Introns in Chloroplast Protein-coding Genes of Land Plants

Overview

Journal Photosynth Res

Publisher Springer

Date 2014 Jan 17

PMID 24430990

Citations 9

Authors

A L Plant

J C Gray

Affiliations

Soon will be listed here.

Abstract

Several protein-coding genes from land plant chloroplasts have been shown to contain introns. The majority of these introns resemble the fungal mitochondrial group II introns due to considerable nucleotide sequence homology at their 5' and 3' ends and they can readily be folded to form six hairpins characteristic of the predicted secondary structure of the mitochondrial group II introns. Recently it has been demonstrated that some mitochondrial group II introns are capable of self-splicing in vitro in the absence of protein co-factors. However evidence presented in this overview suggests that this is probably not the case for chloroplast introns and that trans-acting factors are almost certainly involved in their processing reactions.

Citing Articles

Independent Size Expansions and Intron Proliferation in Red Algal Plastid and Mitochondrial Genomes.

van Beveren F, Eme L, Lopez-Garcia P, Ciobanu M, Moreira D Genome Biol Evol. 2022; 14(4).

PMID: 35289373 PMC: 8995046. DOI: 10.1093/gbe/evac037.

Comprehensive genomic analyses with 115 plastomes from algae to seed plants: structure, gene contents, GC contents, and introns.

Kwon E, Kim J, Kim N Genes Genomics. 2020; 42(5):553-570.

PMID: 32200544 DOI: 10.1007/s13258-020-00923-x.

Comparative genomics of 11 complete chloroplast genomes of Senecioneae (Asteraceae) species: DNA barcodes and phylogenetics.

Gichira A, Avoga S, Li Z, Hu G, Wang Q, Chen J Bot Stud. 2019; 60(1):17.

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Target sequence capture of nuclear-encoded genes for phylogenetic analysis in ferns.

Wolf P, Robison T, Johnson M, Sundue M, Testo W, Rothfels C Appl Plant Sci. 2018; 6(5):e01148.

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Chloroplast RNA processing and stability.

Herrin D, Nickelsen J Photosynth Res. 2005; 82(3):301-14.

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References

Koch W, Edwards K, Kossel H . Sequencing of the 16S-23S spacer in a ribosomal RNA operon of Zea mays chloroplast DNA reveals two split tRNA genes. Cell. 1981; 25(1):203-13. DOI: 10.1016/0092-8674(81)90245-2. View

van der Veen R, Arnberg A, Van Der Horst G, Bonen L, Tabak H, Grivell L . Excised group II introns in yeast mitochondria are lariats and can be formed by self-splicing in vitro. Cell. 1986; 44(2):225-34. DOI: 10.1016/0092-8674(86)90756-7. View

Westhoff P, Farchaus J, Herrmann R . The gene for the Mr 10,000 phosphoprotein associated with photosystem II is part of the psbB operon of the spinach plastid chromosome. Curr Genet. 1986; 11(3):165-9. DOI: 10.1007/BF00420602. View

Bonitz S, Coruzzi G, Thalenfeld B, Tzagoloff A, Macino G . Assembly of the mitochondrial membrane system. Structure and nucleotide sequence of the gene coding for subunit 1 of yeast cytochrme oxidase. J Biol Chem. 1980; 255(24):11927-41. View

Kruger K, Grabowski P, Zaug A, Sands J, Gottschling D, Cech T . Self-splicing RNA: autoexcision and autocyclization of the ribosomal RNA intervening sequence of Tetrahymena. Cell. 1982; 31(1):147-57. DOI: 10.1016/0092-8674(82)90414-7. View

Collins R, Lambowitz A . RNA splicing in Neurospora mitochondria. Defective splicing of mitochondrial mRNA precursors in the nuclear mutant cyt18-1. J Mol Biol. 1985; 184(3):413-28. DOI: 10.1016/0022-2836(85)90291-8. View

