Direct Selection of Fluorescence-Enhancing RNA Aptamers

2018 ◽  
Vol 140 (10) ◽  
pp. 3583-3591 ◽  
Author(s):  
Michael Gotrik ◽  
Gurpreet Sekhon ◽  
Saumya Saurabh ◽  
Margaret Nakamoto ◽  
Michael Eisenstein ◽  
...  
Keyword(s):  
Rna Aptamers ◽  
Direct Selection ◽  
Fluorescence Enhancing ◽  
Selection Of

Evaluation of Large-Sunflower Lines of Sunflower on Quantitative Morphological Traits

2020 ◽  
pp. 46-55
Keyword(s):  
Fertility Restoration ◽  
Morphological Characters ◽  
Direct Selection ◽  
Oilseed Crops ◽  
Turkish Origin ◽  
Self Pollination ◽  
Special Area ◽  
Pericarp Color ◽  
Selection For ◽  
Selection Of

Confectionery sunflower - a special area of use of sunflower, which requires the creation of marketable seeds quality features. One of the possible ways to create large-fruited sunflower is to create production hybrids and lines. Objective: to evaluate the created new large-fruited sunflower lines by a complex of morphological characters and determine the best lines for use as large-seeds hybrids as parent components or source material. In 2016-2019 years on the basis of the Institute of Oilseed Crops NAAS a study was conducted to assess the economic characteristics of large-fruited sunflower lines. We studied a collection of 27 lines of large-seeds sources. The lines were created by direct selection or crossing and sampling: Reyny of Argentinean origin, Zaporizhzhya confectionery variety, confectionery hybrid with striped pericarp color of Israeli origin, white seed of Turkish origin, synthetic population - donor of complex resistance. To study from the collection, lines were drawn that went through at least 7 generations with selection for seed size. Experience has shown that the shortest growing season for lines 174d and KP11 was 99 days, and the longest for lines I2K670 was 109 days. In the studied collection, the greatest mass of 1000 seeds has the KP11-146.47g line, which is the mother component and does not have branching. The second by weight of 1000 seeds (109 g) stood out line 168v, which also had branches and pollen fertility restoration genes and will be used as the paternal form. The third largest is also one basket line ZKN51-100. The collection included lines originating from the same combination, but with a different morphotype for the presence and absence of branching. So, based on the combination of KP11 x Zaporizhzhya Confectionery, three lines were obtained. A mass of 1000 seeds was observed in 98-86 g, with the branching line having the largest mass of 1000 seeds. The lines created with one combination VK678 x ZKN32: with a branch 168a had a mass of 1000 seeds 95g, and a line 168b - without a branch 109 g. Of the two lines obtained from the descendants of the combination KP11 x the striped hybrid both had branches, but the seeds were much smaller (weight of 1000 seeds 59 and 79 g). The collection also studied samples created on the basis of varieties and populations 160c, 174, 175b, the mass of 1000 seeds of which turned out to be more acceptable for large-fruited use from 83 to 99 g. Summing up the results of studying the collection of newly created lines, we can highlight the lines 162d, 168v, 175b, KP11 that are potentially promising for use in hybrids. The selections showed that large-fruited lines can be obtained from large-fruited varieties, self-pollination of large-fruited hybrids and crossing lines with hybrids and varieties. Self-pollination and selection of large-fruited lines in several generations does not provide the necessary variability for positive changes in selections. The result of the selection by weight of 1000 seeds in the offspring from crosses and from populations creates opportunities for new large-seeds sunflower.

FEATURES OF ORGANOPHOSPHATES IMMOBILIZATION VIA STREPTAVIDIN-BIOTIN SYSTEM FOR EXPERIMENTS ON SELECTION OF APTAMERS

2020 ◽  
pp. 12-20
Author(s):  
D. A. Belinskaya ◽  
Yu. V. Chelusnova ◽  
V. V. Abzianidze ◽  
N. V. Goncharov
Keyword(s):  
Polyethylene Glycol ◽  
Organophosphorus Compounds ◽  
Binding Energies ◽  
Rna Aptamers ◽  
Main Method ◽  
Modeling Methods ◽  
Molecular Dynamics Methods ◽  
Systematic Evolution ◽  
Exponential Enrichment ◽  
Selection Of

Poisoning with organophosphorus compounds occupy one of the leading places in exotoxicosis. At the first stage, the detoxification of organophosphates can be provided with the help of DNA or RNA aptamers that bind the poison in the bloodstream. Currently, the main method of searching for aptamers is the experimental method of systematic evolution of ligands by exponential enrichment (SELEX). In the process of aptamer selection, the target molecule must be immobilized via the streptavidin-biotin complex. Since the poison molecule is small in size, to increase its availability for binding to aptamer, it is necessary to use a spacer between organophosphorus compounds and biotin. The aim of this work was to optimize the selection of aptamers for organophosphorus compounds by increasing the availability of a poison molecule immobilized via the streptavidin-biotin complex on the example of paraoxon. For this purpose, three spacers between organophosphorus compounds and biotin were tested using molecular modeling methods: three links of polyethylene glycol (3-PEG), four links of polyethylene glycol (4-PEG) and aminohexyl. The conformation of the biotinylated paraoxon complex with streptavidin and the interaction of paraoxon with the binding fragment of the aptamer were modeled using molecular docking and molecular dynamics methods. The ability of biotinylated paraoxon to bind to the aptamer has been evaluated by analyzing the surface area of the paraoxon available to the solvent, as well as by calculating the free binding energies. It has been shown that only in the case of aminohexyl immobilized paraoxon can contact the aptamer. At the final stage, the synthesis of paraoxon bound to biotin via aminohexyl was carried out.

