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Accuracy of genomic selection in biparental populations of flax(Linum usitatissimum L.)

The Crop Journal 2016年第4期4卷 290-303页

作者： Frank M.You Helen M.Booker scott d.duguid Gaofeng Jia Sylvie Cloutier Morden Research and development Centre Agriculture and Agri-Food Canada Crop development Centre Department of Plant Sciences University of Saskatchewan Ottawa Research and development Centre Agriculture and Agri-Food Canada

Flax is an important economic crop for seed oil and stem fiber. Phenotyping of traits such as seed yield, seed quality, stem fiber yield, and quality characteristics is expensive and time consuming. Genomic selection(GS) refers to a breeding approach aimed at selecting preferred individuals based on genomic estimated breeding values predicted by a statistical model based on the relationship between phenotypes and genome-wide genetic markers. We evaluated the prediction accuracy of GS(rMP) and the efficiency of GS relative to phenotypic selection(RE) for three GS models: ridge regression best linear unbiased prediction(RR-BLUP),Bayesian LASSO(BL), and Bayesian ridge regression(BRR), for seed yield, oil content, iodine value, linoleic, and linolenic acid content with a full and a common set of genome-wide simple sequence repeat markers in each of three biparental populations. The three GS models generated similar rMPand RE, while BRR displayed a higher coefficient of determination(R^2)of the fitted models than did RR-BLUP or BL. The mean rMPand RE varied for traits with different heritabilities and was affected by the genetic variation of the traits in the *** for seed yield generated a mean RE of 1.52 across populations and marker sets, a value significantly superior to that for direct phenotypic selection. Our empirical results provide the first validation of GS in flax and demonstrate that GS could increase genetic gain per unit time for linseed breeding. Further studies for selection of training populations and markers are warranted.

关键词： Genomic selection SSR Flax Linseed Seed yield Fatty acid composition

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Genomic regions underlying agronomic traits in linseed(Linum usitatissimum L.) as revealed by association mapping

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Journal of Integrative Plant Biology 2014年第1期56卷 75-87页

作者： Braulio J.Soto-Cerda scott duguid Helen Booker Gordon Rowland Axel diederichsen Sylvie Cloutier department of Plant Science University of Manitoba 66 Dafoe Road Cereal Research Center Agriculture and Agri-Food Canada 195 Dafoe Road Morden Research Station Agriculture and Agri-Food Canada 101 Route 100 Unit 100 Morden department of Plant Sciences College of Agriculture and Bioresources University of Saskatchewan 51 Campus Drive Plant Gene Resources of Canada Agriculture and Agri-Food Canada 107 Science Place

The extreme climate of the Canadian Prairies poses a major chal enge to improve yield. Although it is possible to breed for yield per se, focusing on yield-related traits could be advantageous because of their simpler genetic architecture. The Canadian flax core col ection of 390 accessions was genotyped with 464 simple sequence repeat markers, and phenotypic data for nine agronomic traits including yield, bol s per area, 1,000 seed weight, seeds per bol , start of flowering, end of flowering, plant height, plant branching, and lodging col ected from up to eight environments was used for association mapping. Based on a mixed model （principal component analysis （PCA） t kinship matrix （K））, 12 significant marker-trait associations for six agronomic traits were identi-fied. Most of the associations were stable across environments as revealed by multivariate analyses. Statistical simulation for five markers associated with 1000 seed weight indicated that the favorable al eles have additive effects. None of the modern cultivars carried the five favorable al eles and the maximum number of four observed in any accessions was mostly in＆amp;nbsp;breeding lines. Our results confirmed the complex genetic architecture of yield-related traits and the inherent difficulties associated with their identification while il ustrating the potential for improvement through marker-assisted selection.

