Project Documentation & Protocols

One of the goals of MaizeGDB is to collect documenation and protocols from significant maize studies. We are collecting these documents here as a central repository for future usage. Below is a list of projects for which we archive documentation and protocols:

[Active] The B73 genome sequencing project

The maize genome sequencing project selected the cultivar B73 to be the representative maize genome. The project published the first draft assembly of the maize genome in 2009 (Schnable et al., 2009).

[Active] Dooner and Du Ds-GFP insertions

This project produced a set of sequence-indexed stocks taged with transposed Ds elements tagged with GFP. Some of these insertions have been validated by the Fowler lab through a related project, part of the Maize Gametophyte Project.

[Active] Maize Diversity Project (Panzea)

The Maize Diversity Project investigates the relationship between phenotype and genotype with a focus on rare genetic variations. Information about this project can be found at the Panzea website.

[Active] The NAM founders sequencing project

It has become very apparent that a significant portion of the genetic diversity in maize is not captured in the representative genome assemblies of B73. To capture a more complete pan-maize genome, a project to produce assemblies of the highly diverse 25 maize NAM founders, all constructed with the same technologies and processes was started in 2018. The complete genome assemblies of all 25 founders were released in January, 2020.

[Active] UniformMu Mus2Use Transposon Resource

The latest set of UniformMu germinal insertions mapped in the maize genome now available at MaizeGDB, and the corresponding consensus W22 insertion flanking sequences are deposited in Genbank. Individual seed stocks containing these insertions are now available for distribution through the Stock Center.

Cytogenetic Map of Maize Project

The Cytogenetic Map of Maize Project aims to produce a cytogenetic map of the entire maize genome (NSF-DBI-0321639) using sorghum BACs as fluorescence in situ hybridization (FISH) probes on pachytene spreads. The goals of the project all involve using FISH to determine the cytogenetic locations of genetically mapped maize marker sequences. Specific aims are (1) to develop a framework cytogenetic map with markers (CBMs) distributed at 10-20 cM intervals, (2) to develop a detailed map of maize chromosome 9, and (3) to map centromeric loci as an indirect method of locating the centromeres more precisely within the current linkage maps.

Maize Gene Discovery Project

In 1998, with a $12.5 million National Science Foundation grant, the Maize Gene Discovery Project (MGDP) set out to identify a majority of maize (Zea mays) genes in five years' time. They also planned to develop mutant seeds, databases, and various tools that could be used to determine the function of many maize genes. With that foundation established, they hoped researchers could more efficiently pursue studies that would improve crop yields, contribute to our understanding of cereal genetics, and promote fundamental discoveries in plant biology.

Maize Mapping Project

The primary goal of this project is to take the first step toward understanding the structure and function of the Maize Genome by developing and disseminating a comprehensive integrated physical and genetic map of the Maize genome. This will involve the preparation of Maize Genome fragments inserted into a Bacterial Artificial Chromosome library, and the development and use of an array of markers (Expressed Sequence Tags, Single Sequence Repeats and Radiation Hybrids) to help determine the map. In all cases the results (the map) and the reagents (the markers) will be made available to the scientific community at large.