Development of a versatile resource for post-genomic research through consolidating and characterizing 1500 diverse wild and cultivated soybean genomes

The patterns of deleterious mutations during the domestication of soybean

(2021) Myung-Shin Kim et al.   Nature Communications

Genetic variation among 481 diverse soybean accessions, inferred from genomic re-sequencing

(2021) Babu Valliyodan et al.   Scientific Data

Sequencing the USDA core soybean collection reveals gene loss during domestication and breeding

(2021) Philipp E. Bayer et al.   Plant Genome

Pan-Genome of Wild and Cultivated Soybeans

(2020) Yucheng Liu et al.   CELL

Soybean ( Glycine max ) Haplotype Map (GmHapMap): a universal resource for soybean translational and functional genomics

(2020) Davoud Torkamaneh et al.   PLANT BIOTECHNOLOGY JOURNAL

Imputation of 3 million SNPs in the Arabidopsis regional mapping population

(2019) Bader Arouisse et al.   PLANT JOURNAL

The Untapped Genetic Reservoir: The Past, Current, and Future Applications of the Wild Soybean (Glycine soja)

(2018) Janice Kofsky et al.   Frontiers in Plant Science

Parallel selection on a dormancy gene during domestication of crops from multiple families

(2018) Min Wang et al.   NATURE GENETICS

PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format files

(2018) Chi Zhang et al.   BIOINFORMATICS

Genetic diversity patterns and domestication origin of soybean

(2018) Soon-Chun Jeong et al.   THEORETICAL AND APPLIED GENETICS

Plant genome sequences: past, present, future

(2018) Paul Julian Kersey   CURRENT OPINION IN PLANT BIOLOGY

Genetic separation of southern and northern soybean breeding programs in North America and their associated allelic variation at four maturity loci

(2017) Goettel Wolfgang et al.   MOLECULAR BREEDING

Genetic architecture of wild soybean (Glycine soja) response to soybean cyst nematode (Heterodera glycines)

(2017) Hengyou Zhang et al.   MOLECULAR GENETICS AND GENOMICS

Characterization of the FAD2 Gene Family in Soybean Reveals the Limitations of Gel-Based TILLING in Genes with High Copy Number

(2017) Naoufal Lakhssassi et al.   Frontiers in Plant Science

Identification and characterization of large DNA deletions affecting oil quality traits in soybean seeds through transcriptome sequencing analysis

(2016) Wolfgang Goettel et al.   THEORETICAL AND APPLIED GENETICS

Landscape of genomic diversity and trait discovery in soybean

(2016) Babu Valliyodan et al.   Scientific Reports

Genome-Wide Association Study of Resistance to Soybean Cyst Nematode (Heterodera glycines) HG Type 2.5.7 in Wild Soybean (Glycine soja)

(2016) Hengyou Zhang et al.   Frontiers in Plant Science

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

(2015) Zhengkui Zhou et al.   NATURE BIOTECHNOLOGY

GmHs1-1, encoding a calcineurin-like protein, controls hard-seededness in soybean

(2015) Lianjun Sun et al.   NATURE GENETICS

QTL for seed protein and amino acids in the Benning × Danbaekkong soybean population

(2015) C. V. Warrington et al.   THEORETICAL AND APPLIED GENETICS

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

Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing

(2014) Xinpeng Qi et al.   Nature Communications

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

(2013) Qijian Song et al.   PLoS One

GAPIT: genome association and prediction integrated tool

(2012) Alexander E. Lipka et al.   BIOINFORMATICS

A high-performance computing toolset for relatedness and principal component analysis of SNP data

(2012) X. Zheng et al.   BIOINFORMATICS

Predicting the Functional Effect of Amino Acid Substitutions and Indels

(2012) Yongwook Choi et al.   PLoS One

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Phytozome: a comparative platform for green plant genomics

(2011) David M. Goodstein et al.   NUCLEIC ACIDS RESEARCH

Archaeological Soybean (Glycine max) in East Asia: Does Size Matter?

(2011) Gyoung-Ah Lee et al.   PLoS One

Global food demand and the sustainable intensification of agriculture

(2011) D. Tilman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

The Soybean Stem Growth Habit Gene Dt1 Is an Ortholog of Arabidopsis TERMINAL FLOWER1

(2010) B. Liu et al.   PLANT PHYSIOLOGY

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

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Genetic Design and Statistical Power of Nested Association Mapping in Maize

(2008) Jianming Yu et al.   GENETICS