ArticleMolecular & general genetics : MGG1996
Ebb and flow of the chloroplast inverted repeat.
Article in Molecular & general genetics : MGG, 1996. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 202 papers.
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Who cites it
202 citing papers in PubMed, 410 citations in OpenAlex.
- Plastome evolution and phylogenomic insights from representative taxa across all nine subfamilies of Malvaceae.BMC plant biology · 2026Article
- Phylogenetic and evolutionary insights into Oedogoniales from nine newly sequenced chloroplast genomes.BMC plant biology · 2026Article
- Comparative plastid genomics of Hippophae reveals phylogenetic relationships and provides candidate DNA markers for taxonomic identification.Scientific reports · 2026Article
- Structural variation and evolutionary dynamics of plastid genomes in the subgenus Lychnis (Silene, Caryophyllaceae): insights from genome rearrangements and substitution rates.BMC plant biology · 2026Article
- The complete chloroplast genome ofFrontiers in plant science · 2026Article
- Plastome evidence repositionsFrontiers in plant science · 2026Article
- Comparative and phylogenetic analysis of chloroplast genomes in the subtribe Leptoboeinae (Gesneriaceae).Frontiers in plant science · 2026Article
- Plastome evolution at the edge: structural rearrangements, IR expansion, and gene flux in Hypericaceae (Malpighiales).BMC plant biology · 2025Article
- Wheat chloroplast pangenome reveals frequent intramolecular recombination in the inverted repeat regions.BMC plant biology · 2025Article
- Article
- Comparative plastome analysis of Schweinfurthia papilionacea and Schweinfurthia imbricata clarifying their taxonomic position in Lamiales.Scientific reports · 2025Article
- Beyond conservation: the landscape of chloroplast genome rearrangements in angiosperms.The New phytologist · 2025Review
- Elucidating time divergence and biogeography of Euonymus hamiltonianus complex using complete plastome analysis.Scientific reports · 2025Article
- Plastome phylogenomics of the diverse neotropical orchid genus Lepanthes with emphasis on subgenus Marsipanthes (Pleurothallidinae: Orchidaceae).BMC ecology and evolution · 2025Article
- Variation of and associations with the depth and evenness of sequencing coverage in archived plastid genomes.Scientific reports · 2025Article
- Variation of and associations with the depth and evenness of sequencing coverage in archived plastid genomes.Research square · 2025Article
- Comparative plastome evaluation, phylogenomic analysis, and DNA signatures of medicinally important malvaceous genera and their adulterants.Scientific reports · 2025Article
- Comprehensive analysis of complete Chloroplast genome sequence of Cardiospermum halicacabum L. (Sapindaceae).Scientific reports · 2025Article
- Novel perspectives on plastome evolution in Onagraceae.AoB PLANTS · 2025Article
- Six Newly Sequenced Chloroplast Genomes From Quadriflagellate Chlamydomonadales (Chlorophyceae): Phylogeny and Comparative Genome Analyses.Genome biology and evolution · 2025Article
142 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The endpoints of the large inverted repeat (IR) of chloroplast DNA in flowering plants differ by small amounts between species. To quantify the extent of this movement and define a possible mechanism for IR expansion, DNA sequences across the IR-large single-copy (IR-LSC) junctions were compared among 13 Nicotiana species and other dicots. In most Nicotiana species the IR terminates just upstream of, or somewhere within, the 5' portion of the rps19 gene. The truncated copy of this gene, rps19', varies in length even between closely related species but is of constant size within a single species. In Nicotiana, six different rps19' structures were found. A phylogenetic tree of Nicotiana species based on restriction site data shows that the IR has both expanded and contracted during the evolution of this genus. Gene conversion is proposed to account for these small and apparently random IR expansions. A large IR expansion of over 12 kb has occurred in Nicotiana acuminata. The new IR-LSC junction in this species lies within intron 1 of the clpP gene. This rearrangement occurred via a double-strand DNA break and recombination between poly (A) tracts in clpP intron 1 and upstream of rps19. Nicotiana acuminata chloroplast DNA contains a "molecular fossil' of the IR-LSC junction that existed prior to this dramatic rearrangement.
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