scholarly journals Breeding for boron tolerance in lentil (Lens culinaris Medik.) using a high-throughput phenotypic assay and molecular markers

2018 ◽  
Vol 137 (4) ◽  
pp. 492-501 ◽  
Author(s):  
Matthew S. Rodda ◽  
Shimna Sudheesh ◽  
Muhammad Javid ◽  
Dianne Noy ◽  
Annathurai Gnanasambandam ◽  
...  
Keyword(s):  
Molecular Markers ◽  
High Throughput ◽  
Lens Culinaris ◽  
Boron Tolerance ◽  
Phenotypic Assay

scholarly journals Allelic effects and variations for key bread-making quality genes in bread wheat using high-throughput molecular markers

2019 ◽  
Vol 85 ◽  
pp. 305-309 ◽  
Author(s):  
Awais Rasheed ◽  
Hui Jin ◽  
Yonggui Xiao ◽  
Yan Zhang ◽  
Yuanfeng Hao ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Bread Wheat ◽  
High Throughput ◽  
Bread Making

Novel molecular markers for high-throughput sex characterization of Cynoglossus semilaevis

Aquaculture ◽  
2019 ◽  
Vol 513 ◽  
pp. 734331 ◽  
Author(s):  
Bo Zhang ◽  
Na Zhao ◽  
Yangyang Liu ◽  
Lei Jia ◽  
Yan Fu ◽  
...  
Keyword(s):  
Molecular Markers ◽  
High Throughput ◽  
Cynoglossus Semilaevis

scholarly journals Microbial molecular markers and epidemiological surveillance in the era of high throughput sequencing: an update from the IMMEM-10 conference

2014 ◽  
Vol 165 (2) ◽  
pp. 140-153 ◽  
Author(s):  
Sylvain Brisse ◽  
Carina Brehony ◽  
Teresa Conceição ◽  
Meritxell Cubero ◽  
Corinna Glasner ◽  
...  
Keyword(s):  
Molecular Markers ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Epidemiological Surveillance

scholarly journals FINE GRAINED LONGITUDINAL ANALYSIS OF COCOA BEAN FERMENTATION PROVIDES INSIGHTS INTO THE DYNAMICS OF MICROBIAL POPULATIONS

2019 ◽  
Author(s):  
M. E. Pacheco-Montealegre ◽  
L. L. Dávila-Mora ◽  
L. M. Botero-Rute ◽  
A. Reyes ◽  
A. Caro-Quintero
Keyword(s):  
Molecular Markers ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Population Analysis ◽  
Starter Cultures ◽  
Cocoa Bean ◽  
Microbial Fermentation ◽  
Single Strain ◽  
Ecological Zones ◽  
Cocoa Bean Fermentation

ABSTRACTCocoa bean fermentation is an important microbial driven process where metabolites that affect chocolate quality and aroma are produced. Although considerable research has been devoted to the yeast and bacteria species involved in this process, less attention has been paid to the role of populations and strains, which hinders its selection, monitoring and use. Here we present a study that evaluates the microbial diversity associated to the tools and bean mass during spontaneous cocoa fermentation and in two distinct agro-ecological zones in Colombia. Using high-throughput sequencing of molecular markers for bacteria and yeast, we established the dynamics at the species-level (OTUs) and strains-level (oligotypes). Our results show that cocoa bean fermentation is catalyzed by a composite of strains within each OTU and not by one single strain. Eventhough we found only a few bacterial OTUs, one Enterobacter, three of Lactic Acid Bacteria and two of Acetic Acid Bacteria, these could be further split into 6, 23 and 19 oligotypes, respectively. Only two fungal OTUs were found. Comparison between fermentations suggest that local protocols generated a specific footprint in the dynamics of the microbial communities and that tools are reservoirs of some of those groups. The population analysis shows that the oligotypes that become most dominant are the same in the two locations, coupling co-abundance and dominance analysis we suggest that a combination of Enterobacter and Acetobacter oligotypes seem more optimal for the starter cultures. In conclusion, the results presented here show that exploring the fine level dynamics of microbial fermentation is necessary to understand the patterns of the dominance of specific populations and can be used as a valuable approach to select and monitor specific bacteria for the design of starter cultures in the food industry.IMPORTANCEIn Colombia, the lack of tools to validate and standardize fermentation protocols are one of the principal reasons why Colombian cocoa beans are not recognized as “fine-flavor” and widely marketed. Because of the large influence of the microbial fermentation in cocoa quality, the present study explores the microbial dynamics using high-throughput sequencing of molecular markers in two of the most important producer regions in Colombia. The results show that the identification of dominant and transitive strains can be used to select, design and monitor starter cultures and/or the effect of adjustments in the fermentation protocols.

