Crop genomics: advances and applications

PL Morrell, ES Buckler, J Ross-Ibarra - Nature Reviews Genetics, 2012 - nature.com
The completion of reference genome sequences for many important crops and the ability to
perform high-throughput resequencing are providing opportunities for improving our …

Genotyping-by-sequencing in plants

S Deschamps, V Llaca, GD May - Biology, 2012 - mdpi.com
The advent of next-generation DNA sequencing (NGS) technologies has led to the
development of rapid genome-wide Single Nucleotide Polymorphism (SNP) detection …

[HTML][HTML] The tomato genome sequence provides insights into fleshy fruit evolution

xx Tomato Genome Consortium - Nature, 2012 - ncbi.nlm.nih.gov
AUTHOR CONTRIBUTIONS AAL, ABA, ABE, ABG, ABO, AFI, AGR, AHA, AHU, AJA, AJM,
AJO, AKM, AKS, AKT, AMO, APA, ARI, ASI, ATR, AUS, AVE, BAR, BAW, BCK, BCM, BDK …

MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity

Y Wang, H Tang, JD DeBarry, X Tan, J Li… - Nucleic acids …, 2012 - academic.oup.com
MCScan is an algorithm able to scan multiple genomes or subgenomes in order to identify
putative homologous chromosomal regions, and align these regions using genes as …

A physical, genetic and functional sequence assembly of the barley genome.

KF Mayer, R Waugh, P Langridge, TJ Close, RP Wise… - Nature, 2012 - iris.unito.it
Barley (Hordeum vulgare L.) is among the world's earliest domesticated and most important
crop plants. It is diploid with a large haploid genome of 5.1 gigabases (Gb). Here we present …

Analysis of the bread wheat genome using whole-genome shotgun sequencing

R Brenchley, M Spannagl, M Pfeifer, GLA Barker… - Nature, 2012 - nature.com
Bread wheat (Triticum aestivum) is a globally important crop, accounting for 20 per cent of
the calories consumed by humans. Major efforts are underway worldwide to increase wheat …

Phytozome: a comparative platform for green plant genomics

DM Goodstein, S Shu, R Howson… - Nucleic acids …, 2012 - academic.oup.com
The number of sequenced plant genomes and associated genomic resources is growing
rapidly with the advent of both an increased focus on plant genomics from funding agencies …

Reference genome sequence of the model plant Setaria

JL Bennetzen, J Schmutz, H Wang, R Percifield… - Nature …, 2012 - nature.com
We generated a high-quality reference genome sequence for foxtail millet (Setaria italica).
The∼ 400-Mb assembly covers∼ 80% of the genome and> 95% of the gene space. The …

[PDF][PDF] Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers

RK Varshney, W Chen, Y Li, AK Bharti… - Nature …, 2012 - nature.com
Pigeonpea is an important legume food crop grown primarily by smallholder farmers in
many semi-arid tropical regions of the world. We used the Illumina next-generation …

[HTML][HTML] Genome sequence of foxtail millet (Setaria italica) provides insights into grass evolution and biofuel potential

G Zhang, X Liu, Z Quan, S Cheng, X Xu, S Pan… - Nature …, 2012 - nature.com
Foxtail millet (Setaria italica), a member of the Poaceae grass family, is an important food
and fodder crop in arid regions and has potential for use as a C 4 biofuel. It is a model …