Many parallel losses of infa from chloroplast dna during angiosperm evolution with multiple independent transfers to the nucleus

Plant Cell

Volumn 13, Issue 3, 2001, Pages 645-658

  Millen, R S ^a   Olmstead, R G ^a   Adams, K L ^a   Palmer, J D ^a   Lao, N T ^a   Heggie, L ^a   Kavanagh, T A ^a   Hibberd, J M ^a   Gray, J C ^a   Morden, C W ^a   Calie, P J ^a   Jermiin, L S ^a   Wolfe, K H ^a  

^a TRINITY COLLEGE DUBLIN   (Ireland)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS; EMBRYOPHYTA; GLYCINE MAX; LYCOPERSICON ESCULENTUM; MAGNOLIOPHYTA; ROSIDAE;

EID: 0035056576     PISSN: 10404651     EISSN: None     Source Type: Journal    
DOI: 10.1105/tpc.13.3.645     Document Type: Article

References (78)

1. Repeated, recent and diverse transfers of a mitochondrial gene to the nucleus in flowering plants
2. Control of gene expression by redox potential and the requirement for chloroplast and mitochondrial genomes
3. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
4. Accelerated evolution of cytochrome b in simian primates: Adaptive evolution in concert with other mitochondrial proteins?
5. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
6. The elF1A solution structure reveals a large RNA-binding surface important for scanning function
7. Why do chloroplasts and mitochondria contain so many copies of their genome?
8. Why mitochondrial genes are most often found in nuclei
9. Organellar genes: Why do they end up in the nucleus?
10. Protein substitution in chloroplast ribosome evolution: A eukaryotic cytosolic protein has replaced its organelle homologue (L23) in spinach
11. Limitations to in vitro import of hydrophobic proteins into yeast mitochondria: The case of a cytoplasmically synthesized apocytochrome b.
12. Translation initiation factor IF1 is essential for cell viability in Escherichia coli
13. Soluble, highly fluorescent variants of green fluorescent protein (GFP) for use in higher plants
14. You are what you eat: A gene transfer ratchet could account for bacterial genes in eukaryotic nuclear genomes
15. Use of chloroplast DNA rearrangements in reconstructing plant phylogeny
16. Structure and evolution of the largest chloroplast gene (ORF2280): Internal plasticity and multiple gene loss during angiosperm evolution
17. Multiple independent losses of two genes and one intron from legume chloroplast genomes
18. ChloroP, a neural network-based method for predicting chloroplast transit peptides and their cleavage sites
19. Predicting subcellular localization of proteins based on their N-terminal amino acid sequence
20. Cases in which parsimony and compatibility methods will be positively misleading
21. Transfer of rps14 from the mitochondrion to the nucleus in maize implied integration within a gene encoding the iron-sulphur subunit of succinate dehydrogenase and expression by alternative splicing
22. Transfer of rpl22 to the nucleus greatly preceded its loss from the chloroplast and involved the gain of an intron
23. Direct sequencing of in vitro amplified DNA
24. Eukaryotism, towards a new interpretation
25. Transient expression of green fluorescent protein in various plastid types following microprojectile bombardment
26. The complete sequence of the rice (Oryza sativa) chloroplast genome: Intermolecular recombination between distinct tRNA genes accounts for a major plastid DNA inversion during the evolution of the cereals
27. Complete nucleotide sequence of the Oenothera elata plastid chromosome, representing plastome I of the five distinguishable Euoenothera plastomes
28. Targeting presequence acquisition after mitochondrial gene transfer to the nucleus occurs by duplication of existing targeting signals
29. Efficient production of single-stranded DNA as long as 2 kb for sequencing of PCR-amplified DNA
30. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea
31. Acetyl-CoA carboxylase in higher plants: Most plants other than Gramineae have both the prokaryotic and the eukaryotic forms of this enzyme
32. A single nuclear transcript encoding mitochondrial RPS14 and SDHB of rice is processed by alternative splicing: Common use of the same mitochondrial targeting signal for different proteins