scholarly journals Positive Selection of Novel Peroxisome Biogenesis-Defective Mutants of the Yeast Pichia pastoris

Genetics ◽  
1999 ◽  
Vol 151 (4) ◽  
pp. 1379-1391
Author(s):  
Monique A Johnson ◽  
Hans R Waterham ◽  
Galyna P Ksheminska ◽  
Liubov R Fayura ◽  
Joan Lin Cereghino ◽  
...  
Keyword(s):  
Pichia Pastoris ◽  
Allyl Alcohol ◽  
Alcohol Oxidase ◽  
Methylotrophic Yeast ◽  
Direct Selection ◽  
Toxic Exposure ◽  
Peroxisome Biogenesis ◽  
Yeast Pichia Pastoris ◽  
Methylotrophic Yeast Pichia Pastoris ◽  
Selection Of

Abstract We have developed two novel schemes for the direct selection of peroxisome-biogenesis-defective (pex) mutants of the methylotrophic yeast Pichia pastoris. Both schemes take advantage of our observation that methanol-induced pex mutants contain little or no alcohol oxidase (AOX) activity. AOX is a peroxisomal matrix enzyme that catalyzes the first step in the methanol-utilization pathway. One scheme utilizes allyl alcohol, a compound that is not toxic to cells but is oxidized by AOX to acrolein, a compound that is toxic. Exposure of mutagenized populations of AOX-induced cells to allyl alcohol selectively kills AOX-containing cells. However, pex mutants without AOX are able to grow. The second scheme utilizes a P. pastoris strain that is defective in formaldehyde dehydrogenase (FLD), a methanol pathway enzyme required to metabolize formaldehyde, the product of AOX. AOX-induced cells of fld1 strains are sensitive to methanol because of the accumulation of formaldehyde. However, fld1 pex mutants, with little active AOX, do not efficiently oxidize methanol to formaldehyde and therefore are not sensitive to methanol. Using these selections, new pex mutant alleles in previously identified PEX genes have been isolated along with mutants in three previously unidentified PEX groups.

scholarly journals Selection strategies in agronomic characters in progenies F3:4 of transgenic soy RR

2021 ◽  
Vol 45 ◽  
Author(s):  
Anna Regina Tiago Carneiro ◽  
Osvaldo Toshiyuki Hamawaki ◽  
Ana Paula Oliveira Nogueira ◽  
Arthur Felipe Eustáquio e Silva ◽  
Raphael Lemes Hamawaki ◽  
...  
Keyword(s):  
Agronomic Traits ◽  
Indirect Selection ◽  
Direct Selection ◽  
Selection Strategies ◽  
Aggregate Information ◽  
Genetic Potential ◽  
Superior Genotypes ◽  
Selection Indexes ◽  
Total Gain ◽  
Selection Of

ABSTRACT The selection indexes aggregate information to multiple characters and, with this, they are able to carry out the selection of a set of variables simultaneously. The objective was to verify the genetic potential of agronomic traits and to select soybean F3:4 progenies based on different selection strategies. 123 progenies and the parents were sown in randomized blocks with two replications. The gains of direct selection by the indexes, the sum of “ranks” and the genotype-ideotype were lower for all characters when compared to the gains of direct and indirect selection. The rank sum index stood out for achieving the highest total gain with 37.11%. The index of the genotype-ideotype obtained a lower gain (-0.48%) for the character number of days for flowering compared to the sum index of “ranks” (-0.54%) and reached a negative gain for the attribute insertion height of the first pod with -1.82%. The genetic potential of the F3:4 population is high and allows different selection strategies to be applied to reach superior genotypes. The progenies UFU 72, UFU 116, UFU 86, UFU 45, UFU 117, UFU 56, UFU 5, UFU 106, UFU 6, UFU 4, UFU 73, UFU 101, UFU 96, UFU 90, UFU 123, UFU 116, UFU 88, UFU 65, UFU 70, UFU 3, UFU 69 and UFU 37 were selected by both selection indexes. The UFU 72, UFU 90, UFU 88 and UFU 69 progenies are agronomically superior both in direct and indirect selection, as in Mulamba and Mock (1978) sum of “ranks” selections and genotype-ideotype.

scholarly journals Integral approach of assessment of interaction level of stakeholders of construction enterprises