scholarly journals DETERMINATION OF CYTOPLASMIC MALE STERILE FACTORS IN ONION PLANTS ( ALLIUM CEPA L.) OF VNIISSOK'S BREEDING

2011 ◽  
pp. 20-21
Author(s):  
T.P. Suprunova ◽  
A.N. Logunov ◽  
V.V. Logunova ◽  
A.F. Agafonov
Keyword(s):  
Molecular Markers ◽  
High Throughput ◽  
Mitochondrial Genes ◽  
Pcr Markers ◽  
Male Sterile ◽  
Cytoplasmic Male Sterile ◽  
Breeding Populations ◽  
Allium Cepa L ◽  
Allelic Variations

Molecular markers were used for screening of the onion plants of VNIISSOK's breeding for cytoplasmic male sterility. Allelic variations of the mitochondrial genes orfА501 and cob were reveled among studied onion samples. Use of the PCR-markers for these genes allowed identifying the cytoplasmic types of 14 onion genotypes. Application of these molecular markers in breeding program could help to select genotypes wit certain type of cytoplasm and may be useful for high throughput identification of cytoplasmic male sterile factors in large onion breeding populations.

scholarly journals Efficient anchoring of Erianthus arundinaceus chromatin introgressed into sugarcane by specific molecular markers

2020 ◽  
Author(s):  
Yongji Huang ◽  
Jiayun Wu ◽  
Xueting Li ◽  
Fan Yu ◽  
Xuguang Hu ◽  
...  
Keyword(s):  
Molecular Markers ◽  
High Throughput ◽  
Repetitive Sequence ◽  
Repetitive Sequences ◽  
Distribution Patterns ◽  
Subtractive Hybridization ◽  
High Accuracy ◽  
Wild Relatives ◽  
45S Rdna ◽  
Erianthus Arundinaceus

Abstract Erianthus arundinaceus is a valuable gene reservoir for sugarcane improvement. However, insufficient molecular markers for high-accuracy identification and tracking of the introgression status of E. arundinaceus chromatin impede sugarcane breeding. Fortunately, suppression subtractive hybridization (SSH) technology provides an excellent opportunity for development of high-throughput E. arundinaceus-specific molecular markers at a reasonable cost. In this study, we constructed a SSH library of E. arundinaceus. In total, 288 clones E. arundinaceus-specific repetitive sequences were screened out and their distribution patterns on chromosomes were characterized by fluorescence in situ hybridization (FISH). A subtelomeric repetitive sequence Ea086 and a diffusive repetitive sequence Ea009, plus 45S rDNA-bearing E. arundinaceus chromosome repetitive sequence EaITS were developed as E. arundinaceus-specific molecular markers, namely Ea086-128, Ea009-257, and EaITS-278, covering all the E. arundinaceus chromosomes for high-accuracy identification of putative progeny. Both Ea086-128 and Ea009-257 were successfully applied to identify the authenticity of F1, BC1, BC2, BC3, and BC4 progeny between sugarcane and E. arundinaceus. In addition, EaITS-278 was a 45S rDNA-bearing E. arundinaceus chromosome-specific molecular marker for rapid tracking the inherited status of this chromosome in sugarcane background. Three BC3 progeny had apparently lost the 45S rDNA-bearing E. arundinaceus chromosome. We reported herein a highly effective and reliable SSH-based technology for discovery of high-throughput E. arundinaceus-specific sequences bearing high potential as molecular markers. Given its reliability and savings in time and efforts, the method is also suitable for development of species-specific molecular markers for other important wild relatives to accelerate introgression of wild relatives into sugarcane.

