Rapid identification of lettuce seed germination mutants by bulked segregant analysis and whole genome sequencing

Getting started in mapping-by-sequencing

(2015) Héctor Candela et al.   Journal of Integrative Plant Biology

A System for Dosage-Based Functional Genomics in Poplar

(2015) Isabelle M. Henry et al.   PLANT CELL

Two forward genetic screens for vein density mutants in sorghum converge on a cytochrome P450 gene in the brassinosteroid pathway

(2015) Govinda Rizal et al.   PLANT JOURNAL

Genetic Variation for Thermotolerance in Lettuce Seed Germination Is Associated with Temperature-Sensitive Regulation of ETHYLENE RESPONSE FACTOR1 ( ERF1 )

(2015) Fei-Yian Yoong et al.   PLANT PHYSIOLOGY

Mapping-by-Sequencing Identifies HvPHYTOCHROME C as a Candidate Gene for the early maturity 5 Locus Modulating the Circadian Clock and Photoperiodic Flowering in Barley

(2014) Artem Pankin et al.   GENETICS

Using next-generation sequencing to isolate mutant genes from forward genetic screens

(2014) Korbinian Schneeberger   NATURE REVIEWS GENETICS

Efficient Genome-Wide Detection and Cataloging of EMS-Induced Mutations Using Exome Capture and Next-Generation Sequencing

(2014) I. M. Henry et al.   PLANT CELL

Mutation identification by direct comparison of whole-genome sequencing data from mutant and wild-type individuals using k-mers

(2013) Karl J V Nordström et al.   NATURE BIOTECHNOLOGY

Expression of 9-cis-EPOXYCAROTENOID DIOXYGENASE4 Is Essential for Thermoinhibition of Lettuce Seed Germination but Not for Seed Development or Stress Tolerance

(2013) H. Huo et al.   PLANT CELL

An Ultra-High-Density, Transcript-Based, Genetic Map of Lettuce

(2013) Maria José Truco et al.   G3-Genes Genomes Genetics

Development and application of a 6.5 million feature Affymetrix Genechip® for massively parallel discovery of single position polymorphisms in lettuce (Lactuca spp.)

(2012) Kevin Stoffel et al.   BMC GENOMICS

The role of the Arabidopsis FUSCA3 transcription factor during inhibition of seed germination at high temperature

(2012) Rex S Chiu et al.   BMC PLANT BIOLOGY

Genome sequencing reveals agronomically important loci in rice using MutMap

(2012) Akira Abe et al.   NATURE BIOTECHNOLOGY

Fast Isogenic Mapping-by-Sequencing of Ethyl Methanesulfonate-Induced Mutant Bulks

(2012) B. Hartwig et al.   PLANT PHYSIOLOGY

Gene Mapping via Bulked Segregant RNA-Seq (BSR-Seq)

(2012) Sanzhen Liu et al.   PLoS One

Association Between Seed Dormancy and Pericarp Color Is Controlled by a Pleiotropic Gene That Regulates Abscisic Acid and Flavonoid Synthesis in Weedy Red Rice

(2011) Xing-You Gu et al.   GENETICS

Inactivation of the ELIP1 and ELIP2 genes affects Arabidopsis seed germination

(2011) Annalisa Rizza et al.   NEW PHYTOLOGIST

Nitrate, abscisic acid and gibberellin interactions on the thermoinhibition of lettuce seed germination

(2011) Tingting Dong et al.   PLANT GROWTH REGULATION

Epoxycarotenoid cleavage by NCED5 fine-tunes ABA accumulation and affects seed dormancy and drought tolerance with other NCED family members

(2011) Anne Frey et al.   PLANT JOURNAL

Full genome re-sequencing reveals a novel circadian clock mutation in Arabidopsis

(2011) Kevin Ashelford et al.   GENOME BIOLOGY

Molecular cloning of Sdr4, a regulator involved in seed dormancy and domestication of rice

(2010) K. Sugimoto et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A gene encoding an abscisic acid biosynthetic enzyme (LsNCED4) collocates with the high temperature germination locus Htg6.1 in lettuce (Lactuca sp.)

(2010) Jason Argyris et al.   THEORETICAL AND APPLIED GENETICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Mutation discovery for crop improvement

(2009) M. A. J. Parry et al.   JOURNAL OF EXPERIMENTAL BOTANY

SHOREmap: simultaneous mapping and mutation identification by deep sequencing

(2009) Korbinian Schneeberger et al.   NATURE METHODS

The Dof protein DAG1 mediates PIL5 activity on seed germination by negatively regulating GA biosynthetic gene AtGA3ox1

(2009) Stefano Gabriele et al.   PLANT JOURNAL

Antagonism between abscisic acid and ethylene in Arabidopsis acts in parallel with the reciprocal regulation of their metabolism and signaling pathways

(2009) Wan-Hsing Cheng et al.   PLANT MOLECULAR BIOLOGY

SOMNUS, a CCCH-Type Zinc Finger Protein in Arabidopsis, Negatively Regulates Light-Dependent Seed Germination Downstream of PIL5

(2008) D. H. Kim et al.   PLANT CELL

The Gibberellic Acid Signaling Repressor RGL2 Inhibits Arabidopsis Seed Germination by Stimulating Abscisic Acid Synthesis and ABI5 Activity

(2008) U. Piskurewicz et al.   PLANT CELL

Genetic Variation for Lettuce Seed Thermoinhibition Is Associated with Temperature-Sensitive Expression of Abscisic Acid, Gibberellin, and Ethylene Biosynthesis, Metabolism, and Response Genes

(2008) J. Argyris et al.   PLANT PHYSIOLOGY

High Temperature-Induced Abscisic Acid Biosynthesis and Its Role in the Inhibition of Gibberellin Action in Arabidopsis Seeds

(2007) S. Toh et al.   PLANT PHYSIOLOGY