Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2019 Apr 23;3(4):e00133.
doi: 10.1002/pld3.133. eCollection 2019 Apr.

Directions for research and training in plant omics: Big Questions and Big Data

Cristiana T Argueso  1 , Sarah M Assmann  2 , Kenneth D Birnbaum  3 , Sixue Chen  4   5 , José R Dinneny  6 , Colleen J Doherty  7 , Andrea L Eveland  8 , Joanna Friesner  9 , Vanessa R Greenlee  10 , Julie A Law  11   12 , Amy Marshall-Colón  13 , Grace Alex Mason  14 , Ruby O'Lexy  15 , Scott C Peck  16 , Robert J Schmitz  17 , Liang Song  18 , David Stern  19 , Marguerite J Varagona  20 , Justin W Walley  21 , Cranos M Williams  22
Affiliations

Directions for research and training in plant omics: Big Questions and Big Data

Cristiana T Argueso et al. Plant Direct. .

Abstract

A key remit of the NSF-funded "Arabidopsis Research and Training for the 21st Century" (ART-21) Research Coordination Network has been to convene a series of workshops with community members to explore issues concerning research and training in plant biology, including the role that research using Arabidopsis thaliana can play in addressing those issues. A first workshop focused on training needs for bioinformatic and computational approaches in plant biology was held in 2016, and recommendations from that workshop have been published (Friesner et al., Plant Physiology, 175, 2017, 1499). In this white paper, we provide a summary of the discussions and insights arising from the second ART-21 workshop. The second workshop focused on experimental aspects of omics data acquisition and analysis and involved a broad spectrum of participants from academics and industry, ranging from graduate students through post-doctorates, early career and established investigators. Our hope is that this article will inspire beginning and established scientists, corporations, and funding agencies to pursue directions in research and training identified by this workshop, capitalizing on the reference species Arabidopsis thaliana and other valuable plant systems.

Keywords: genomics; metabolomics; proteomics; training; transcriptomics.

PubMed Disclaimer

Figures

Figure 1
Figure 1
Diverse omics approaches provide insights into cell biology and physiology and inform our knowledge of plant functional development and environmental interaction
See this image and copyright information in PMC

References

    1. Afendi, F. M. , Okada, T. , Yamazaki, M. , Hirai‐Morita, A. , Nakamura, Y. , Nakamura, K. , … Kanaya, S. (2012). KNApSAcK family databases: Integrated metabolite‐plant species databases for multifaceted plant research. Plant and Cell Physiology, 53(2), e1 10.1093/pcp/pcr165 - DOI - PubMed
    1. Alonso, J. M. , Stepanova, A. N. , Leisse, T. J. , Kim, C. J. , Chen, H. M. , Shinn, P. , … Ecker, J. R. (2003). Genome‐wide insertional mutagenesis of Arabidopsis thaliana . Science, 301(5633), 653–657. 10.1126/science.1086391 - DOI - PubMed
    1. Alonso‐Blanco, C. , Andrade, J. , Becker, C. , Bemm, F. , Bergelson, J. , Borgwardt, K. M. , … Consortium, G. (2016). 1,135 genomes reveal the global pattern of polymorphism in Arabidopsis thaliana . Cell, 166(2), 481–491. 10.1016/j.cell.2016.05.063 - DOI - PMC - PubMed
    1. Anarat‐Cappillino, G. , & Sattely, E. S. (2014). The chemical logic of plant natural product biosynthesis. Current Opinion in Plant Biology, 19, 51–58. 10.1016/j.pbi.2014.03.007 - DOI - PMC - PubMed
    1. Arabidopsis Initiative, T. (2000). Analysis of the genome sequence of the flowering plant Arabidopsis thaliana . Nature, 408(6814), 796–815. 10.1038/35048692 - DOI - PubMed