Journal ArticleDOI
The mitochondrial genome of Arabidopsis thaliana contains 57 genes in 366,924 nucleotides
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TLDR
The complete sequence of the mitochondrial DNA in the model plant species Arabidopsis thaliana is determined, affording access to the first of its three genomes.Abstract:
We have determined the complete sequence of the mitochondrial DNA in the model plant species Arabidopsis thaliana, affording access to the first of its three genomes. The 366,924 nucleotides code for 57 identified genes, which cover only 10% of the genome. Introns in these genes add about 8%, open reading frames larger than 100 amino acids represent 10% of the genome, duplications account for 7%, remnants of retrotransposons of nuclear origin contribute 4% and integrated plastid sequences amount to 1%-leaving 60% of the genome unaccounted for. With the significant contribution of duplications, imported foreign DNA and the extensive background of apparently functionless sequences, the mosaic structure of the Arabidopsis thaliana mitochondrial genome features many aspects of size-relaxed nuclear genomes.read more
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Selection of Conserved Blocks from Multiple Alignments for Their Use in Phylogenetic Analysis
TL;DR: A computerized method is presented that reduces to a certain extent the necessity of manually editing multiple alignments, makes the automation of phylogenetic analysis of large data sets feasible, and facilitates the reproduction of the final alignment by other researchers.
Journal ArticleDOI
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana.
TL;DR: This is the first complete genome sequence of a plant and provides the foundations for more comprehensive comparison of conserved processes in all eukaryotes, identifying a wide range of plant-specific gene functions and establishing rapid systematic ways to identify genes for crop improvement.
Journal ArticleDOI
PLANT MITOCHONDRIA AND OXIDATIVE STRESS: Electron Transport, NADPH Turnover, and Metabolism of Reactive Oxygen Species.
TL;DR: The alternative oxidase and possibly NDin(NADH) function to limit mitochondrial ROS production by keeping the ETC relatively oxidized, together with small antioxidants such as glutathione, that help remove ROS.
Journal ArticleDOI
OrganellarGenomeDRAW (OGDRAW): a tool for the easy generation of high-quality custom graphical maps of plastid and mitochondrial genomes.
TL;DR: A new web-based tool, OrganellarGenomeDRAW (OGDRAW), which produces high-resolution custom graphical maps of DNA sequences as stored in standard GenBank format entries, specially optimized for the display of chloroplast and mitochondrial genomes.
Journal ArticleDOI
Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana
Xiaoying Lin,Samir Kaul,Steve Rounsley,Terrance Shea,Maria-Ines Benito,Christopher D. Town,Claire Fujii,Tanya Mason,Cheryl Bowman,Mary Barnstead,Tamara Feldblyum,C. Robin Buell,Karen A. Ketchum,John Lee,Catherine M. Ronning,Hean L. Koo,Kelly Moffat,Lisa A. Cronin,Mian Shen,Grace Pai,Susan Van Aken,Lowell Umayam,Luke J. Tallon,John Gill,Mark Raymond Adams,Ana J. Carrera,Todd Creasy,Howard M. Goodman,Chris Somerville,Gregory P. Copenhaver,Daphne Preuss,William C. Nierman,Owen White,Jonathan A. Eisen,Steven L. Salzberg,Claire M. Fraser,J. Craig Venter +36 more
TL;DR: The sequence of chromosome 2 from the Columbia ecotype is reported in two gap-free assemblies (contigs) of 3.6 and 16 megabases, which represents the longest published stretch of uninterrupted DNA sequence assembled from any organism to date.
References
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Journal ArticleDOI
Gene organization deduced from the complete sequence of liverwort Marchantia polymorpha mitochondrial DNA. A primitive form of plant mitochondrial genome
Kenji Oda,Katsuyuki T. Yamato,Eiji Ohta,Yasukazu Nakamura,Miho Takemura,Naoko Nozato,Kinya Akashi,Takeshi Kanegae,Yutaka Ogura,Takayuki Kohchi,Kanji Ohyama +10 more
TL;DR: In this article, the complete sequence of the liverwort mitochondrial DNA was determined and 94 possible genes in the sequence of 186,608 base-pairs were detected, including genes for three species of ribosomal RNA, 29 genes for 27 species of transfer RNA and 30 open reading frames (ORFs) for functionally known proteins.
Journal ArticleDOI
RNA Editing in Plant Mitochondria
TL;DR: An editing phenomenon that involves the conversion of cytidine to uridine at multiple positions in the mRNA for subunit II of cytochrome c oxidase in wheat mitochondria is reported, providing an explanation for apparent coding anomalies in plant mitochondria.
Journal ArticleDOI
RNA editing in wheat mitochondria results in the conservation of protein sequences.
José M. Gualberto,Lorenzo Lamattina,Géraldine Bonnard,Jacques-Henry Weil,Jean-Michel Grienenberger +4 more
TL;DR: In this article, it was shown that RNA editing is also required for the correct expression of plant mitochondria! genes, and that CGG codons can be changed to UGG codes in the mRNA so that tryptophan may be encoded according to the universal genetic code.
Journal ArticleDOI
Tripartite structure of the Brassica campestris mitochondrial genome
Jeffrey D. Palmer,C. R. Shields +1 more
TL;DR: Physical mapping studies indicate a novel sequence arrangement, consisting of three circular chromosomes, for the mitochondrial genome of Brassica campestris, and postulated to interconvert with the master chromosome via a co-integration-resolution pathway mediated by reciprocal recombination within the 2-kb repeat.
Journal ArticleDOI
The mitochondrial genome is large and variable in a family of plants (cucurbitaceae)
TL;DR: The possible evolutionary mechanisms by which the mitochondrial genome has grown within the cucurbit family is considered and the possible reasons for the existance of a seven to eight-fold range in mitochondrial genome size among such closely related species are considered.