The Complete Plastid Genome Sequence of Angiopteris evecta (G. Forst.) Hoffm. (Marattiaceae)

Roper, Jessie M.; Hansen, S. K.; Wolf, Paul G.; Karol, Kenneth G.; Mandoli, Dina F.; Everett, Karin D. E.; Kuehl, Jennifer V.; Boore, Jeffrey L.

doi:10.1640/0002-8444(2007)97[95:tcpgso]2.0.co;2

Cited by 47 publications

(50 citation statements)

References 31 publications

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“…The longest MN-IGS (1,788 bp), found in Plagiogyria adnata , is about 8 times longer than the shortest in Psilotum nudum (204 bp). Previous researches documented an open reading frame (ORF) designated ycf66 in the MN-IGS of Angiopteris evecta [28] and a pseudogenized ycf66 copy in both of Alsophila spinulosa [24] and Equisetum arvense [31]. Here we further identified a complete ycf66 in Botrychium virginianum (Ophioglossaceae) and all sampled "non-core" leptosporangiates (Osmundales, Hymenophyllales, Gleicheniales and Schizaeales) (Figure 2).…”

Section: Resultssupporting

confidence: 57%

Evolution of the rpoB-psbZ region in fern plastid genomes: notable structural rearrangements and highly variable intergenic spacers

et al. 2011

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BackgroundThe rpoB-psbZ (BZ) region of some fern plastid genomes (plastomes) has been noted to go through considerable genomic changes. Unraveling its evolutionary dynamics across all fern lineages will lead to clarify the fundamental process shaping fern plastome structure and organization.ResultsA total of 24 fern BZ sequences were investigated with taxon sampling covering all the extant fern orders. We found that: (i) a tree fern Plagiogyria japonica contained a novel gene order that can be generated from either the ancestral Angiopteris type or the derived Adiantum type via a single inversion; (ii) the trnY-trnE intergenic spacer (IGS) of the filmy fern Vandenboschia radicans was expanded 3-fold due to the tandem 27-bp repeats which showed strong sequence similarity with the anticodon domain of trnY; (iii) the trnY-trnE IGSs of two horsetail ferns Equisetum ramosissimum and E. arvense underwent an unprecedented 5-kb long expansion, more than a quarter of which was consisted of a single type of direct repeats also relevant to the trnY anticodon domain; and (iv) ycf66 has independently lost at least four times in ferns.ConclusionsOur results provided fresh insights into the evolutionary process of fern BZ regions. The intermediate BZ gene order was not detected, supporting that the Adiantum type was generated by two inversions occurring in pairs. The occurrence of Vandenboschia 27-bp repeats represents the first evidence of partial tRNA gene duplication in fern plastomes. Repeats potentially forming a stem-loop structure play major roles in the expansion of the trnY-trnE IGS.

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Section: Resultssupporting

confidence: 57%

Evolution of the rpoB-psbZ region in fern plastid genomes: notable structural rearrangements and highly variable intergenic spacers

et al. 2011

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“…Jasminum L. in Oleaceae, Lee et al 2007 ). Second, ycf1 is known to be independently lost in some land plant plastid genomes ( Roper et al 2007 ;Cai et al 2008 ;Wu et al 2009 ;Gao et al 2010 ; Morris and Duvall 2010 ). The Poales exhibit an interesting loss of ycf1 .…”

Section: Discussionmentioning

confidence: 99%

Testing the Monophyly and Placement of Lepechinia in the Tribe Mentheae (Lamiaceae)

Drew¹,

Sytsma²

2011

Systematic Botany

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“…Lee et al 2007). In addition, a trnR CCG gene has been reported between rbcL and accD for charophytes and bryophytes (Ohyama et al 1986;Turmel et al 2002;Kugita et al 2003;Sugiura et al 2003), lycophytes (Wolf et al 2005), ferns (Wolf et al 2003;Roper et al 2007), and gymnosperms (including Gnetales; Wakasugi et al 1994;Wu et al 2007;McCoy et al 2008). Being one of the first target genes for phylogenetic studies, an impressive number of primers have been published that anneal to similar sites.…”

Section: Plastid Genome Markersmentioning

confidence: 99%

20,000 species and five key markers: The status of molecular bryophyte phylogenetics

Stech¹,

Quandt²

2014

Phytotaxa

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A number of reviews have accompanied and monitored the progress of molecular phylogenetic research on bryophytes, focusing on the publication record itself, bryophyte phylogeny and systematics in the molecular era, as well as the evolution and phylogenetic utility of markers from different genomes. However, none of the recent reviews include a detailed characterization of all molecular markers used in bryophyte phylogenetics. Here we provide an overview of the history and current state of marker utilization, including coding and non-coding sequence markers from all three genomes as well as fingerprinting approaches. The molecular architecture and evolutionary peculiarities, as well as practical aspects such as amplification and sequencing strategies, are outlined for the DNA sequence markers, with a focus on the most commonly employed regions. Their phylogenetic utility and potential for solving some of the remaining, pressing questions in bryophyte phylogeny, as well as their suitability for molecular species identification by DNA barcoding, are discussed.

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The Complete Plastid Genome Sequence of Angiopteris evecta (G. Forst.) Hoffm. (Marattiaceae)

Abstract: BioOne Complete (complete.BioOne.org) is a full-text database of 200 subscribed and open-access titles in the biological, ecological, and environmental sciences published by nonprofit societies, associations, museums, institutions, and presses.

Cited by 47 publications

References 31 publications

Evolution of the rpoB-psbZ region in fern plastid genomes: notable structural rearrangements and highly variable intergenic spacers

Evolution of the rpoB-psbZ region in fern plastid genomes: notable structural rearrangements and highly variable intergenic spacers

Testing the Monophyly and Placement of Lepechinia in the Tribe Mentheae (Lamiaceae)

20,000 species and five key markers: The status of molecular bryophyte phylogenetics

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