关键词： Linum usitatissimum marker-assisted selection

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Estimation of genetic parameters and their sampling variances for quantitative traits in the type 2 modified augmented design

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The Crop Journal 2016年第2期4卷 107-118页

作者： Frank M.You Qijian Song Gaofeng Jia Yanzhao Cheng scott duguid Helen Booker Sylvie Cloutier Morden Research and development Centre Agriculture and Agri-Food Canada Soybean Genomics and Improvement Laboratory USDA-ARS Crop development Centre University of Saskatchewan Ottawa Research and development Centre Agriculture and Agri-Food Canada

The type 2 modified augmented design(MAd2) is an efficient unreplicated experimental design used for evaluating large numbers of lines in plant breeding and for assessing genetic variation in a population. Statistical methods and data adjustment for soil heterogeneity have been previously described for this design. In the absence of replicated test genotypes in MAd2, their total variance cannot be partitioned into genetic and error components as required to estimate heritability and genetic correlation of quantitative traits, the two conventional genetic parameters used for breeding selection. We propose a method of estimating the error variance of unreplicated genotypes that uses replicated controls, and then of estimating the genetic parameters. Using the delta method, we also derived formulas for estimating the sampling variances of the genetic *** simulations indicated that the proposed method for estimating genetic parameters and their sampling variances was feasible and the reliability of the estimates was positively associated with the level of heritability of the trait. A case study of estimating the genetic parameters of three quantitative traits, iodine value, oil content, and linolenic acid content, in a biparental recombinant inbred line population of flax with 243 individuals, was conducted using our statistical models. A joint analysis of data over multiple years and sites was suggested for genetic parameter estimation. A pipeline module using SAS and Perl was developed to facilitate data analysis and appended to the previously developed MAd data analysis pipeline(http://***/bioinformatics_ tools/MAdPipeline/***).

关键词： Broad-sense heritability Genetic correlation Sampling variance Modified augmented design

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Annual-perennial plant relationships and species selection for desert restoration

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Journal of Arid Land 2013年第3期5卷 298-309页

作者： scott R ABELLA Stanley d SMITH department of Environmental and Occupational Health University of Nevada Las VegasLas VegasNevada 89154-3064USA School of Life Sciences University of Nevada Las VegasLas VegasNevada 89154-4004USA

Exotic plant invasion is a growing concern in the conservation and management of indigenous arid land ecosystems. By creating areas of ameliorated microclimates and fertile soil below their canopies, perennial plants might influence exotic annual plant invasions. We conducted a quantitative literature review of studies that compared exotic annual plant abundance among native perennial plant species and interspace （open areas） microsites in North America＇s Mojave desert, where exotic plant invasion has corresponded with increasing extent of wildfire and broad-scale ecosystem transformation. Ten studies compared exotic annual plant abundance between inter- spaces and below a total of 36 native perennial species. These studies revealed that：（1） With few exceptions, most native perennial species supported a greater abundance of exotic annuals than interspaces, indicating overall facilitation of exotic species by native perennials. （2） Exotic species abundance varied by orders of magnitude among native perennial species, with some perennial species harboring amounts of exotics similar to interspaces. （3） distributions of dominant exotic species varied, where Bromus rubens displayed a greater affinity for below-perennial microsites than did Schismus spp. and Erodium cicutarium that often were most abundant in interspaces. Results suggest that the degree of facilitation of exotic plants warrants consideration when selecting native perennial species for revegetation and restoration projects.

关键词： Bromus rubens exotic fertile island invasive nurse plant positive plant interaction Schismus

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Modelling sulphate-enhanced cadmium uptake by Zea mays from nutrient solution under conditions of constant free Cd^(2+) ion activity

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Journal of Environmental Sciences 2010年第7期22卷 1080-1085页

作者： Ulrico J.López-Chuken scott d.Young division of Environmental Sciences School of ChemistryUniversidad Autónoma de Nuevo León division of Agricultural & Environmental Sciences School of Biosciencesthe University of Nottingham

A controlled hydroponic experiment was undertaken to investigate Cd uptake in relation to the activity of Cd species in solution other than the free ion （Cd^2＋） by maintaining a constant Cd^2＋ activity under variable SO4^2- and Cl^- concentrations exposed to maize （Zea mays vat. Cameron） plants. The objectives of these experiments were：（1） to distinguish and quantify the different uptake rates of free and inorganic-complexed Cd from nutrient solution, and （2） to model the uptake of Cd by maize with a Biotic Ligand Model （BLM） in a system which facilitates the close examination of root characteristics. Results of the current experiments suggest that, in addition to the free ion, CdSO4^0 complexes are important factors in determining Cd uptake in nutrient solution by maize plants. Higher nominal SO4^2- concentrations in solution generally resulted in a greater Cd accumulation by maize plants than predicted by the Cd^2＋ activity. A better integration of the complete dataset for the 3 harvest times （6, 9 and 11 days after treatment） was achieved by including consideration of both the duration of Cd exposure and especially the root surface area to express Cd uptake. Similarly, the fit of the BLM was also improved when taking into account exposure time and expressing uptake in terms of root morphological parameters.

