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SNP discovery and applications in Brassica napus

  • Hayward, Alice;Mason, Annaliese S.;Dalton-Morgan, Jessica;Zander, Manuel;Edwards, David;Batley, Jacqueline
    • Journal of Plant Biotechnology
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    • v.39 no.1
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    • pp.49-61
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    • 2012
  • This review summarises the biology, discovery and applications of single nucleotide polymorphisms in complex polyploid crop genomes, with a focus on the important oilseed crop $Brassica$ $napus$. $Brassica$ $napus$ is an allotetraploid species, and along with soybean and oil palm is one of the top three most important oilseed crops globally. Current efforts are well underway to $de$ $novo$ assemble the $B.$ $napus$ genome, following the release of the related $B.$ $rapa$ 'A' genome last year. The next generation of genome sequencing, SNP discovery and analysis pipelines, and the associated challenges for this work in $B.$ $napus$, will be addressed. The biological applications of SNP technology for both evolutionary and molecular geneticists as well as plant breeders and industry are far-reaching, and will be invaluable to our understanding and advancement of the $Brassica$ crop species.

Right Ventricular Strain Is Associated With Increased Length of Stay After Tetralogy of Fallot Repair

  • Ranjini Srinivasan;Jennifer A. Faerber;Grace DeCost;Xuemei Zhang;Michael DiLorenzo;Elizabeth Goldmuntz;Mark Fogel;Laura Mercer-Rosa
    • Journal of Cardiovascular Imaging
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    • v.30 no.1
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    • pp.50-58
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    • 2022
  • BACKGROUND: Little is known regarding right ventricular (RV) remodeling immediately after Tetralogy of Fallot (TOF) repair. We sought to describe myocardial deformation by cardiac magnetic resonance imaging (CMR) after TOF repair and investigate associations between these parameters and early post-operative outcomes. METHODS: Fifteen infants underwent CMR without sedation as part of a prospective pilot study after undergoing complete TOF repair, prior to hospital discharge. RV deformation (strain) was measured using tissue tracking, in addition to RV ejection fraction (EF), volumes, and pulmonary regurgitant fraction. Pearson correlation coefficients were used to determine associations between both strain and CMR measures/clinical outcomes. RESULTS: Most patients were male (11/15, 73%), with median age at TOF repair 53 days (interquartile range, 13,131). Most patients had pulmonary stenosis (vs. atresia) (11/15, 73%) and 7 (47%) received a transannular patch as part of their repair. RV function was overall preserved with mean RV EF of 62% (standard deviation [SD], 9.8). Peak radial and longitudinal strain were overall diminished (mean ± SD, 33.80 ± 18.30% and -15.50 ± 6.40%, respectively). Longer hospital length of stay after TOF repair was associated with worse RV peak radial ventricular strain (correlation coefficient (r), -0.54; p = 0.04). Greater pulmonary regurgitant fraction was associated with shorter time to peak radial RV strain (r = -0.55, p = 0.03). CONCLUSIONS: In this small study, our findings suggest presence of early decrease in RV strain after TOF repair and its association with hospital stay when changes in EF and RV size are not yet apparent.

Genetic Analysis of Flower Color Traits in Calanthe discolor, C. sieboldii, and Variants Using Molecular Linkage Map (연관지도를 이용한 새우난초, 금새우난초, 변이종의 화색의 유전분석)

  • Cho, Dong-Hoon;Chung, Mi-Young;Jee, Sun-Ok;Kim, Chang-Kil;Chung, Jae-Dong;Kim, Kyung-Min
    • Journal of Life Science
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    • v.19 no.9
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    • pp.1239-1244
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    • 2009
  • This study was conducted to clarify the genetic relationship between Calanthe discolor, C. sieboldii and variants, and the cause of flower color variations by using a molecular linkage map and a quantitative trait loci (QTL) analysis for flower and lip color in Calanthe species native to Korea. Twenty plants were included in three C. discolor and three C. sieboldii, and fourteen variants were obtained from their habitat, Jeju-do in Korea. The flowers of C. discolor were brownish red, the values of Commission Internationale de I'Eclairage (CIE) Lab were between 40 and 50. The flowers of C. sieboldii were yellowish, the values of CIE Lab were between 110 and 130. The variants had various mixed colors that were thought to have originated from natural hybridization between C. discolor and C. sieboldii, and the values of CIE Lab were between 50 and 70. The colors of the lips were usually divided into white and yellow. C. discolor had a white lip, C. sieboldii had a yellow one, and the variants had a white to yellow one. The CIE Lab value of each color was 90 in white and 110 to 120 in yellow lips. A molecular linkage mapping was constructed based on the segregation of 154 RAPD markers using a MAPL program. Sixteen linkage groups containing 66 markers were established. It covered a total map distance of 220.4 cM. The distance between adjacent markers ranged from 0 to 6.6 cM, with an average distance of 3.3 cM. These markers are thought to be closely associated with flower and lip color expression. Among the 16 molecular linkage groups, 3 QTLs had flower color trait loci and 1 QTL had lip color trait loci.

A Study on the Computer­Aided Processing of Sentence­Logic Rule (문장논리규칙의 컴퓨터프로세싱을 위한 연구)

  • Kum, Kyo-young;Kim, Jeong-mi
    • Journal of Korean Philosophical Society
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    • v.139
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    • pp.1-21
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    • 2016
  • To quickly and accurately grasp the consistency and the true/false of sentence description, we may require the help of a computer. It is thus necessary to research and quickly and accurately grasp the consistency and the true/false of sentence description by computer processing techniques. This requires research and planning for the whole study, namely a plan for the necessary tables and those of processing, and development of the table of the five logic rules. In future research, it will be necessary to create and develop the table of ten basic inference rules and the eleven kinds of derived inference rules, and it will be necessary to build a DB of those tables and the computer processing of sentence logic using server programming JSP and client programming JAVA over its foundation. In this paper we present the overall research plan in referring to the logic operation table, dividing the logic and inference rules, and preparing the listed process sequentially by dividing the combination of their use. These jobs are shown as a variable table and a symbol table, and in subsequent studies, will input a processing table and will perform the utilization of server programming JSP, client programming JAVA in the construction of subject/predicate part activated DB, and will prove the true/false of a sentence. In considering the table prepared in chapter 2 as a guide, chapter 3 shows the creation and development of the table of the five logic rules, i.e, The Rule of Double Negation, De Morgan's Rule, The Commutative Rule, The Associative Rule, and The Distributive Rule. These five logic rules are used in Propositional Calculus, Sentential Logic Calculus, and Statement Logic Calculus for sentence logic.