, with the averaged CSF susceptibility as the zero reference. This regularization for CSF homogeneity was added to the model used in a prior QSM method (morphology enabled dipole inversion [MEDI])...
October 11, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/29021798/qtls-and-potential-candidate-genes-for-heat-stress-tolerance-identified-from-the-mapping-populations-specifically-segregating-for-fv-fm-in-wheat
#20
Dew Kumari Sharma, Anna Maria Torp, Eva Rosenqvist, Carl-Otto Ottosen, Sven B Andersen
Despite the fact that Fv/Fm (maximum quantum efficiency of photosystem II) is the most widely used parameter for a rapid non-destructive measure of stress detection in plants, there are barely any studies on the genetic understanding of this trait under heat stress. Our aim was to identify quantitative trait locus (QTL) and the potential candidate genes linked to Fv/Fm for improved photosynthesis under heat stress in wheat (Triticum aestivum L.). Three bi-parental F2 mapping populations were generated by crossing three heat tolerant male parents (origin: Afghanistan and Pakistan) selected for high Fv/Fm with a common heat susceptible female parent (origin: Germany) selected for lowest Fv/Fm out of a pool of 1274 wheat cultivars of diverse geographic origin...
2017: Frontiers in Plant Science
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