ArticleGenome research2006
Uneven chromosome contraction and expansion in the maize genome.
Article in Genome research, 2006. 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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Who cites it
56 citing papers in PubMed, 115 citations in OpenAlex.
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- Insights into the Evolution of Ohnologous Sequences and Their Epigenetic Marks Post-WGD in Malus Domestica.Genome biology and evolution · 2023Article
- De novo transcriptome assembly from the nodal root growth zone of hydrated and water-deficit stressed maize inbred line FR697.Scientific reports · 2023Article
- Which factors contribute most to genome size variation within angiosperms?Ecology and evolution · 2021Article
- NAC-type transcription factors regulate accumulation of starch and protein in maize seeds.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Identification and functional characterization of intermediate-size non-coding RNAs in maize.BMC genomics · 2018Article
- Impact of transposable elements on polyploid plant genomes.Annals of botany · 2017Review
- Chimeras Linked to Tandem Repeats and Transposable Elements in Tetraploid Hybrid Fish.Marine biotechnology (New York, N.Y.) · 2017Article
- TTT and PIKK Complex Genes Reverted to Single Copy Following Polyploidization and Retain Function Despite Massive Retrotransposition in Maize.Frontiers in plant science · 2017Article
- Analysis of tandem gene copies in maize chromosomal regions reconstructed from long sequence reads.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- The Wukong Terminal-Repeat Retrotransposon in Miniature (TRIM) Elements in Diverse Maize Germplasm.G3 (Bethesda, Md.) · 2015Article
- Genome-Wide Identification, Phylogenetic and Expression Analyses of the Ubiquitin-Conjugating Enzyme Gene Family in Maize.PloS one · 2015Article
- Genome-wide analysis of alternative splicing in Volvox carteri.BMC genomics · 2014Article
- Expression and functional analysis of genes encoding cytokinin receptor-like histidine kinase in maize (Zea mays L.).Molecular genetics and genomics : MGG · 2014Article
- Genomic resources for gene discovery, functional genome annotation, and evolutionary studies of maize and its close relatives.Genetics · 2013Article
- Yellow lupin (Lupinus luteus L.) transcriptome sequencing: molecular marker development and comparative studies.BMC genomics · 2012Article
- Evolution and expression of tandem duplicated maize flavonol synthase genes.Frontiers in plant science · 2012Article
- Comparative sequence analysis of VRN1 alleles of Lolium perenne with the co-linear regions in barley, wheat, and rice.Molecular genetics and genomics : MGG · 2011Article
- Genome-wide identification and expression profiling of auxin response factor (ARF) gene family in maize.BMC genomics · 2011Article
Corrections and comments
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Authors and funding
24 authors at 8 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Maize (Zea mays or corn), both a major food source and an important cytogenetic model, evolved from a tetraploid that arose about 4.8 million years ago (Mya). As a result, maize has extensive duplicated regions within its genome. We have sequenced the two copies of one such region, generating 7.8 Mb of sequence spanning 17.4 cM of the short arm of chromosome 1 and 6.6 Mb (25.6 cM) from the long arm of chromosome 9. Rice, which did not undergo a similar whole genome duplication event, has only one orthologous region (4.9 Mb) on the short arm of chromosome 3, and can be used as reference for the maize homoeologous regions. Alignment of the three regions allowed identification of syntenic blocks, and indicated that the maize regions have undergone differential contraction in genic and intergenic regions and expansion by the insertion of retrotransposable elements. Approximately 9% of the predicted genes in each duplicated region are completely missing in the rice genome, and almost 20% have moved to other genomic locations. Predicted genes within these regions tend to be larger in maize than in rice, primarily because of the presence of predicted genes in maize with larger introns. Interestingly, the general gene methylation patterns in the maize homoeologous regions do not appear to have changed with contraction or expansion of their chromosomes. In addition, no differences in methylation of single genes and tandemly repeated gene copies have been detected. These results, therefore, provide new insights into the diploidization of polyploid species.
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