De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes

MB Hufford, AS Seetharam, MR Woodhouse… - Science, 2021 - science.org
We report de novo genome assemblies, transcriptomes, annotations, and methylomes for
the 26 inbreds that serve as the founders for the maize nested association mapping …

The B73 maize genome: complexity, diversity, and dynamics

PS Schnable, D Ware, RS Fulton, JC Stein, F Wei… - science, 2009 - science.org
We report an improved draft nucleotide sequence of the 2.3-gigabase genome of maize, an
important crop plant and model for biological research. Over 32,000 genes were predicted …

A first-generation haplotype map of maize

MA Gore, JM Chia, RJ Elshire, Q Sun, ES Ersoz… - Science, 2009 - science.org
Maize is an important crop species of high genetic diversity. We identified and genotyped
several million sequence polymorphisms among 27 diverse maize inbred lines and …

Improved maize reference genome with single-molecule technologies

Y Jiao, P Peluso, J Shi, T Liang, MC Stitzer, B Wang… - Nature, 2017 - nature.com
Complete and accurate reference genomes and annotations provide fundamental tools for
characterization of genetic and functional variation. These resources facilitate the …

Maize genome sequencing by methylation filtration

LE Palmer, PD Rabinowicz, AL O'Shaughnessy… - Science, 2003 - science.org
Gene enrichment strategies offer an alternative to sequencing large and repetitive genomes
such as that of maize. We report the generation and analysis of nearly 100,000 …

Enrichment of gene-coding sequences in maize by genome filtration

CA Whitelaw, WB Barbazuk, G Pertea, AP Chan… - Science, 2003 - science.org
Approximately 80% of the maize genome comprises highly repetitive sequences
interspersed with single-copy, gene-rich sequences, and standard genome sequencing …

De novo genome assembly and analyses of 12 founder inbred lines provide insights into maize heterosis

B Wang, M Hou, J Shi, L Ku, W Song, C Li, Q Ning… - Nature Genetics, 2023 - nature.com
Hybrid maize displays superior heterosis and contributes over 30% of total worldwide cereal
production. However, the molecular mechanisms of heterosis remain obscure. Here we …

Differential methylation of genes and retrotransposons facilitates shotgun sequencing of the maize genome

PD Rabinowicz, K Schutz, N Dedhia, C Yordan… - Nature …, 1999 - nature.com
The genomes of higher plants and animals are highly differentiated, and are composed of a
relatively small number of genes and a large fraction of repetitive DNA. The bulk of this …

Genetic properties of the maize nested association mapping population

MD McMullen, S Kresovich, HS Villeda, P Bradbury… - Science, 2009 - science.org
Maize genetic diversity has been used to understand the molecular basis of phenotypic
variation and to improve agricultural efficiency and sustainability. We crossed 25 diverse …

Genome-wide patterns of genetic variation among elite maize inbred lines

J Lai, R Li, X Xu, W Jin, M Xu, H Zhao, Z Xiang… - Nature …, 2010 - nature.com
We have resequenced a group of six elite maize inbred lines, including the parents of the
most productive commercial hybrid in China. This effort uncovered more than 1,000,000 …