Identification of a cold-tolerant locus in rice (Oryza sativa L.) using bulked segregant analysis with a next-generation sequencing strategy

Sequencing of bulks of segregants allows dissection of genetic control of amylose content in rice

(2017) Peterson Wambugu et al.   PLANT BIOTECHNOLOGY JOURNAL

Natural variation in CTB4a enhances rice adaptation to cold habitats

(2017) Zhanying Zhang et al.   Nature Communications

Next-Generation Sequencing from Bulked-Segregant Analysis Accelerates the Simultaneous Identification of Two Qualitative Genes in Soybean

(2017) Jian Song et al.   Frontiers in Plant Science

Examination of candidates for the gene of cold tolerance at the booting stage in a delimited QTL region in rice cultivar ‘Lijiangxintuanheigu’

(2016) Bolortuya Ulziibat et al.   EUPHYTICA

Relationship of photosynthetic efficiency and seed-setting rate in two contrasting rice cultivars under chilling stress

(2016) L.-Z. Wang et al.   PHOTOSYNTHETICA

Genetic mapping and molecular marker development for Pi65(t), a novel broad-spectrum resistance gene to rice blast using next-generation sequencing

(2016) Wenjing Zheng et al.   THEORETICAL AND APPLIED GENETICS

Detection of QTLs for cold tolerance of rice cultivar ‘Kuchum’ and effect of QTL pyramiding

(2016) Takashi Endo et al.   THEORETICAL AND APPLIED GENETICS

Genome-wide Association Mapping of Cold Tolerance Genes at the Seedling Stage in Rice

(2016) Dan Wang et al.   Rice

Effect of low water temperature at reproductive stage on yield and glutamate metabolism of rice (Oryza sativa L.) in China

(2015) Yan Jia et al.   FIELD CROPS RESEARCH

Next-generation sequencing for identification of candidate genes forFusariumwilt and sterility mosaic disease in pigeonpea (Cajanus cajan)

(2015) Vikas K. Singh et al.   PLANT BIOTECHNOLOGY JOURNAL

Combining Next Generation Sequencing with Bulked Segregant Analysis to Fine Map a Stem Moisture Locus in Sorghum (Sorghum bicolor L. Moench)

(2015) Yucui Han et al.   PLoS One

Identification and Fine Mapping of a Stably Expressed QTL for Cold Tolerance at the Booting Stage Using an Interconnected Breeding Population in Rice

(2015) Yajun Zhu et al.   PLoS One

Rice and cold stress: methods for its evaluation and summary of cold tolerance-related quantitative trait loci

(2014) Qi Zhang et al.   Rice

BSTA: a targeted approach combines bulked segregant analysis with next- generation sequencing and de novo transcriptome assembly for SNP discovery in sunflower

(2013) Maren Livaja et al.   BMC GENOMICS

MMAPPR: Mutation Mapping Analysis Pipeline for Pooled RNA-seq

(2013) J. T. Hill et al.   GENOME RESEARCH

QTL-seq: rapid mapping of quantitative trait loci in rice by whole genome resequencing of DNA from two bulked populations

(2013) Hiroki Takagi et al.   PLANT JOURNAL

MutMap+: Genetic Mapping and Mutant Identification without Crossing in Rice

(2013) Rym Fekih et al.   PLoS One

Active canopy sensor-based precision N management strategy for rice

(2012) Yinkun Yao et al.   Agronomy for Sustainable Development

Combining SNP discovery from next-generation sequencing data with bulked segregant analysis (BSA) to fine-map genes in polyploid wheat

(2012) Martin Trick et al.   BMC PLANT BIOLOGY

Identification of Cold-Tolerant Breeding Lines by Quantitative Trait Loci Associated with Cold Tolerance in Rice

(2012) K. K. Jena et al.   CROP SCIENCE

Genetic dissection of developmental behavior of grain weight in wheat under diverse temperature and water regimes

(2012) Shiping Li et al.   GENETICA

Genome sequencing reveals agronomically important loci in rice using MutMap

(2012) Akira Abe et al.   NATURE BIOTECHNOLOGY

Modification of OsSUT1 gene expression modulates the salt response of rice Oryza sativa cv. Taipei 309

(2011) Mohammad R. Siahpoosh et al.   PLANT SCIENCE

Delimitation of a QTL region controlling cold tolerance at booting stage of a cultivar, ‘Lijiangxintuanheigu’, in rice, Oryza sativa L.

(2011) S. Shirasawa et al.   THEORETICAL AND APPLIED GENETICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Map-based cloning of the rice cold tolerance gene Ctb1

(2010) Koji Saito et al.   PLANT SCIENCE

Fine mapping a QTL qCTB7 for cold tolerance at the booting stage on rice chromosome 7 using a near-isogenic line

(2010) Lei Zhou et al.   THEORETICAL AND APPLIED GENETICS

Bulk Segregant Analysis by High-Throughput Sequencing Reveals a Novel Xylose Utilization Gene from Saccharomyces cerevisiae

(2010) Jared W. Wenger et al.   PLoS Genetics

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

SHOREmap: simultaneous mapping and mutation identification by deep sequencing

(2009) Korbinian Schneeberger et al.   NATURE METHODS

The VLCFA elongase gene family in Arabidopsis thaliana: phylogenetic analysis, 3D modelling and expression profiling

(2008) Jérôme Joubès et al.   PLANT MOLECULAR BIOLOGY

Identification and mapping of quantitative trait loci for cold tolerance at the booting stage in a japonica rice near-isogenic line

(2007) Li-Ming Xu et al.   PLANT SCIENCE