Florian Jupe:
ORCID: http://orcid.org/0000-0001-5741-4931
Role: ConceptualizationRole: Data curationRole: Formal analysisRole: Funding acquisitionRole:
InvestigationRole: MethodologyRole: ValidationRole: VisualizationRole: Writing – original
draftRole: Writing – review & editing
Angeline C. Rivkin:
ORCID: http://orcid.org/0000-0003-0399-9043
Role: ConceptualizationRole: Data curationRole: Formal analysisRole: InvestigationRole:
MethodologyRole: Project administrationRole: VisualizationRole: Writing – original
draftRole: Writing – review & editing
Todd P. Michael:
ORCID: http://orcid.org/0000-0001-6272-2875
Role: ConceptualizationRole: Data curationRole: Formal analysisRole: InvestigationRole:
MethodologyRole: ResourcesRole: SoftwareRole: ValidationRole: VisualizationRole: Writing
– original draftRole: Writing – review & editing
Mark Zander:
ORCID: http://orcid.org/0000-0001-8643-1407
Role: ConceptualizationRole: Data curationRole: Formal analysisRole: Funding acquisitionRole:
InvestigationRole: MethodologyRole: ResourcesRole: ValidationRole: VisualizationRole:
Writing – original draftRole: Writing – review & editing
S. Timothy Motley: Role: Formal analysisRole: InvestigationRole: MethodologyRole: Validation
Justin P. Sandoval:
ORCID: http://orcid.org/0000-0003-0012-7223
Role: InvestigationRole: MethodologyRole: Resources
R. Keith Slotkin:
ORCID: http://orcid.org/0000-0001-9582-3533
Role: Formal analysisRole: InvestigationRole: Writing – original draft
Huaming Chen: Role: ResourcesRole: SoftwareRole: Visualization
Rosa Castanon:
ORCID: http://orcid.org/0000-0003-1791-002X
Role: InvestigationRole: MethodologyRole: Resources
Joseph R. Nery: Role: MethodologyRole: Resources
Joseph R. Ecker:
ORCID: http://orcid.org/0000-0001-5799-5895
Role: ConceptualizationRole: Funding acquisitionRole: InvestigationRole: ResourcesRole:
SupervisionRole: Writing – original draftRole: Writing – review & editing
Jeremy Schmutz: Role: Editor
Journal ID (nlm-ta): PLoS Genet
Journal ID (iso-abbrev): PLoS Genet
Journal ID (publisher-id): plos
Journal ID (pmc): plosgen
Title:
PLoS Genetics
Publisher:
Public Library of Science
(San Francisco, CA USA
)
ISSN
(Print):
1553-7390
ISSN
(Electronic):
1553-7404
Publication date
(Electronic):
18
January
2019
Publication date Collection:
January
2019
Volume: 15
Issue: 1
Electronic Location Identifier: e1007819
Affiliations
[1
]
Genomic Analysis Laboratory, Salk Institute for Biological Studies, La Jolla, CA,
United States of America
[2
]
J. Craig Venter Institute, La Jolla, CA, United States of America
[3
]
Plant Biology Laboratory, Salk Institute for Biological Studies, La Jolla, CA, United
States of America
[4
]
Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla,
CA, United States of America
[5
]
Donald Danforth Plant Science Center, St. Louis, MO, United States of America
JGI-Stanford Human Genome Center, UNITED STATES
Author notes
I have read the journal's policy and the authors of this manuscript have the following
competing interests: FJ is an employee of Bayer Crop Science. JRE serves on the scientific
advisory boards of Cibus, Zymo Research and Pathway Genomics Inc.
[¤]
Current address: Bayer Crop Science, Chesterfield, MO, United States of America
Author information
Article
Publisher ID:
PGENETICS-D-18-01776
DOI: 10.1371/journal.pgen.1007819
PMC ID: 6338467
PubMed ID: 30657772
SO-VID: a131474a-ad6c-4413-8665-658b3963bf74
Copyright © © 2019 Jupe et al
License:
This is an open access article distributed under the terms of the
Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided
the original author and source are credited.
