title: Complete nucleotide sequence of the chloroplast genome from a leptosporangiate fern, Adiantum capillus-veneris L.
abstract: We determined the complete nucleotide sequence of the chloroplast genome of the leptosporangiate fern, Adiantum capillus-veneris L. (Pteridaceae). The circular genome is 150,568 bp, with a large single-copy region (LSC) of 82,282 bp, a small-single copy region (SSC) of 21,392 bp and inverted repeats (IR) of 23,447 bp each. We compared the sequence to other published chloroplast genomes to infer the location of putative genes. When the IR is considered only once, we assigned 118 genes, of which 85 encode proteins, 29 encode tRNAs and 4 encode rRNAs. Four protein-coding genes, all four rRNA genes and six tRNA genes occur in the IR. Most (57) putative protein-coding genes appear to start with an ATG codon, but we also detected five other possible start codons, some of which suggest tRNA editing. We also found 26 apparent stop codons in 18 putative genes, also suggestive of RNA editing. We found all but one of the tRNA genes necessary to encode the complete repertoire required for translation. The missing trnK gene appears to have been disrupted by a large inversion, relative to other published chloroplast genomes. We detected several structural rearrangements that may provide useful information for phylogenetic studies.
authors.affiliation: Department of Biology, Utah State University, 5305 Old Main Hill, Logan, UT 84322, USA. wolf@biology.usu.edu
authors.forename: Paul G
authors.initials: PG
authors.lastname: Wolf
authors.forename: Carol A
authors.initials: CA
authors.lastname: Rowe
authors.forename: Robert B
authors.initials: RB
authors.lastname: Sinclair
authors.forename: Mitsuyasu
authors.initials: M
authors.lastname: Hasebe
mesh_terms: D001483:Base Sequence; D002736:Chloroplasts / Q000235:genetics*; D007446:Chromosome Inversion; D003062:Codon; D029624:Ferns / Q000235:genetics*; D018745:Genome, Plant; D008957:Models, Genetic; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D010802:Phylogeny; D012335:RNA, Ribosomal / Q000235:genetics; D012343:RNA, Transfer / Q000235:genetics; D012091:Repetitive Sequences, Nucleic Acid
chemical_list: D003062:Codon; D012335:RNA, Ribosomal; D012343:RNA, Transfer