Kreike J, Schulze M, Ahne F, Lang B . A yeast nuclear gene, MRS1, involved in mitochondrial RNA splicing: nucleotide sequence and mutational analysis of two overlapping open reading frames on opposite strands. EMBO J. 1987; 6(7):2123-9. PMC: 553604. DOI: 10.1002/j.1460-2075.1987.tb02479.x. View

RUSKIN B, Krainer A, Maniatis T, Green M . Excision of an intact intron as a novel lariat structure during pre-mRNA splicing in vitro. Cell. 1984; 38(1):317-31. DOI: 10.1016/0092-8674(84)90553-1. View

Konarska M, Padgett R, Sharp P . Trans splicing of mRNA precursors in vitro. Cell. 1985; 42(1):165-71. DOI: 10.1016/s0092-8674(85)80112-4. View

10.

Weiss-Brummer B, Rodel G, Schweyen R, Kaudewitz F . Expression of the split gene cob in yeast: evidence for a precursor of a "maturase" protein translated from intron 4 and preceding exons. Cell. 1982; 29(2):527-36. DOI: 10.1016/0092-8674(82)90169-6. View

11.

Garriga G, Lambowitz A . RNA splicing in neurospora mitochondria: self-splicing of a mitochondrial intron in vitro. Cell. 1984; 39(3 Pt 2):631-41. DOI: 10.1016/0092-8674(84)90470-7. View

12.

Schmelzer C, Schmidt C, May K, Schweyen R . Determination of functional domains in intron bI1 of yeast mitochondrial RNA by studies of mitochondrial mutations and a nuclear suppressor. EMBO J. 1983; 2(11):2047-52. PMC: 555407. DOI: 10.1002/j.1460-2075.1983.tb01698.x. View

13.

Davies R, Waring R, Ray J, Brown T, Scazzocchio C . Making ends meet: a model for RNA splicing in fungal mitochondria. Nature. 1982; 300(5894):719-24. DOI: 10.1038/300719a0. View

14.

Padgett R, Konarska M, Grabowski P, Hardy S, Sharp P . Lariat RNA's as intermediates and products in the splicing of messenger RNA precursors. Science. 1984; 225(4665):898-903. DOI: 10.1126/science.6206566. View

15.

Schmelzer C, Haid A, Grosch G, Schweyen R, Kaudewitz F . Pathways of transcript splicing in yeast mitochondria. Mutations in intervening sequences of the split gene COB reveal a requirement for intervening sequence-encoded products. J Biol Chem. 1981; 256(14):7610-9. View

16.

Jeffreys A, Flavell R . The rabbit beta-globin gene contains a large large insert in the coding sequence. Cell. 1977; 12(4):1097-108. DOI: 10.1016/0092-8674(77)90172-6. View

17.

Lazowska J, Jacq C, SLONIMSKI P . Sequence of introns and flanking exons in wild-type and box3 mutants of cytochrome b reveals an interlaced splicing protein coded by an intron. Cell. 1980; 22(2 Pt 2):333-48. DOI: 10.1016/0092-8674(80)90344-x. View

18.

Carignani G, Groudinsky O, Frezza D, Schiavon E, Bergantino E, SLONIMSKI P . An mRNA maturase is encoded by the first intron of the mitochondrial gene for the subunit I of cytochrome oxidase in S. cerevisiae. Cell. 1983; 35(3 Pt 2):733-42. DOI: 10.1016/0092-8674(83)90106-x. View

19.

Shinozaki K, Deno H, Wakasugi T, Sugiura M . Tobacco chloroplast gene coding for subunit I of proton-translocating ATPase: comparison with the wheat subunit I and E. coli subunit b. Curr Genet. 1986; 10(5):421-3. DOI: 10.1007/BF00418416. View

20.

Wallace J, Edmonds M . Polyadenylylated nuclear RNA contains branches. Proc Natl Acad Sci U S A. 1983; 80(4):950-4. PMC: 393505. DOI: 10.1073/pnas.80.4.950. View