Pfanzelt, Simon and Albach, Dirk C. and von Hagen, K. Bernhard (2019) Extremely low levels of chloroplast genome sequence variability in Astelia pumila (Asteliaceae, Asparagales). PeerJ, 7. e6244. ISSN 2167-8359

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Abstract

Astelia pumila (G.Forst.) Gaudich. (Asteliaceae, Asparagales) is a major element of West Patagonian cushion peat bog vegetation. With the aim to identify appropriate chloroplast markers for the use in a phylogeographic study, the complete chloroplast genomes of five A. pumila accessions from almost the entire geographical range of the species were assembled and screened for variable positions. The chloroplast genome sequence was obtained via a mapping approach, using Eustrephus latifolius (Asparagaceae) as a reference. The chloroplast genome of A. pumila varies in length from 158,215 bp to 158,221 bp, containing a large single copy region of 85,981–85,983 bp, a small single copy region of 18,182–18,186 bp and two inverted repeats of 27,026 bp. Genome annotation predicted a total of 113 genes, including 30 tRNA and four rRNA genes. Sequence comparisons revealed a very low degree of intraspecific genetic variability, as only 37 variable sites (18 indels, 18 single nucleotide polymorphisms, one 3-bp mutation)—most of them autapomorphies—were found among the five assembled chloroplast genomes. A Maximum Likelihood analysis, based on whole chloroplast genome sequences of several Asparagales accessions representing six of the currently recognized 14 families (sensu APG IV), confirmed the phylogenetic position of A. pumila. The chloroplast genome of A. pumila is the first to be reported for a member of the astelioid clade (14 genera with c. 215 species), a basally branching group within Asparagales.

Item Type:	Article
Additional Information:	Publiziert mit Hilfe des DFG-geförderten Open Access-Publikationsfonds der Carl von Ossietzky Universität Oldenburg.
Uncontrolled Keywords:	Genetic variability, Asteliaceae, Chloroplast, South America, Magellanic moorland, Organellar genome, Plastome, Cushion plants
Subjects:	Science and mathematics > Life sciences, biology Science and mathematics > Plants (botany)
Divisions:	Faculty of Mathematics and Science > Department of Biology and Environmental Sciences (IBU)
Date Deposited:	18 Mar 2020 09:37
Last Modified:	18 Mar 2020 09:37
URI:	https://oops.uni-oldenburg.de/id/eprint/4472
URN:	urn:nbn:de:gbv:715-oops-45533
DOI:	10.7717/peerj.6244
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