Toward Genomics-Based Breeding in C3 Cool-Season Perennial Grasses.

PubWeight™: 0.75‹?›

🔗 View Article (PMID 28798766)

Published in Front Plant Sci on July 26, 2017

Authors

Shyamal K Talukder1, Malay C Saha1

Author Affiliations

1: Noble Research Institute, LLC, ArdmoreOK, United States.

Articles cited by this

(truncated to the top 100)

RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet (2009) 58.77

Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat Biotechnol (2011) 53.86

A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science (2002) 42.78

Prediction of total genetic value using genome-wide dense marker maps. Genetics (2001) 41.25

Targeted capture and massively parallel sequencing of 12 human exomes. Nature (2009) 33.96

Genetics of gene expression surveyed in maize, mouse and man. Nature (2003) 22.17

A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science (2002) 21.26

A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS One (2011) 15.19

Genetic diagnosis by whole exome capture and massively parallel DNA sequencing. Proc Natl Acad Sci U S A (2009) 15.09

Rapid SNP discovery and genetic mapping using sequenced RAD markers. PLoS One (2008) 13.64

Genome regulation by long noncoding RNAs. Annu Rev Biochem (2012) 11.70

Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature (2010) 9.52

Genome-wide association studies of 14 agronomic traits in rice landraces. Nat Genet (2010) 8.75

Genetic properties of the maize nested association mapping population. Science (2009) 7.78

A physical, genetic and functional sequence assembly of the barley genome. Nature (2012) 7.25

Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags. PLoS Genet (2010) 7.05

Breeding technologies to increase crop production in a changing world. Science (2010) 6.86

The genetic theory of adaptation: a brief history. Nat Rev Genet (2005) 6.55

Development of high-density genetic maps for barley and wheat using a novel two-enzyme genotyping-by-sequencing approach. PLoS One (2012) 5.64

Genetic design and statistical power of nested association mapping in maize. Genetics (2008) 4.92

Genomic selection in plant breeding: from theory to practice. Brief Funct Genomics (2010) 4.87

A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome. Science (2014) 4.80

Genetic architecture of quantitative traits in mice, flies, and humans. Genome Res (2009) 4.62

Large-scale discovery of induced point mutations with high-throughput TILLING. Genome Res (2003) 4.39

Development and implementation of high-throughput SNP genotyping in barley. BMC Genomics (2009) 4.23

Phenomics: the next challenge. Nat Rev Genet (2010) 4.20

The 1001 genomes project for Arabidopsis thaliana. Genome Biol (2009) 4.10

Characterization of polyploid wheat genomic diversity using a high-density 90,000 single nucleotide polymorphism array. Plant Biotechnol J (2014) 4.02

A reference genome for common bean and genome-wide analysis of dual domestications. Nat Genet (2014) 3.88

Field high-throughput phenotyping: the new crop breeding frontier. Trends Plant Sci (2013) 3.80

Construction and application for QTL analysis of a Restriction Site Associated DNA (RAD) linkage map in barley. BMC Genomics (2011) 3.42

Aegilops tauschii draft genome sequence reveals a gene repertoire for wheat adaptation. Nature (2013) 3.40

Reference genome sequence of the model plant Setaria. Nat Biotechnol (2012) 3.21

Plant breeding and drought in C3 cereals: what should we breed for? Ann Bot (2002) 3.15

Loss of function of a proline-containing protein confers durable disease resistance in rice. Science (2009) 3.03

Draft genome of the wheat A-genome progenitor Triticum urartu. Nature (2013) 2.86

Genetic and molecular bases of rice yield. Annu Rev Plant Biol (2010) 2.80

A structured mutant population for forward and reverse genetics in Barley (Hordeum vulgare L.). Plant J (2004) 2.77

Next-generation phenotyping: requirements and strategies for enhancing our understanding of genotype-phenotype relationships and its relevance to crop improvement. Theor Appl Genet (2013) 2.75

Function annotation of the rice transcriptome at single-nucleotide resolution by RNA-seq. Genome Res (2010) 2.73