FJ was supported through a Human Frontier Science Program Organization long-term fellowship
(
http://www.hfsp.org/). MZ was supported by the Salk Pioneer Postdoctoral Endowment Fund as well as by
a Deutsche Forschungsgemeinschaft (DFG;
http://www.dfg.de/) research fellowship (Za-730/1-1). JRE is an Investigator of the Howard Hughes Medical
Institute (
www.hhmi.org). The funders had no role in study design, data collection and analysis, decision
to publish, or preparation of the manuscript.
Subject:
Research Article
Subject:
Biology and Life Sciences
Subject:
Genetics
Subject:
Genomics
Subject:
Plant Genomics
Subject:
Biology and Life Sciences
Subject:
Bioengineering
Subject:
Biotechnology
Subject:
Plant Biotechnology
Subject:
Plant Genomics
Subject:
Engineering and Technology
Subject:
Bioengineering
Subject:
Biotechnology
Subject:
Plant Biotechnology
Subject:
Plant Genomics
Subject:
Biology and Life Sciences
Subject:
Plant Science
Subject:
Plant Biotechnology
Subject:
Plant Genomics
Subject:
Biology and Life Sciences
Subject:
Genetics
Subject:
Plant Genetics
Subject:
Plant Genomics
Subject:
Biology and Life Sciences
Subject:
Plant Science
Subject:
Plant Genetics
Subject:
Plant Genomics
Subject:
Biology and life sciences
Subject:
Genetics
Subject:
Gene expression
Subject:
Gene regulation
Subject:
Small interfering RNAs
Subject:
Biology and life sciences
Subject:
Biochemistry
Subject:
Nucleic acids
Subject:
RNA
Subject:
Non-coding RNA
Subject:
Small interfering RNAs
Subject:
Biology and Life Sciences
Subject:
Cell Biology
Subject:
Chromosome Biology
Subject:
Chromatin
Subject:
Biology and Life Sciences
Subject:
Genetics
Subject:
Epigenetics
Subject:
Chromatin
Subject:
Biology and Life Sciences
Subject:
Genetics
Subject:
Gene Expression
Subject:
Chromatin
Subject:
Biology and Life Sciences
Subject:
Organisms
Subject:
Eukaryota
Subject:
Plants
Subject:
Seedlings
Subject:
Biology and Life Sciences
Subject:
Computational Biology
Subject:
Genome Analysis
Subject:
Genomic Libraries
Subject:
Biology and Life Sciences
Subject:
Genetics
Subject:
Genomics
Subject:
Genome Analysis
Subject:
Genomic Libraries
Subject:
Research and Analysis Methods
Subject:
Animal Studies
Subject:
Experimental Organism Systems
Subject:
Model Organisms
Subject:
Arabidopsis Thaliana
Subject:
Research and Analysis Methods
Subject:
Model Organisms
Subject:
Arabidopsis Thaliana
Subject:
Biology and Life Sciences
Subject:
Organisms
Subject:
Eukaryota
Subject:
Plants
Subject:
Brassica
Subject:
Arabidopsis Thaliana
Subject:
Research and Analysis Methods
Subject:
Animal Studies
Subject:
Experimental Organism Systems
Subject:
Plant and Algal Models
Subject:
Arabidopsis Thaliana
Subject:
Biology and Life Sciences
Subject:
Computational Biology
Subject:
Genome Analysis
Subject:
Biology and Life Sciences
Subject:
Genetics
Subject:
Genomics
Subject:
Genome Analysis
Subject:
Biology and Life Sciences
Subject:
Computational Biology
Subject:
Genome Analysis
Subject:
Sequence Assembly Tools
Subject:
Biology and Life Sciences
Subject:
Genetics
Subject:
Genomics
Subject:
Genome Analysis
Subject:
Sequence Assembly Tools