关键词： free ion activity model biotic ligand model root surface area Cd complexation metal exposure time hydroponics plant uptake

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double-sided subduction with contrasting polarities beneath the Pamir-Hindu Kush:Evidence from focal mechanism solutions and stress field inversion

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Geoscience Frontiers 2022年第4期13卷 98-113页

作者： Yu Yang Zuoxun Zeng scott d.King Xiao Shuang School of Earth Sciences China University of Geosciences(Wuhan)Wuhan 430074China Huazhong Tectonomechanical Research Center China University of Geosciences(Wuhan)Wuhan 430074China department of Geosciences Virginia TechBlacksburgVA 24061USA Fuyang Branch of Hangzhou Bureau of Planning and Natural Resources Hangzhou 311499China

The Pamir-Hindu Kush region at the western end of the Himalayan-Tibet orogen is one of the most active regions on the globe with strong seismicity and deformation and provides a window to evaluate continental collision linked to two intra-continental subduction zones with different *** seismicity and seismic tomography data show a steep northward subducting slab beneath the Hindu Kush and southward subducting slab under the ***,we collect seismic catalogue with 3988 earthquake events to compute seismicity images and waveform data from 926 earthquake events to invert focal mechanism solutions and stress field with a view to characterize the subducting slabs under the Pamir-Hindu Kush *** results define two distinct seismic zones:a steep one beneath the Hindu Kush and a broad one beneath the *** and intermediate-depth earthquakes are mainly distributed in the Hindu Kush region which is controlled by thrust faulting,whereas the Pamir is dominated by strike-slip stress regime with shallow and intermediate-depth *** area where the maximum principal stress axis is vertical in the southern Pamir corresponds to the location of a highconductivity low-velocity region that contributes to the seismogenic processes in this *** interpret the two distinct seismic zones to represent a double-sided subduction system where the Hindu Kush zone represents the northward subduction of the Indian plate,and the Pamir zone shows southward subduction of the Eurasian plate.A transition fault is inferred in the region between the Hindu Kush and the Pamir which regulates the opposing directions of motion of the Indian and Eurasian plates.

关键词： Pamir-Hindu Kush Seismicity Stress field double-sided subduction Low-velocity body

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Immunocamouflage of latex surfaces by grafted methoxypoly(ethylene glycol)(mPEG):Proteomic analysis of plasma protein adsorption

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Science China(Life Sciences) 2012年第3期55卷 191-201页

作者： LE Yevgeniya LI Li WANG dunCheng scott Mark d Canadian Blood Services Vancouver V6T 1Z3 Canada Centre for Blood Research University of British Columbia Vancouver V6T 1Z3 Canada department of Pathology and Laboratory Medicine University of British Columbia Vancouver V6T 1Z3 Canada

Grafting of methoxypoly(ethylene glycol)(mPEG) to cells and biomaterials is a promising non-pharmacological immunomodulation ***,due to the labile nature of cells,surface-plasma interactions are poorly understood;hence,a latex bead model was *** of beads resulted in a density and molecular weight dependent decrease in total adsorbed protein with a net reduction from(159.9±6.4) ng cm-2 on bare latex to(18.4±0.8) and(52.3±5.3) ng cm-2 on PEGylated beads(1 mmol L-1 of 2 or 20 kd SCmPEG,respectively).SdS-PAGE and iTRAQ-MS analysis revealed differential compositions of the adsorbed protein layer on the PEGylated latex with a significant reduction in the compositional abundance of proteins involved in immune system ***,the biological efficacy of immunocamouflaged cells and materials is mediated by both biophysical obfuscation of antigens and reduced surface-macromolecule interactions.

