ArticleProceedings of the National Academy of Sciences of the United States of America2006
Remarkable variation in maize genome structure inferred from haplotype diversity at the bz locus.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
86 citing papers in PubMed, 237 citations in OpenAlex.
- High-quality chromosome-scale genome assemblies of 29 maize inbred lines of European breeding relevance.Scientific data · 2026Article
- Large DNA and protein language models enhance discovery of deleterious mutations in maize.Genome biology · 2025Article
- The unexplored diversity of rough-seeded lupins provides rich genomic resources and insights into lupin evolution.Nature communications · 2025Article
- Deciphering recent transposition patterns in plants through comparison of 811 genome assemblies.Plant biotechnology journal · 2025Article
- A unified framework to analyze transposable element insertion polymorphisms using graph genomes.Nature communications · 2024Article
- Combined analysis of transposable elements and structural variation in maize genomes reveals genome contraction outpaces expansion.PLoS genetics · 2023Article
- Abundance of Transgene Transcript Variants Associated with Somatically Active TransgenicInternational journal of molecular sciences · 2023Article
- Graph-based pangenomics maximizes genotyping density and reveals structural impacts on fungal resistance in melon.Nature communications · 2022Article
- Maize Flavonoid Biosynthesis, Regulation, and Human Health Relevance: A Review.Molecules (Basel, Switzerland) · 2022Review
- Retrotransposons: How the continuous evolutionary front shapes plant genomes for response to heat stress.Frontiers in plant science · 2022Review
- Stability of DNA methylation and chromatin accessibility in structurally diverse maize genomes.G3 (Bethesda, Md.) · 2021Article
- Chromosome-level genome assembly of a regenerable maize inbred line A188.Genome biology · 2021Article
- LTR-retrotransposon dynamics in common fig (Ficus carica L.) genome.BMC plant biology · 2021Article
- Assessing the regulatory potential of transposable elements using chromatin accessibility profiles of maize transposons.Genetics · 2021Article
- Genomic resources in plant breeding for sustainable agriculture.Journal of plant physiology · 2021Review
- European maize genomes highlight intraspecies variation in repeat and gene content.Nature genetics · 2020Article
- Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development.BMC genomics · 2019Article
- Technological advances in maize breeding: past, present and future.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2019Review
- Insights into the Evolution of the New World Diploid Cottons (Gossypium, Subgenus Houzingenia) Based on Genome Sequencing.Genome biology and evolution · 2019Article
- Specific LTR-Retrotransposons Show Copy Number Variations between Wild and Cultivated Sunflowers.Genes · 2018Article
26 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Maize is probably the most diverse of all crop species. Unexpectedly large differences among haplotypes were first revealed in a comparison of the bz genomic regions of two different inbred lines, McC and B73. Retrotransposon clusters, which comprise most of the repetitive DNA in maize, varied markedly in makeup, and location relative to the genes in the region and genic sequences, later shown to be carried by two helitron transposons, also differed between the inbreds. Thus, the allelic bz regions of these Corn Belt inbreds shared only a minority of the total sequence. To investigate further the variation caused by retrotransposons, helitrons, and other insertions, we have analyzed the organization of the bz genomic region in five additional cultivars selected because of their geographic and genetic diversity: the inbreds A188, CML258, and I137TN, and the land races Coroico and NalTel. This vertical comparison has revealed the existence of several new helitrons, new retrotransposons, members of every superfamily of DNA transposons, numerous miniature elements, and novel insertions flanked at either end by TA repeats, which we call TAFTs (TA-flanked transposons). The extent of variation in the region is remarkable. In pairwise comparisons of eight bz haplotypes, the percentage of shared sequences ranges from 25% to 84%. Chimeric haplotypes were identified that combine retrotransposon clusters found in different haplotypes. We propose that recombination in the common gene space greatly amplifies the variability produced by the retrotransposition explosion in the maize ancestry, creating the heterogeneity in genome organization found in modern maize.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.