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Comparative plastomics

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3 papers 0 to 25 followers Searching for current research in chloroplast genomics
Daisie I Huang, Quentin C B Cronk
PREMISE OF THE STUDY: Plann automates the process of annotating a plastome sequence in GenBank format for either downstream processing or for GenBank submission by annotating a new plastome based on a similar, well-annotated plastome. METHODS AND RESULTS: Plann is a Perl script to be executed on the command line. Plann compares a new plastome sequence to the features annotated in a reference plastome and then shifts the intervals of any matching features to the locations in the new plastome...
August 2015: Applications in Plant Sciences
M Rousseau-Gueutin, S Bellot, G E Martin, J Boutte, H Chelaifa, O Lima, S Michon-Coudouel, D Naquin, A Salmon, K Ainouche, M Ainouche
The history of many plant lineages is complicated by reticulate evolution with cases of hybridization often followed by genome duplication (allopolyploidy). In such a context, the inference of phylogenetic relationships and biogeographic scenarios based on molecular data is easier using haploid markers like chloroplast genome sequences. Hybridization and polyploidization occurred recurrently in the genus Spartina (Poaceae, Chloridoideae), as illustrated by the recent formation of the invasive allododecaploid S...
December 2015: Molecular Phylogenetics and Evolution
Alison Gonçalves Nazareno, Monica Carlsen, LĂșcia Garcez Lohmann
Bignoniaceae is a Pantropical plant family that is especially abundant in the Neotropics. Members of the Bignoniaceae are diverse in many ecosystems and represent key components of the Tropical flora. Despite the ecological importance of the Bignoniaceae and all the efforts to reconstruct the phylogeny of this group, whole chloroplast genome information has not yet been reported for any members of the family. Here, we report the complete chloroplast genome sequence of Tanaecium tetragonolobum (Jacq.) L.G. Lohmann, which was reconstructed using de novo and referenced-based assembly of single-end reads generated by shotgun sequencing of total genomic DNA in an Illumina platform...
2015: PloS One
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