Complete chloroplast genome comparisons for Pityopsis (Asteraceae).

Autor: Hatmaker EA; Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, Tennessee, United States of America., Wadl PA; U.S. Department of Agriculture, Agricultural Research Service, U.S. Vegetable Laboratory, Charleston, South Carolina, United States of America., Rinehart TA; U.S. Department of Agriculture, Agricultural Research Service, Crop Production and Protection, Beltsville, Maryland, United States of America., Carroll J; U.S. Department of Agriculture, Agricultural Research Service, Thad Cochran Southern Horticultural Laboratory, Poplarville, Mississippi, United States of America., Lane TS; Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, Tennessee, United States of America., Trigiano RN; Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, Tennessee, United States of America., Staton ME; Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, Tennessee, United States of America., Schilling EE; Department of Ecology and Evolutionary Biology, University of Tennessee, Knoxville, Tennessee, United States of America.
Jazyk: angličtina
Zdroj: PloS one [PLoS One] 2020 Dec 28; Vol. 15 (12), pp. e0241391. Date of Electronic Publication: 2020 Dec 28 (Print Publication: 2020).
DOI: 10.1371/journal.pone.0241391
Abstrakt: Pityopsis includes several regionally and one federally endangered species of herbaceous perennials. Four species are highly localized, including the federally endangered P. ruthii. The genus includes several ploidy levels and interesting ecological traits such as drought tolerance and fire-dependent flowering. Results from previous cladistic analyses of morphology and from initial DNA sequence studies did not agree with one another or with the infrageneric taxonomic classification, with the result that infrageneric relationships remain unresolved. We sequenced, assembled, and compared the chloroplast (cp) genomes of 12 species or varieties of Pityopsis to better understand generic evolution. A reference cp genome 152,569 bp in length was assembled de novo from P. falcata. Reads from other sampled species were then aligned to the P. falcata reference and individual chloroplast genomes were assembled for each, with manual gapfilling and polishing. After removing the duplicated second inverted region, a multiple sequence alignment of the cp genomes was used to construct a maximum likelihood (ML) phylogeny for the twelve cp genomes. Additionally, we constructed a ML phylogeny from the nuclear ribosomal repeat region after mapping reads to the Helianthus annuus region. The chloroplast phylogeny supported two clades. Previously proposed clades and taxonomic sections within the genus were largely unsupported by both nuclear and chloroplast phylogenies. Our results provide tools for exploring hybridity and examining the physiological and genetic basis for drought tolerance and fire-dependent flowering. This study will inform breeding and conservation practices, and general knowledge of evolutionary history, hybridization, and speciation within Pityopsis.
Competing Interests: The authors have declared that no competing interests exist.
Databáze: MEDLINE
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