关键词： PEGylation immunocamouflage iTRAQ mass spectrometry polystyrene latex protein adsorption proteomics meth-oxypoly(ethylene glycol) polymer

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Early Hearing detection and Intervention in the United States: Achievements and Challenges in the 21^(st) Century

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China CdC weekly 2020年第21期2卷 378-382页

作者： Xidong deng Marcus Gaffney scott d.Grosse National Center on Birth defects and developmental disabilities Centers for Disease Control and PreventionAtlantaGAUnited States

INTROdUCTION Congenital hearing loss affects approximately two infants per 1,000 live births in the United States(USA),making it one of the nation’s most common developmental disabilities(1).When left undetected,permanent congenital hearing loss can negatively impact children through delays in their speech,language,social,and emotional development(2).Children who are identified as deaf or hard of hearing(d/HH)should begin receiving intervention services as early as possible to help mitigate the potential adverse effects(3).

关键词： Achievements Challenges emotional

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Glomus tumor of uncertain malignant potential of the brachial plexus: A case report

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World Journal of Clinical Cases 2019年第18期7卷 2815-2822页

作者： Pichaya Thanindratarn Thanapon Chobpenthai Termphong Phorkhar scott d Nelson department of Orthopedic Surgery Chulabhorn hospitalHRH Princess Chulabhorn College of Medical ScienceChulabhorn Royal AcademyLak SiBangkok 10210Thailand department of Orthopedic Surgery Sarcoma Biology LaboratoryDavid Geffen School of MedicineUniversity of CaliforniaLos AngelesCA 90024United States department of Pathology University of CaliforniaLos AngelesCA 90404United States

BACKGROUNd Glomus tumor is an uncommon benign tumor usually presenting with a small mass occurring in the dermis or soft tissue of an extremity, especially subungual region. However, intraneural glomus tumor is sporadic. While most of the glomus tumors are benign, atypical glomus tumors with unusual features can be occasionally found, leading to distinctive malignant potential required different therapeutic approaches. Glomus tumor of uncertain malignant potential is one type of atypical glomus tumor with limited criteria for malignancy and without metastasis. CASE SUMMARY Herein, we report a case of a 48-year-old Thai male with a large painful mass in his axilla for one year without apparent neurological deficit. Magnetic resonance imaging showed a large heterogeneous mass encasing entire posterior cord of left brachial plexus and axillary artery. The tumor tissue from core needle biopsy histologically demonstrated the sheets and cords of relatively uniform tumor cells with foamy cytoplasm and round to oval hyperchromatic nuclei without atypia. The mitotic count was 0 per 50 high power field. A final diagnosis of glomus tumor of uncertain malignant potential was rendered. Complete surgical resection was performed, followed by adjuvant radiation due to positive margin. Neither local recurrence nor distant metastasis was observed at 2-year follow up. Unfortunately, postoperative incomplete brachial plexopathy without signs of reinnervation by electromyography was persisted. Later nerve grafting reconstruction was performed, followed by ongoing neurological rehabilitation. CONCLUSION Glomus tumor of uncertain malignant potential is exceedingly rare, especially around brachial plexus. Although the prognosis is good, careful histological diagnosis and treatment are needed to achieve an optimal outcome with lower morbidity.

关键词： Glomus tumor Glomus tumor of uncertain malignant potential Brachial plexus Case report

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Are trends in SeaWiFS chlorophyll time-series unusual relative to historic variability

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Acta Oceanologica Sinica 2010年第2期29卷 1-4页

作者： James A Yoder Maureen A Kennelly scott C doney Ivan d Lima Woods Hole Oceanographic Institution Woods Hole MA 02540 USA Graduate School of Oceanography University of Rhode Island Narragansett RI 02882 USA

For selected locations in the Atlantic and Pacific Ocean, we compared surface ocean chlorophyll time series extracted from SeaWiFS imagery from 1997-2004 with the results of an ocean coupled circulation and biogeochemical model covering the period 1958-2004. during the 1997-2004 time period, linear trends in model and satellite time series were significantly correlated at most of the 44 sites we studied. Eleven sites were selected for further study, and we used the longer time series of the model to assess whether trends observed during the SeaWiFS period at these 11 sites were unusual in relation to those observed over the longer historical period covered by the model. The results show that the trends observed during the SeaWiFS period were not unusual and fell well within the range in magnitude of linear trends observed in other 8-year periods of model output. This result implies that the SeaWiFS satellite ocean color time series is not yet sufficiently long, on its own, to directly observe any long term changes in phytoplankton chlorophyll that may be occurring in the surface waters of the open ocean as a result of increased ocean stratification linked to global climate changed.

关键词： SeaWiFS trends climate change chlorophyll biogeochemical model ENSO

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