When Transcriptomics and Metabolomics Work Hand in Hand: A Case Study Characterizing Plant CDF Transcription Factors

Perez Alonso, Marta Marina and Carrasco Loba, Víctor and Medina Alcazar, Joaquin and Vicente Carbajosa, Jesus and Pollmann, Stephan (2018). When Transcriptomics and Metabolomics Work Hand in Hand: A Case Study Characterizing Plant CDF Transcription Factors. "High-Throughput", v. 7 (n. 7); pp. 1-13. ISSN 2571-5135. https://doi.org/10.3390/ht7010007.

Description

Title: When Transcriptomics and Metabolomics Work Hand in Hand: A Case Study Characterizing Plant CDF Transcription Factors
Author/s:
  • Perez Alonso, Marta Marina
  • Carrasco Loba, Víctor
  • Medina Alcazar, Joaquin
  • Vicente Carbajosa, Jesus
  • Pollmann, Stephan
Item Type: Article
Título de Revista/Publicación: High-Throughput
Date: February 2018
ISSN: 2571-5135
Volume: 7
Subjects:
Faculty: Centro de Investigación en Biotecnología y Genómica de Plantas (CBGP) (UPM)
Department: Biotecnología - Biología Vegetal
Creative Commons Licenses: Recognition - No derivative works - Non commercial

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Abstract

Over the last three decades, novel "omics" platform technologies for the sequencing of DNA and complementary DNA (cDNA) (RNA-Seq), as well as for the analysis of proteins and metabolites by mass spectrometry, have become more and more available and increasingly found their way into general laboratory life. With this, the ability to generate highly multivariate datasets on the biological systems of choice has increased tremendously. However, the processing and, perhaps even more importantly, the integration of "omics" datasets still remains a bottleneck, although considerable computational and algorithmic advances have been made in recent years. In this mini-review, we use a number of recent "multi-omics" approaches realized in our laboratories as a common theme to discuss possible pitfalls of applying "omics" approaches and to highlight some useful tools for data integration and visualization in the form of an exemplified case study. In the selected example, we used a combination of transcriptomics and metabolomics alongside phenotypic analyses to functionally characterize a small number of Cycling Dof Transcription Factors (CDFs). It has to be remarked that, even though this approach is broadly used, the given workflow is only one of plenty possible ways to characterize target proteins.

Funding Projects

TypeCodeAcronymLeaderTitle
Government of SpainBIO2014-53181-RUnspecifiedUnspecifiedUnspecified
Government of SpainBIO2017-82873-RUnspecifiedUnspecifiedUnspecified
Government of SpainBFU2014-55575-RUnspecifiedUnspecifiedUnspecified
Government of SpainBFU2017-82826-RUnspecifiedUnspecifiedUnspecified
Government of SpainRTA2015-00014-c02-01UnspecifiedUnspecifiedUnspecified
Government of SpainREDI170024UnspecifiedUnspecifiedUnspecified

More information

Item ID: 49932
DC Identifier: http://oa.upm.es/49932/
OAI Identifier: oai:oa.upm.es:49932
DOI: 10.3390/ht7010007
Official URL: http://www.mdpi.com/2571-5135/7/1/7
Deposited by: Memoria Investigacion
Deposited on: 23 Jul 2018 10:50
Last Modified: 29 Apr 2019 10:38
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