scholarly journals The role of high-throughput transcriptome analysis in metabolic engineering

2005 ◽  
Vol 10 (5) ◽  
pp. 385-399 ◽  
Author(s):  
Michael C. Jewett ◽  
Ana Paula Oliveira ◽  
Kiran Raosaheb Patil ◽  
Jens Nielsen
Keyword(s):  
Metabolic Engineering ◽  
High Throughput ◽  
Transcriptome Analysis

scholarly journals A Versatile High Throughput Screening Platform for Plant Metabolic Engineering Highlights the Major Role of ABI3 in Lipid Metabolism Regulation

2020 ◽  
Vol 11 ◽  
Author(s):  
Benjamin Pouvreau ◽  
Cheryl Blundell ◽  
Harpreet Vohra ◽  
Alexander B. Zwart ◽  
Taj Arndell ◽  
...  
Keyword(s):  
Lipid Metabolism ◽  
Metabolic Engineering ◽  
High Throughput ◽  
High Throughput Screening ◽  
Metabolism Regulation ◽  
Screening Platform

scholarly journals Fast and Efficient 5′P Degradome Library Preparation for Analysis of Co-Translational Decay in Arabidopsis

Plants ◽  
2021 ◽  
Vol 10 (3) ◽  
pp. 466
Author(s):  
Marie-Christine Carpentier ◽  
Cécile Bousquet-Antonelli ◽  
Rémy Merret
Keyword(s):  
Gene Expression ◽  
Quality Control ◽  
Transcriptional Regulation ◽  
High Throughput ◽  
Library Preparation ◽  
Working Day ◽  
Set Up ◽  
Post Transcriptional Regulation ◽  
Commercial Kit

The recent development of high-throughput technologies based on RNA sequencing has allowed a better description of the role of post-transcriptional regulation in gene expression. In particular, the development of degradome approaches based on the capture of 5′monophosphate decay intermediates allows the discovery of a new decay pathway called co-translational mRNA decay. Thanks to these approaches, ribosome dynamics could now be revealed by analysis of 5′P reads accumulation. However, library preparation could be difficult to set-up for non-specialists. Here, we present a fast and efficient 5′P degradome library preparation for Arabidopsis samples. Our protocol was designed without commercial kit and gel purification and can be easily done in one working day. We demonstrated the robustness and the reproducibility of our protocol. Finally, we present the bioinformatic reads-outs necessary to assess library quality control.

scholarly journals Applications of Metabolomics in Forensic Toxicology and Forensic Medicine

2021 ◽  
Vol 22 (6) ◽  
pp. 3010
Author(s):  
Michal Szeremeta ◽  
Karolina Pietrowska ◽  
Anna Niemcunowicz-Janica ◽  
Adam Kretowski ◽  
Michal Ciborowski
Keyword(s):  
Machine Learning ◽  
Multivariate Statistics ◽  
High Throughput ◽  
Forensic Medicine ◽  
Forensic Toxicology ◽  
Metabolic Changes ◽  
Untargeted Metabolomics ◽  
Criminal Cases ◽  
Statistical Approaches

Forensic toxicology and forensic medicine are unique among all other medical fields because of their essential legal impact, especially in civil and criminal cases. New high-throughput technologies, borrowed from chemistry and physics, have proven that metabolomics, the youngest of the “omics sciences”, could be one of the most powerful tools for monitoring changes in forensic disciplines. Metabolomics is a particular method that allows for the measurement of metabolic changes in a multicellular system using two different approaches: targeted and untargeted. Targeted studies are focused on a known number of defined metabolites. Untargeted metabolomics aims to capture all metabolites present in a sample. Different statistical approaches (e.g., uni- or multivariate statistics, machine learning) can be applied to extract useful and important information in both cases. This review aims to describe the role of metabolomics in forensic toxicology and in forensic medicine.

scholarly journals Pivotal role of bZIPs in amylose biosynthesis by genome survey and transcriptome analysis in wheat (Triticum aestivum L.) mutants

2018 ◽  
Vol 8 (1) ◽  
Author(s):  
Pankaj Kumar ◽  
Ankita Mishra ◽  
Himanshu Sharma ◽  
Dixit Sharma ◽  
Mohammed Saba Rahim ◽  
...  
Keyword(s):  
Triticum Aestivum ◽  
Transcriptome Analysis ◽  
Triticum Aestivum L ◽  
Pivotal Role ◽  
Genome Survey

The Role of Epigenetics in Cancer: From Molecular Function to High-Throughput Assays

2011 ◽  
pp. 137-152
Author(s):  
Aleksandra Pekowska ◽  
Joaquin Zacarias-Cabeza ◽  
Jinsong Jia ◽  
Pierre Ferrier ◽  
Salvatore Spicuglia
Keyword(s):  
High Throughput ◽  
Molecular Function

scholarly journals Actinobacteria challenge the paradigm: A unique protein architecture for a well-known, central metabolic complex

2021 ◽  
Vol 118 (48) ◽  
pp. e2112107118
Author(s):  
Eduardo M. Bruch ◽  
Pierre Vilela ◽  
Lu Yang ◽  
Alexandra Boyko ◽  
Norik Lexa-Sapart ◽  
...  
Keyword(s):  
Molecular Weight ◽  
Metabolic Engineering ◽  
High Molecular Weight ◽  
Protein Oligomerization ◽  
Central Metabolism ◽  
Hollow Core ◽  
Protein Architecture ◽  
Unique Protein ◽  
Gene Coding

α-oxoacid dehydrogenase complexes are large, tripartite enzymatic machineries carrying out key reactions in central metabolism. Extremely conserved across the tree of life, they have been, so far, all considered to be structured around a high–molecular weight hollow core, consisting of up to 60 subunits of the acyltransferase component. We provide here evidence that Actinobacteria break the rule by possessing an acetyltranferase component reduced to its minimally active, trimeric unit, characterized by a unique C-terminal helix bearing an actinobacterial specific insertion that precludes larger protein oligomerization. This particular feature, together with the presence of an odhA gene coding for both the decarboxylase and the acyltransferase domains on the same polypetide, is spread over Actinobacteria and reflects the association of PDH and ODH into a single physical complex. Considering the central role of the pyruvate and 2-oxoglutarate nodes in central metabolism, our findings pave the way to both therapeutic and metabolic engineering applications.

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