scholarly journals High Content and High Throughout Phenotypic Assay for the Hourly Resolution of the Malaria Parasite Erythrocytic Cycle

2021 ◽  
Author(s):  
Donald Bell ◽  
Sophie Ridewood ◽  
Asha P. Patel ◽  
Sun Hyeok Lee ◽  
Young-Tae Chang ◽  
...  
Keyword(s):  
Drug Resistance ◽  
High Throughput ◽  
Population Level ◽  
Drug Resistant ◽  
Malaria Research ◽  
Phenotypic Assay ◽  
Rbc Membrane ◽  
Erythrocytic Cycle ◽  
Technical Advances ◽  
Drug Resistant Strains

AbstractOver the last 20 years increased funding for malaria research has resulted in very significant technical advances to study the biology of Plasmodium species. High throughput phenotypic assays have been developed to screen millions of compounds and identify small molecules with antiparasitic activity. At the same time, advances in malaria genetic have greatly facilitated the generation of genetically modified parasites, and whole genome genetic screens are now feasible in Plasmodium species. Finally, there has been an increased interest to study malaria parasites at the population level, in particular in the area of drug resistance. Drug resistant field isolates have been collected around the world, and drug resistant strains are routinely generated in the lab to study the mechanisms of drug resistance. As a result, one of the current bottlenecks in malaria research is our ability to quickly characterize the phenotype associated with compound treatment or genetic modification, or to quickly compare differences in intracellular development between strains. Here, we present a high content/high throughput phenotypic assay that combines highly selective RNA, DNA, and RBC membrane dyes to provide hourly resolution of the full erythrocytic cycle for both P. falciparum and P. knowlesi. A flow cytometry assay allows the analysis of samples in a 384-well format and a quick way to determine the parasite developmental stage. On the other hand, the fluorescence microscopy format allows for a detailed visualization of parasite morphology. Finally, using open source software we have developed protocols for the automated cluster analysis of microscopy images. This assay can be applied to any Plasmodium species, requires very little amount of sample, is performed with fixed cells, and is easily scalable. Overall, we believe this assay will be a great tool for the malaria community to study Plasmodium species.

Molecular markers for high-throughput detection of a self-fertility (S) allele in almond

2019 ◽  
pp. 143-150
Author(s):  
S.N.S. Goonetilleke ◽  
A.E. Croxford ◽  
M.G. Wirthensohn ◽  
T.J. March ◽  
D.E. Mather
Keyword(s):  
Molecular Markers ◽  
High Throughput ◽  
High Throughput Detection ◽  
S Allele

scholarly journals Application of iPBS in high-throughput sequencing for the development of retrotransposon-based molecular markers

2014 ◽  
Vol 1 ◽  
pp. 40-44 ◽  
Author(s):  
Yuki Monden ◽  
Kentaro Yamaguchi ◽  
Makoto Tahara
Keyword(s):  
Molecular Markers ◽  
High Throughput ◽  
High Throughput Sequencing

scholarly journals Discrimination of boron tolerance in Pisum sativum L. genotypes using a rapid, high-throughput hydroponic screen and precociously germinated seed grown under far-red enriched light

Plant Methods ◽  
2017 ◽  
Vol 13 (1) ◽  
Author(s):  
Richard G. Bennett ◽  
Federico M. Ribalta ◽  
Maria Pazos-Navarro ◽  
Antonio Leonforte ◽  
Janine S. Croser
Keyword(s):  
Pisum Sativum ◽  
High Throughput ◽  
Boron Tolerance ◽  
Pisum Sativum L
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