ArticlePlant molecular biology2005
Comparative sequence analysis of the phytochrome C gene and its upstream region in allohexaploid wheat reveals new data on the evolution of its three constituent genomes.
Article in Plant molecular biology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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19 citing papers in PubMed, 31 citations in OpenAlex.
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- Engineering plant photoreceptors towards enhancing plant productivity.Plant molecular biology · 2025Review
- Functions of Plant Phytochrome Signaling Pathways in Adaptation to Diverse Stresses.International journal of molecular sciences · 2023Review
- Identification of new heading date determinants in wheat 5B chromosome.BMC plant biology · 2016Article
- A Developmental Transcriptome Map for AllotetraploidFrontiers in plant science · 2016Article
- SWEEP: A Tool for Filtering High-Quality SNPs in Polyploid Crops.G3 (Bethesda, Md.) · 2015Article
- T-lex2: genotyping, frequency estimation and re-annotation of transposable elements using single or pooled next-generation sequencing data.Nucleic acids research · 2015Article
- Transcriptome analysis of an mvp mutant reveals important changes in global gene expression and a role for methyl jasmonate in vernalization and flowering in wheat.Journal of experimental botany · 2014Article
- Haplotype Analysis and Linkage Disequilibrium at Five Loci in Eragrostis tef.G3 (Bethesda, Md.) · 2012Article
- Characterization of the maintained vegetative phase deletions from diploid wheat and their effect on VRN2 and FT transcript levels.Molecular genetics and genomics : MGG · 2010Article
- Relationship between homoeologous regulatory and structural genes in allopolyploid genome - a case study in bread wheat.BMC plant biology · 2008Article
- Acc homoeoloci and the evolution of wheat genomes.Proceedings of the National Academy of Sciences of the United States of America · 2008Article
- Architectural evolution and its implications for domestication in grasses.Annals of botany · 2007Review
- Analysis of EST sequences suggests recent origin of allotetraploid colonial and creeping bentgrasses.Molecular genetics and genomics : MGG · 2007Article
- Single-copy genes define a conserved order between rice and wheat for understanding differences caused by duplication, deletion, and transposition of genes.Functional & integrative genomics · 2007Article
- Types and rates of sequence evolution at the high-molecular-weight glutenin locus in hexaploid wheat and its ancestral genomes.Genetics · 2006Article
- The PHYTOCHROME C photoreceptor gene mediates natural variation in flowering and growth responses of Arabidopsis thaliana.Nature genetics · 2006Article
- Positional relationships between photoperiod response QTL and photoreceptor and vernalization genes in barley.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2006Article
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Authors and funding
4 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Bread wheat is an allohexaploid with genome composition AABBDD. Phytochrome C is a gene involved in photomorphogenesis that has been used extensively for phylogenetic analyses. In wheat, the PhyC genes are single copy in each of the three homoeologous genomes and map to orthologous positions on the long arms of the group 5 chromosomes. Comparative sequence analysis of the three homoeologous copies of the wheat PhyC gene and of some 5 kb of upstream region has demonstrated a high level of conservation of PhyC, but frequent interruption of the upstream regions by the insertion of retroelements and other repeats. One of the repeats in the region under investigation appeared to have inserted before the divergence of the diploid wheat genomes, but was degraded to the extent that similarity between the A and D copies could only be observed at the amino acid level. Evidence was found for the differential presence of a foldback element and a miniature inverted-repeat transposable element (MITE) 5' to PhyC in different wheat cultivars. The latter may represent the first example of an active MITE family in the wheat genome. Several conserved non-coding sequences were also identified that may represent functional regulatory elements. The level of sequence divergence (Ks) between the three wheat PhyC homoeologs suggests that the divergence of the diploid wheat ancestors occurred some 6.9 Mya, which is considerably earlier than the previously estimated 2.5-4.5 Mya. Ka/Ks ratios were <0.15 indicating that all three homoeologs are under purifying selection and presumably represent functional PhyC genes. RT-PCR confirmed expression of the A, B and D copies. The discrepancy in evolutionary age of the wheat genomes estimated using sequences from different parts of the genome may reflect a mosaic origin of some of the Triticeae genomes.
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