2021 ◽  
Vol 8 (11) ◽  
pp. 44-49
Author(s):  
Marusheva et al. ◽  
Keyword(s):  
Integrated System ◽  
Integral Approach ◽  
Direct Selection ◽  
Expert Assessment ◽  
Monitoring And Control ◽  
Construction Enterprise ◽  
Construction Enterprises ◽  
Integral Assessment ◽  
And Control ◽  
Selection Of

This article is devoted to issues of interaction of stakeholders of construction enterprises. First of all, the peculiarities of the construction industry are defined, which form additional requirements for the development of an integrated system for assessing interaction with stakeholders. Second, approaches to the formation of a register of potential stakeholders have been identified. A template for analysis has been developed, and individual examples are grouped by interaction directions. The methodology of identifying potential stakeholders by means of a three-level process of applying different versions of expert assessment methods in order to minimize their negative factor – subjectivity, is proposed. Methods of direct selection of experts and algorithms of their assessment are defined. Proposals to rank stakeholders according to their priority and potential result from their interaction with the construction enterprise have been developed. According to the integral assessment, ways of controlling the processes of interaction with stakeholders of different ranking levels are proposed, recommendations for building a further strategy for managing these processes are given. A system of modeling interaction between construction enterprises and stakeholders to ensure planning, organization, monitoring, and control processes in optimistic, realistic, and pessimistic scenarios has been created. Recommendations for further use of the methodology of integral assessment of the interaction of stakeholders of construction enterprises in practice are given.

Validation of a stable recombinant antibodies repertoire for the direct selection of functional intracellular reagents

2008 ◽  
Vol 329 (1-2) ◽  
pp. 11-20 ◽  
Author(s):  
Maria Elena Villani ◽  
Mariasole Di Carli ◽  
Marcello Donini ◽  
Giorgio Traversini ◽  
Chiara Lico ◽  
...  
Keyword(s):  
Recombinant Antibodies ◽  
Direct Selection ◽  
Selection Of

Problems of amenity grass seed production in New Zealand

1980 ◽  
Vol 1 ◽  
pp. 26-30
Author(s):  
L. Corkill ◽  
W. Rumball
Keyword(s):  
New Zealand ◽  
The Netherlands ◽  
Seed Production ◽  
Direct Selection ◽  
Usual Practice ◽  
Grass Seed ◽  
Breeding Management ◽  
Selection For ◽  
Seed Yields ◽  
Selection Of

The problems of seed production of amenity grasses in New Zealand are considered from two aspects - (a) increasing seed potential by breeding; (b) achieving that potential by good management as practised in the Netherlands, (a) In terms of breeding, the strategies to increase seed yield depended to some degree on the species concerned. With browntop it was necessary to discard about two-thirds of the most promising genotypes because of poor heading, but the remaining genotypes flowered freely and in unison, and gave good seed yields. With fescue even the best original plants were sparsely heading, so direct selection for prolificacy has been needed. This was also carried out for perennial ryegrass, as well as selection of early-heading genotypes to avoid infection by stem rust. (b) It is suggested that areas for seed of amenity grasses in New Zealand should be used for seed production only rather than for both forage and seed as is the usual practice. Techniques used in the Netherlands could serve as guidelines to procedures. The implications of low seeding rates, good weed control, high fertilizer applications and minimum cutting or grazing in promoting strong individual plants capable of high seed yields are discussed. Keywords: Amenity grass, seed production, New Zealand, breeding, management, Netherlands, Agrostis tenuis, Festuca rubra, Lolium perenne

scholarly journals Evolution of Microbial Growth Traits Under Serial Dilution

Genetics ◽  
2020 ◽  
Vol 215 (3) ◽  
pp. 767-777
Author(s):  
Jie Lin ◽  
Michael Manhart ◽  
Ariel Amir
Keyword(s):  
Growth Rate ◽  
Growth Traits ◽  
Lag Time ◽  
Microbial Evolution ◽  
Serial Dilution ◽  
Direct Selection ◽  
Dilution Factor ◽  
Beneficial Mutation ◽  
Experimental Parameters ◽  
Selection Of

Selection of mutants in a microbial population depends on multiple cellular traits. In serial-dilution evolution experiments, three key traits are the lag time when transitioning from starvation to growth, the exponential growth rate, and the yield (number of cells per unit resource). Here, we investigate how these traits evolve in laboratory evolution experiments using a minimal model of population dynamics, where the only interaction between cells is competition for a single limiting resource. We find that the fixation probability of a beneficial mutation depends on a linear combination of its growth rate and lag time relative to its immediate ancestor, even under clonal interference. The relative selective pressure on growth rate and lag time is set by the dilution factor; a larger dilution factor favors the adaptation of growth rate over the adaptation of lag time. The model shows that yield, however, is under no direct selection. We also show how the adaptation speeds of growth and lag depend on experimental parameters and the underlying supply of mutations. Finally, we investigate the evolution of covariation between these traits across populations, which reveals that the population growth rate and lag time can evolve a nonzero correlation even if mutations have uncorrelated effects on the two traits. Altogether these results provide useful guidance to future experiments on microbial evolution.

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