Parent-independent genotyping for constructing an ultrahigh-density linkage map based on population sequencing. Proc Natl Acad Sci U S A (2010) 2.63

Efficient discovery of DNA polymorphisms in natural populations by Ecotilling. Plant J (2004) 2.45

Mapping with RAD (restriction-site associated DNA) markers to rapidly identify QTL for stem rust resistance in Lolium perenne. Theor Appl Genet (2011) 2.41

Population genomic and genome-wide association studies of agroclimatic traits in sorghum. Proc Natl Acad Sci U S A (2012) 2.40

Mismatch cleavage by single-strand specific nucleases. Nucleic Acids Res (2004) 2.14

Sequence assembly demystified. Nat Rev Genet (2013) 2.09

Genetic architecture of complex traits in plants. Curr Opin Plant Biol (2007) 2.08

Meta-QTL analysis of the genetic control of ear emergence in elite European winter wheat germplasm. Theor Appl Genet (2009) 1.76

Thermography to explore plant-environment interactions. J Exp Bot (2013) 1.70

Genomics-based approaches to improve drought tolerance of crops. Trends Plant Sci (2006) 1.64

Breeding by design. Trends Plant Sci (2003) 1.61

SNP-Seek database of SNPs derived from 3000 rice genomes. Nucleic Acids Res (2014) 1.61

A high-density transcript linkage map of barley derived from a single population. Heredity (Edinb) (2009) 1.59

Genomic prediction in CIMMYT maize and wheat breeding programs. Heredity (Edinb) (2013) 1.59

Gene content and virtual gene order of barley chromosome 1H. Plant Physiol (2009) 1.53

The real cost of sequencing: scaling computation to keep pace with data generation. Genome Biol (2016) 1.53

Natural variations and genome-wide association studies in crop plants. Annu Rev Plant Biol (2013) 1.50

De Novo Transcriptome Analysis for Kentucky Bluegrass Dwarf Mutants Induced by Space Mutation. PLoS One (2016) 1.43

Harvesting the promising fruits of genomics: applying genome sequencing technologies to crop breeding. PLoS Biol (2014) 1.42

Dissecting the regulation of fructan metabolism in perennial ryegrass (Lolium perenne) with quantitative trait locus mapping. New Phytol (2006) 1.41

Increasing photosynthetic carbon assimilation in C3 plants to improve crop yield: current and future strategies. Plant Physiol (2010) 1.39

Targeted re-sequencing of the allohexaploid wheat exome. Plant Biotechnol J (2012) 1.35

Barley whole exome capture: a tool for genomic research in the genus Hordeum and beyond. Plant J (2013) 1.34

Genomics and bioinformatics resources for crop improvement. Plant Cell Physiol (2010) 1.33

QTL mapping of vernalization response in perennial ryegrass (Lolium perenne L.) reveals co-location with an orthologue of wheat VRN1. Theor Appl Genet (2004) 1.32

Model SNP development for complex genomes based on hexaploid oat using high-throughput 454 sequencing technology. BMC Genomics (2011) 1.29

Efficient Genome-Wide Detection and Cataloging of EMS-Induced Mutations Using Exome Capture and Next-Generation Sequencing. Plant Cell (2014) 1.21

High-throughput genetic mapping of mutants via quantitative single nucleotide polymorphism typing. Genetics (2009) 1.19

Automated phenotyping of plant shoots using imaging methods for analysis of plant stress responses - a review. Plant Methods (2015) 1.14

An SSR- and AFLP-based genetic linkage map of tall fescue (Festuca arundinacea Schreb.). Theor Appl Genet (2004) 1.11

Genome wide allele frequency fingerprints (GWAFFs) of populations via genotyping by sequencing. PLoS One (2013) 1.11

Application of genomic tools in plant breeding. Curr Genomics (2012) 1.09

De novo assembly of red clover transcriptome based on RNA-Seq data provides insight into drought response, gene discovery and marker identification. BMC Genomics (2014) 1.09

