ArticlePLoS genetics2009
The physical and genetic framework of the maize B73 genome.
Article in PLoS genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 56 papers.
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56 citing papers in PubMed, 107 citations in OpenAlex.
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- Comparative analysis of the male inflorescence transcriptome profiles of an ms22 mutant of maize.PloS one · 2018Article
- A Critical Assessment of 60 Years of Maize Intragenic Recombination.Frontiers in plant science · 2018Review
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- Genome puzzle master (GPM): an integrated pipeline for building and editing pseudomolecules from fragmented sequences.Bioinformatics (Oxford, England) · 2016Article
- Biosynthesis of 8-O-Methylated Benzoxazinoid Defense Compounds in Maize.The Plant cell · 2016Article
- Unveiling the complexity of the maize transcriptome by single-molecule long-read sequencing.Nature communications · 2016Article
- Identification and Characterization of Maize salmon silks Genes Involved in Insecticidal Maysin Biosynthesis.The Plant cell · 2016Article
- Maligner: a fast ordered restriction map aligner.Bioinformatics (Oxford, England) · 2016Article
- High Quality Maize Centromere 10 Sequence Reveals Evidence of Frequent Recombination Events.Frontiers in plant science · 2016Article
- DNA methylation epigenetically silences crossover hot spots and controls chromosomal domains of meiotic recombination in Arabidopsis.Genes & development · 2015Article
- Automated update, revision, and quality control of the maize genome annotations using MAKER-P improves the B73 RefGen_v3 gene models and identifies new genes.Plant physiology · 2015Article
- Image processing for optical mapping.GigaScience · 2015Review
Corrections and comments
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Authors and funding
20 authors at 6 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Maize is a major cereal crop and an important model system for basic biological research. Knowledge gained from maize research can also be used to genetically improve its grass relatives such as sorghum, wheat, and rice. The primary objective of the Maize Genome Sequencing Consortium (MGSC) was to generate a reference genome sequence that was integrated with both the physical and genetic maps. Using a previously published integrated genetic and physical map, combined with in-coming maize genomic sequence, new sequence-based genetic markers, and an optical map, we dynamically picked a minimum tiling path (MTP) of 16,910 bacterial artificial chromosome (BAC) and fosmid clones that were used by the MGSC to sequence the maize genome. The final MTP resulted in a significantly improved physical map that reduced the number of contigs from 721 to 435, incorporated a total of 8,315 mapped markers, and ordered and oriented the majority of FPC contigs. The new integrated physical and genetic map covered 2,120 Mb (93%) of the 2,300-Mb genome, of which 405 contigs were anchored to the genetic map, totaling 2,103.4 Mb (99.2% of the 2,120 Mb physical map). More importantly, 336 contigs, comprising 94.0% of the physical map ( approximately 1,993 Mb), were ordered and oriented. Finally we used all available physical, sequence, genetic, and optical data to generate a golden path (AGP) of chromosome-based pseudomolecules, herein referred to as the B73 Reference Genome Sequence version 1 (B73 RefGen_v1).
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.