33. Transfer of the mitochondrial rps10 gene to the nucleus in rice: Acquisition of the 5′ untranslated region followed by gene duplication
34. Mitochondrial genome evolution and the origin of eukaryotes
35. Molecular evolution of angiosperm mitochondrial introns and exons
36. Unbiased estimation of the rates of synonymous and nonsynonymous substitution
37. Isolation and characterization of cDNA clones for chloroplast translational initiation factor-3 from Euglena gracilis
38. Immunological characterization of the complex forms of chloroplast translational initiation factor 2 from Euglena gracilis
39. Phylogenetic pattern, diversity, and diversification of eudicots
40. Complete sequence of the maize chloroplast genome: Gene content, hotspots of divergence and fine tuning of genetic information by transcript editing
41. Evolutionary parameters of the transcribed mammalian genome: An analysis of 2,820 orthologous rodent and human sequences
42. Gene transfer from organelles to the nucleus: How much, what happens, and why?
43. The evolution of the Calvin cycle from prokarytic to eukaryotic chromosomes: A case study of functional redundancy in ancient pathways through endosymbiosis
44. Hypothesis for the evolutionary origin of the chloroplast ribosomal protein L21 of spinach
45. Gene transfer to the nucleus and the evolution of chloroplasts
46. The root of angiosperm phylogeny inferred from duplicate phytochrome genes
47. Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana
48. Sequence and transcriptional analysis of the gene duster trnQ-zfpA-psal-ORF231-petA in pea chloroplasts
49. Phylogeny of subfamily Epidendroideae (Orchidaceae) inferred from ndhF chloroplast gene sequences
50. The phylogeny of the Asteridae sensu lato based on chloroplast ndhF gene sequences
51. The origin and evolution of plastids and their genomes
52. Dynamic evolution of plant mitochondrial genomes: Mobile genes and introns and highly variable mutation rates
53. Multigene analyses identify the three earliest lineages of extant flowering plants
54. Improved tools for biological sequence comparison
55. Protein synthesis in mitochondria
56. Unusual location of a mitochondrial gene: Subunit III of cytochrome c oxidase is encoded in the nucleus of Chlamydomonad algae
57. Photosynthetic control of chloroplast gene expression
58. On the microassembly of integral membrane proteins
59. The gain of three mitochondrial introns identifies liverworts as the earliest land plants
60. The earliest angiosperms: Evidence from mitochondrial, plastid and nuclear genomes
61. Why have organelles retained genomes?
62. Complete structure of the chloroplast genome of Arabidopsis thaliana
63. The structure of the translational initiation factor IF1 from E. coil contains an oligomer-binding motif
64. The complete nucleotide sequence of tobacco chloroplast genome: Its gene organization and expression
65. Spinach plastid genes coding for initiation factor IF-1, ribosomal protein S11 and RNA polymerase alpha-subunit
66. Phylogenetic resolution within the tribe Episcieae (Gesneriaceae): Congruence of ITS and ndhF sequences from parsimony and maximum-likelihood analyses
67. Angiosperm phylogeny inferred from multiple genes as a tool for comparative biology
68. Expression of the rpl23, rpl2 and rps19 genes in spinach chloroplasts
69. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
70. Why mitochondria need a genome
71. Loss of all ndh genes as determined by sequencing the entire chloroplast genome of the black pine Pinus thunbergii
72. TrExML: A maximum-likelihood approach for extensive tree-space exploration
73. Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs
74. Function and evolution of a minimal plastid genome from a nonphotosynthetic parasitic plant
75. Rapid evolution of the plastid translational apparatus in a nonphotosynthetic plant: Loss or accelerated sequence evolution of tRNA and ribosomal protein genes
76. The plastid ribosomal proteins: Identification of all the proteins in the 50 S subunit of an organelle ribosome (chloroplast)
77. 2- and COOH-terminal extensions
78. Identification of protein-coding regions in Arabidopsis thaliana genome based on quadratic discriminant analysis