Contribution of NAC transcription factors to plant adaptation to land. Science (2014) 1.06

High-density genetic linkage map construction and identification of fruit-related QTLs in pear using SNP and SSR markers. J Exp Bot (2014) 1.06

Discovery and development of exome-based, co-dominant single nucleotide polymorphism markers in hexaploid wheat (Triticum aestivum L.). Plant Biotechnol J (2012) 1.05

The perennial ryegrass GenomeZipper: targeted use of genome resources for comparative grass genomics. Plant Physiol (2012) 1.04

Synteny between a major heading-date QTL in perennial ryegrass (Lolium perenne L.) and the Hd3 heading-date locus in rice. Theor Appl Genet (2003) 1.02

Evolutionary biology for the 21st century. PLoS Biol (2013) 1.01

Genotyping by RAD sequencing enables mapping of fatty acid composition traits in perennial ryegrass (Lolium perenne (L.)). Plant Biotechnol J (2013) 1.01

De novo transcriptome analysis of an imminent biofuel crop, Camelina sativa L. using Illumina GAIIX sequencing platform and identification of SSR markers. Plant Mol Biol (2013) 0.99

Genomics-assisted breeding in four major pulse crops of developing countries: present status and prospects. Theor Appl Genet (2014) 0.98

Transcriptome sequencing of mung bean (Vigna radiate L.) genes and the identification of EST-SSR markers. PLoS One (2015) 0.98

How can we use genomics to improve cereals with rice as a reference genome? Plant Mol Biol (2005) 0.98

Genome-wide association studies and prediction of 17 traits related to phenology, biomass and cell wall composition in the energy grass Miscanthus sinensis. New Phytol (2013) 0.97

Deep transcriptome sequencing provides new insights into the structural and functional organization of the wheat genome. Genome Biol (2015) 0.97

Identification of SNP markers for inferring phylogeny in temperate bamboos (Poaceae: Bambusoideae) using RAD sequencing. Mol Ecol Resour (2013) 0.96

A synteny-based draft genome sequence of the forage grass Lolium perenne. Plant J (2015) 0.96

Association of candidate genes with drought tolerance traits in diverse perennial ryegrass accessions. J Exp Bot (2013) 0.95

In plants, decapping prevents RDR6-dependent production of small interfering RNAs from endogenous mRNAs. Nucleic Acids Res (2015) 0.94

QTL analyses and comparative genetic mapping of frost tolerance, winter survival and drought tolerance in meadow fescue (Festuca pratensis Huds.). Theor Appl Genet (2011) 0.93

Mapping QTL for the traits associated with heat tolerance in wheat (Triticum aestivum L.). BMC Genet (2014) 0.92

Identification of QTLs for morphological traits influencing waterlogging tolerance in perennial ryegrass (Lolium perenne L.). Theor Appl Genet (2010) 0.92

Mapping and Comparative Analysis of QTL for Crown Rust Resistance in an Italian x Perennial Ryegrass Population. Phytopathology (2007) 0.89

Pyramiding of three bacterial blight resistance genes for broad-spectrum resistance in deepwater rice variety, Jalmagna. Rice (N Y) (2015) 0.88

Transcriptome sequencing and marker development for four underutilized legumes. Appl Plant Sci (2015) 0.88

Four QTLs determine crown rust (Puccinia coronata f. sp. lolii) resistance in a perennial ryegrass (Lolium perenne) population. Heredity (Edinb) (2005) 0.88

Candidate gene association mapping for winter survival and spring regrowth in perennial ryegrass. Plant Sci (2015) 0.87

Transcriptome sequencing of different narrow-leafed lupin tissue types provides a comprehensive uni-gene assembly and extensive gene-based molecular markers. Plant Biotechnol J (2014) 0.87

Leaf Rubisco turnover in a perennial ryegrass (Lolium perenne L.) mapping population: genetic variation, identification of associated QTL, and correlation with plant morphology and yield. J Exp Bot (2013) 0.87