Frontiers in Plant Science (Oct 2022)
The ÓMICAS alliance, an international research program on multi-omics for crop breeding optimization
- Andres Jaramillo-Botero,
- Andres Jaramillo-Botero,
- Julian Colorado,
- Julian Colorado,
- Mauricio Quimbaya,
- Mauricio Quimbaya,
- Maria Camila Rebolledo,
- Maria Camila Rebolledo,
- Maria Camila Rebolledo,
- Maria Camila Rebolledo,
- Mathias Lorieux,
- Mathias Lorieux,
- Mathias Lorieux,
- Thaura Ghneim-Herrera,
- Thaura Ghneim-Herrera,
- Carlos A. Arango,
- Carlos A. Arango,
- Luis E. Tobón,
- Luis E. Tobón,
- Jorge Finke,
- Jorge Finke,
- Camilo Rocha,
- Camilo Rocha,
- Fernando Muñoz,
- Fernando Muñoz,
- John J. Riascos,
- John J. Riascos,
- Fernando Silva,
- Fernando Silva,
- Ngonidzashe Chirinda,
- Ngonidzashe Chirinda,
- Mario Caccamo,
- Klaas Vandepoele,
- Klaas Vandepoele,
- William A. Goddard
Affiliations
- Andres Jaramillo-Botero
- Chemistry and Chemical Engineering Division, California Institute of Technology, Pasadena, CA, United States
- Andres Jaramillo-Botero
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Julian Colorado
- Departamento de Ciencias Naturales y Matemáticas, Facultad de Ingenierı́a y Ciencias, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Julian Colorado
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Mauricio Quimbaya
- Facultad de Ingenieŕıa y Ciencias, Departamento de Ciencias Naturales y Matemáticas, Pontificia Universidad Javeriana, Cali, Colombia
- Mauricio Quimbaya
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Maria Camila Rebolledo
- CIRAD, UMR AGAP, Montpelier, France
- Maria Camila Rebolledo
- AGAP, Univ Montpellier, CIRAD, INRA, Montpellier SupAgro, Montpellier, France
- Maria Camila Rebolledo
- International Center for Tropical Agriculture (CIAT), Cali, Colombia
- Maria Camila Rebolledo
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Mathias Lorieux
- International Center for Tropical Agriculture (CIAT), Cali, Colombia
- Mathias Lorieux
- DIADE, University of Montpellier, CIRAD, IRD, Montpelier, France
- Mathias Lorieux
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Thaura Ghneim-Herrera
- Facultad de Ciencias Naturales, Departamento de Ciencias Biológicas, Universidad Icesi, Cali, Colombia
- Thaura Ghneim-Herrera
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Carlos A. Arango
- Facultad de Ciencias Naturales, Departamento de Ciencias Qúımicas, Universidad Icesi, Cali, Colombia
- Carlos A. Arango
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Luis E. Tobón
- 0Departamento de Ingeniería Electrónica y Ciencias dela Computación, Facultad de Ingeniería y Ciencias, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Luis E. Tobón
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Jorge Finke
- 0Departamento de Ingeniería Electrónica y Ciencias dela Computación, Facultad de Ingeniería y Ciencias, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Jorge Finke
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Camilo Rocha
- 0Departamento de Ingeniería Electrónica y Ciencias dela Computación, Facultad de Ingeniería y Ciencias, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Camilo Rocha
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Fernando Muñoz
- 1Centro de Investigación de la Caña de Azúcar (CENICAÑA), Florida, Valle del Cauca, Colombia
- Fernando Muñoz
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- John J. Riascos
- 1Centro de Investigación de la Caña de Azúcar (CENICAÑA), Florida, Valle del Cauca, Colombia
- John J. Riascos
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Fernando Silva
- 1Centro de Investigación de la Caña de Azúcar (CENICAÑA), Florida, Valle del Cauca, Colombia
- Fernando Silva
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Ngonidzashe Chirinda
- International Center for Tropical Agriculture (CIAT), Cali, Colombia
- Ngonidzashe Chirinda
- 2OMICAS Alliance, Pontificia Universidad Javeriana, Cali, Valle del Cauca, Colombia
- Mario Caccamo
- 3National Institute of Agricultural Botany (NIAB), Cambridge, United Kingdom
- Klaas Vandepoele
- 4Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Klaas Vandepoele
- 5Center for Plant Systems Biology, Vlaams Instituut voor Biotechnologie (VIB), Ghent, Belgium
- William A. Goddard
- Chemistry and Chemical Engineering Division, California Institute of Technology, Pasadena, CA, United States
- DOI
- https://doi.org/10.3389/fpls.2022.992663
- Journal volume & issue
-
Vol. 13
Abstract
The OMICAS alliance is part of the Colombian government’s Scientific Ecosystem, established between 2017-2018 to promote world-class research, technological advancement and improved competency of higher education across the nation. Since the program’s kick-off, OMICAS has focused on consolidating and validating a multi-scale, multi-institutional, multi-disciplinary strategy and infrastructure to advance discoveries in plant science and the development of new technological solutions for improving agricultural productivity and sustainability. The strategy and methods described in this article, involve the characterization of different crop models, using high-throughput, real-time phenotyping technologies as well as experimental tissue characterization at different levels of the omics hierarchy and under contrasting conditions, to elucidate epigenome-, genome-, proteome- and metabolome-phenome relationships. The massive data sets are used to derive in-silico models, methods and tools to discover complex underlying structure-function associations, which are then carried over to the production of new germplasm with improved agricultural traits. Here, we describe OMICAS’ R&D trans-disciplinary multi-project architecture, explain the overall strategy and methods for crop-breeding, recent progress and results, and the overarching challenges that lay ahead in the field.
Keywords