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

Perez Alonso, Marta Marina, Carrasco Loba, Víctor, Medina Alcazar, Joaquin ORCID: https://orcid.org/0000-0002-1735-330X, Vicente Carbajosa, Jesus ORCID: https://orcid.org/0000-0002-6332-1712 and Pollmann, Stephan ORCID: https://orcid.org/0000-0002-5111-4425 (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:
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

Type
Code
Acronym
Leader
Title
Government of Spain
BIO2014-53181-R
Unspecified
Unspecified
Unspecified
Government of Spain
BIO2017-82873-R
Unspecified
Unspecified
Unspecified
Government of Spain
BFU2014-55575-R
Unspecified
Unspecified
Unspecified
Government of Spain
BFU2017-82826-R
Unspecified
Unspecified
Unspecified
Government of Spain
RTA2015-00014-c02-01
Unspecified
Unspecified
Unspecified
Government of Spain
REDI170024
Unspecified
Unspecified
Unspecified

More information

Item ID: 49932
DC Identifier: https://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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