ArticleBMC genomics2011
Comparative analysis of pepper and tomato reveals euchromatin expansion of pepper genome caused by differential accumulation of Ty3/Gypsy-like elements.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 51 citations in OpenAlex.
- Spicy genes: mapping quantitative genomic regions and candidate genes for capsaicinoid and capsinoid biosynthesis in pepper.Frontiers in plant science · 2026Review
- Sophora genomes provide insight into the evolution of alkaloid metabolites along with small-scale gene duplication.BMC genomics · 2023Article
- Full-length LTR retroelements in Capsicum annuum revealed a few species-specific family bursts with insertional preferences.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2021Article
- Horizontal Transfer of LTR Retrotransposons Contributes to the Genome Diversity ofInternational journal of molecular sciences · 2021Article
- Differential nuclease sensitivity profiling uncovers a drought responsive change in maize leaf chromatin structure for two large retrotransposon derivatives,Plant direct · 2021Article
- Ancestral segmental duplication in Solanaceae is responsible for the origin of CRCa-CRCb paralogues in the family.Molecular genetics and genomics : MGG · 2020Article
- Genome relationships and LTR-retrotransposon diversity in three cultivated Capsicum L. (Solanaceae) species.BMC genomics · 2020Article
- Mapping of fruit length related QTLs in interspecific cross (Breeding science · 2018Article
- Diversity, distribution and dynamics of full-length Copia and Gypsy LTR retroelements in Solanum lycopersicum.Genetica · 2017Article
- Whole-genome sequencing of cultivated and wild peppers provides insights into Capsicum domestication and specialization.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Reference genomes and transcriptomes of Nicotiana sylvestris and Nicotiana tomentosiformis.Genome biology · 2013Article
- Article
- Analysis of plant LTR-retrotransposons at the fine-scale family level reveals individual molecular patterns.BMC genomics · 2012Article
- Emerging knowledge from genome sequencing of crop species.Molecular biotechnology · 2012Review
- Syntenic relationships between cucumber (Cucumis sativus L.) and melon (C. melo L.) chromosomes as revealed by comparative genetic mapping.BMC genomics · 2011Article
Corrections and comments
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Authors and funding
12 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundAmong the Solanaceae plants, the pepper genome is three times larger than that of tomato. Although the gene repertoire and gene order of both species are well conserved, the cause of the genome-size difference is not known. To determine the causes for the expansion of pepper euchromatic regions, we compared the pepper genome to that of tomato.
resultsFor sequence-level analysis, we generated 35.6 Mb of pepper genomic sequences from euchromatin enriched 1,245 pepper BAC clones. The comparative analysis of orthologous gene-rich regions between both species revealed insertion of transposons exclusively in the pepper sequences, maintaining the gene order and content. The most common type of the transposon found was the LTR retrotransposon. Phylogenetic comparison of the LTR retrotransposons revealed that two groups of Ty3/Gypsy-like elements (Tat and Athila) were overly accumulated in the pepper genome. The FISH analysis of the pepper Tat elements showed a random distribution in heterochromatic and euchromatic regions, whereas the tomato Tat elements showed heterochromatin-preferential accumulation.
conclusionsCompared to tomato pepper euchromatin doubled its size by differential accumulation of a specific group of Ty3/Gypsy-like elements. Our results could provide an insight on the mechanism of genome evolution in the Solanaceae family.
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