Genetic Basis of Fiber Improvement and Decreased Stress Tolerance in Cultivated Versus Semi-Domesticated Upland Cotton

Gossypium barbadense and Gossypium hirsutum genomes provide insights into the origin and evolution of allotetraploid cotton

(2019) Yan Hu et al.   NATURE GENETICS

Whole Genome Sequencing and Comparative Genomic Analysis Reveal Allelic Variations Unique to a Purple Colored Rice Landrace (Oryza sativa ssp. indica cv. Purpleputtu)

(2019) V. B. Reddy Lachagari et al.   Frontiers in Plant Science

Resequencing a core collection of upland cotton identifies genomic variation and loci influencing fiber quality and yield

(2018) Zhiying Ma et al.   NATURE GENETICS

Mutations in a subfamily of abscisic acid receptor genes promote rice growth and productivity

(2018) Chunbo Miao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcriptome analysis highlights key differentially expressed genes involved in cellulose and lignin biosynthesis of sugarcane genotypes varying in fiber content

(2018) Lakshmi Kasirajan et al.   Scientific Reports

Reference genome sequences of two cultivated allotetraploid cottons, Gossypium hirsutum and Gossypium barbadense

(2018) Maojun Wang et al.   NATURE GENETICS

Genomic analyses in cotton identify signatures of selection and loci associated with fiber quality and yield traits

(2017) Lei Fang et al.   NATURE GENETICS

Asymmetric subgenome selection and cis-regulatory divergence during cotton domestication

(2017) Maojun Wang et al.   NATURE GENETICS

Genome-wide association study discovered genetic variation and candidate genes of fibre quality traits in Gossypium hirsutum L.

(2017) Zhengwen Sun et al.   PLANT BIOTECHNOLOGY JOURNAL

Genetic changes in a novel breeding population of Brassica napus synthesized from hundreds of crosses between B. rapa and B. carinata

(2017) Jun Zou et al.   PLANT BIOTECHNOLOGY JOURNAL

Genome-wide characterization of the Rab gene family in Gossypium by comparative analysis

(2017) Peng Li et al.   Botanical Studies

Crop yield prediction under soil salinity using satellite derived vegetation indices

(2016) Onur Satir et al.   FIELD CROPS RESEARCH

Fibre elongation requires normal redox homeostasis modulated by cytosolic ascorbate peroxidase in cotton (Gossypium hirsutum)

(2016) Kai Guo et al.   JOURNAL OF EXPERIMENTAL BOTANY

Genetic Diversity of the Two Commercial Tetraploid Cotton Species in theGossypiumDiversity Reference Set

(2016) Lori L. Hinze et al.   JOURNAL OF HEREDITY

Genome sequence of cultivated Upland cotton (Gossypium hirsutum TM-1) provides insights into genome evolution

(2015) Fuguang Li et al.   NATURE BIOTECHNOLOGY

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

(2015) Zhengkui Zhou et al.   NATURE BIOTECHNOLOGY

Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement

(2015) Tianzhen Zhang et al.   NATURE BIOTECHNOLOGY

Genetic discovery for oil production and quality in sesame

(2015) Xin Wei et al.   Nature Communications

A transposable element in a NAC gene is associated with drought tolerance in maize seedlings

(2015) Hude Mao et al.   Nature Communications

Molecular Markers and Cotton Genetic Improvement: Current Status and Future Prospects

(2014) Waqas Malik et al.   TheScientificWorldJOURNAL

Comparative Evolutionary and Developmental Dynamics of the Cotton (Gossypium hirsutum) Fiber Transcriptome

(2014) Mi-Jeong Yoo et al.   PLoS Genetics

Expression of wild soybean WRKY20 in Arabidopsis enhances drought tolerance and regulates ABA signalling

(2013) Xiao Luo et al.   JOURNAL OF EXPERIMENTAL BOTANY

Evolution of crop species: genetics of domestication and diversification

(2013) Rachel S. Meyer et al.   NATURE REVIEWS GENETICS

Proteomic profiling of developing cotton fibers from wild and domesticatedGossypium barbadense

(2013) Guanjing Hu et al.   NEW PHYTOLOGIST

ABA inhibits entry into stomatal-lineage development in Arabidopsis leaves

(2013) Yoko Tanaka et al.   PLANT JOURNAL

Genetic diversity and population structure in the US Upland cotton (Gossypium hirsutum L.)

(2013) Priyanka Tyagi et al.   THEORETICAL AND APPLIED GENETICS

Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres

(2012) Andrew H. Paterson et al.   NATURE

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Overexpression of GbWRKY1 positively regulates the Pi starvation response by alteration of auxin sensitivity in Arabidopsis

(2012) Li Xu et al.   PLANT CELL REPORTS

NGS QC Toolkit: A Toolkit for Quality Control of Next Generation Sequencing Data

(2012) Ravi K. Patel et al.   PLoS One

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Genomically Biased Accumulation of Seed Storage Proteins in Allopolyploid Cotton

(2011) Guanjing Hu et al.   GENETICS

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

(2011) Xun Xu et al.   NATURE BIOTECHNOLOGY

Gene expression in developing fibres of Upland cotton (Gossypium hirsutum L.) was massively altered by domestication

(2010) Ryan A Rapp et al.   BMC BIOLOGY

Ascertainment Biases in SNP Chips Affect Measures of Population Divergence

(2010) A. Albrechtsen et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

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

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Parallel expression evolution of oxidative stress-related genes in fiber from wild and domesticated diploid and polyploid cotton (Gossypium)

(2009) Bhupendra Chaudhary et al.   BMC GENOMICS

Fast model-based estimation of ancestry in unrelated individuals

(2009) D. H. Alexander et al.   GENOME RESEARCH

Parallel Domestication, Convergent Evolution and Duplicated Gene Recruitment in Allopolyploid Cotton

(2008) R. Hovav et al.   GENETICS

Partitioned expression of duplicated genes during development and evolution of a single cell in a polyploid plant

(2008) R. Hovav et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA