Gene-based SNP identification and validation in soybean using next-generation transcriptome sequencing

Evaluation of genetic variation among Brazilian soybean cultivars through genome resequencing

(2016) João Vitor Maldonado dos Santos et al.   BMC GENOMICS

SNP identification and marker assay development for high-throughput selection of soybean cyst nematode resistance

(2015) Zi Shi et al.   BMC GENOMICS

Whole-genome gene expression profiling revealed genes and pathways potentially involved in regulating interactions of soybean with cyst nematode (Heterodera glycines Ichinohe)

(2015) Jinrong Wan et al.   BMC GENOMICS

Precise identification of two wheat–Thinopyrum intermedium substitutions reveals the compensation and rearrangement between wheat and Thinopyrum chromosomes

(2015) Guangrong Li et al.   MOLECULAR BREEDING

Next-generation transcriptome sequencing, SNP discovery and validation in four market classes of peanut, Arachis hypogaea L.

(2015) Ratan Chopra et al.   MOLECULAR GENETICS AND GENOMICS

Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean

(2015) Zhengkui Zhou et al.   NATURE BIOTECHNOLOGY

Development, validation and genetic analysis of a large soybean SNP genotyping array

(2015) Yun-Gyeong Lee et al.   PLANT JOURNAL

RNA-Seq Uncovers SNPs and Alternative Splicing Events in Asian Lotus (Nelumbo nucifera)

(2015) Mei Yang et al.   PLoS One

Identification and characterization of transcript polymorphisms in soybean lines varying in oil composition and content

(2014) Wolfgang Goettel et al.   BMC GENOMICS

De novo assembly of soybean wild relatives for pan-genome analysis of diversity and agronomic traits

(2014) Ying-hui Li et al.   NATURE BIOTECHNOLOGY

Decreased Nucleotide and Expression Diversity and Modified Coexpression Patterns Characterize Domestication in the Common Bean

(2014) E. Bellucci et al.   PLANT CELL

Dt2Is a Gain-of-Function MADS-Domain Factor Gene That Specifies Semideterminacy in Soybean

(2014) Jieqing Ping et al.   PLANT CELL

Global Dissection of Alternative Splicing in Paleopolyploid Soybean

(2014) Yanting Shen et al.   PLANT CELL

Gene-based single nucleotide polymorphism discovery in bovine muscle using next-generation transcriptomic sequencing

(2013) Anis Djari et al.   BMC GENOMICS

Molecular footprints of domestication and improvement in soybean revealed by whole genome re-sequencing

(2013) Ying-hui Li et al.   BMC GENOMICS

Genetic variation in four maturity genes affects photoperiod insensitivity and PHYA-regulated post-flowering responses of soybean

(2013) Meilan Xu et al.   BMC PLANT BIOLOGY

Population Structure and Domestication Revealed by High-Depth Resequencing of Korean Cultivated and Wild Soybean Genomes

(2013) W.-H. Chung et al.   DNA RESEARCH

Advances in plant gene-targeted and functional markers: a review

(2013) Péter Poczai et al.   Plant Methods

Development and Evaluation of SoySNP50K, a High-Density Genotyping Array for Soybean

(2013) Qijian Song et al.   PLoS One

Using RNA-Seq to Profile Soybean Seed Development from Fertilization to Maturity

(2013) Sarah I. Jones et al.   PLoS One

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Identification of SNPs in RNA-seq data of two cultivars of Glycine max (soybean) differing in drought resistance

(2012) Ramon Oliveira Vidal et al.   GENETICS AND MOLECULAR BIOLOGY

Ln Is a Key Regulator of Leaflet Shape and Number of Seeds per Pod in Soybean

(2012) N. Jeong et al.   PLANT CELL

Positional cloning and characterization reveal the molecular basis for soybean maturity locus E1 that regulates photoperiodic flowering

(2012) Z. Xia et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Map-Based Cloning Strategy Employing a Residual Heterozygous Line Reveals that theGIGANTEAGene Is Involved in Soybean Maturity and Flowering

(2011) Satoshi Watanabe et al.   GENETICS

SNP discovery in black cottonwood (Populus trichocarpa) by population transcriptome resequencing

(2011) ARMANDO GERALDES et al.   Molecular Ecology Resources

Crops that feed the World 2. Soybean—worldwide production, use, and constraints caused by pathogens and pests

(2011) Glen L. Hartman et al.   Food Security

Mutant alleles of FAD2-1A and FAD2-1B combine to produce soybeans with the high oleic acid seed oil trait

(2010) Anh-Tung Pham et al.   BMC PLANT BIOLOGY

Genome sequence of the palaeopolyploid soybean

(2010) Jeremy Schmutz et al.   NATURE

Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection

(2010) Hon-Ming Lam et al.   NATURE GENETICS

Artificial selection for determinate growth habit in soybean

(2010) Z. Tian et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Whole-genome sequencing and intensive analysis of the undomesticated soybean (Glycine soja Sieb. and Zucc.) genome

(2010) M. Y. Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Map-Based Cloning of the Gene Associated With the Soybean Maturity Locus E3

(2009) Satoshi Watanabe et al.   GENETICS

Genome-wide mapping of alternative splicing in Arabidopsis thaliana

(2009) S. A. Filichkin et al.   GENOME RESEARCH

Genetic Redundancy in Soybean Photoresponses Associated With Duplication of the Phytochrome A Gene

(2008) B. Liu et al.   GENETICS

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE