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Related Concept Videos

Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
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Related Experiment Video

Updated: Jun 18, 2026

Scalable Transfection of Maize Mesophyll Protoplasts
08:38

Scalable Transfection of Maize Mesophyll Protoplasts

Published on: June 23, 2023

A single molecule scaffold for the maize genome.

Shiguo Zhou1, Fusheng Wei, John Nguyen

  • 1Laboratory for Molecular and Computational Genomics, Department of Chemistry, Laboratory of Genetics, UW Biotechnology Center, University of Wisconsin-Madison, Madison, Wisconsin, United States of America.

Plos Genetics
|November 26, 2009
PubMed
Summary

A new high-resolution optical map of the maize genome was created to improve sequence accuracy. This map aids in identifying gaps and refining assemblies, facilitating future maize genome research and comparative studies.

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Agrobacterium-Mediated Immature Embryo Transformation of Recalcitrant Maize Inbred Lines Using Morphogenic Genes
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Agrobacterium-Mediated Immature Embryo Transformation of Recalcitrant Maize Inbred Lines Using Morphogenic Genes

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Area of Science:

  • Genomics
  • Plant Biology
  • Bioinformatics

Background:

  • Maize genome is complex, with ~85% repetitive sequences.
  • Existing integrated map (iMap) insufficient for current sequence build quality.

Purpose of the Study:

  • Construct a high-resolution optical map for the maize B73 genome.
  • Improve the quality and completeness of the maize genome sequence build.
  • Facilitate maize genome finishing and comparative genomics.

Main Methods:

  • Generated a genome-wide optical map of maize B73 using >91,000 restriction sites.
  • Developed a new algorithm integrating optical map and BAC sequence data.
  • Aligned optical maps with iMap, FPC map, and pseudomolecules.

Main Results:

  • Optical map covers 91.5% of the maize genome in 66 contigs.
  • New algorithm placed 60/66 contigs onto the maize iMap.
  • Identified gaps and suggested improvements in existing maize genome maps and assemblies.

Conclusions:

  • Optical maps significantly enhance maize genome sequence quality.
  • Integration with iMap aids sequence finishing and pseudomolecule assembly.
  • Valuable resource for comparative genomics in maize and other cereals.