The evolution of chloroplast genome structure in ferns

Wolf, Paul G.; Roper, Jessie M.; Duffy, Aaron M.

doi:10.1139/g10-061

Cited by 60 publications

(62 citation statements)

References 27 publications

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“…1 (Karol et al 2010). Two large overlapping inversions (18 kb and 21 kb) in the region of the IR support branch C, and two smaller overlapping inversions in the LSC region support branch D (Wolf et al 2010). These findings are based on recent studies of complete plastome sequences (Karol et al 2010) and mapping of partial plastome regions Wolf et al 2010).…”

Section: The Evolution Of Plastome Organization In Fernsmentioning

confidence: 75%

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The evolution of chloroplast genes and genomes in ferns

et al. 2010

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Most of the publicly available data on chloroplast (plastid) genes and genomes come from seed plants, with relatively little information from their sister group, the ferns. Here we describe several broad evolutionary patterns and processes in fern plastid genomes (plastomes), and we include some new plastome sequence data. We review what we know about the evolutionary history of plastome structure across the fern phylogeny and we compare plastome organization and patterns of evolution in ferns to those in seed plants. A large clade of ferns is characterized by a plastome that has been reorganized with respect to the ancestral gene order (a similar order that is ancestral in seed plants). We review the sequence of inversions that gave rise to this organization. We also explore global nucleotide substitution patterns in ferns versus those found in seed plants across plastid genes, and we review the high levels of RNA editing observed in fern plastomes.

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Section: The Evolution Of Plastome Organization In Fernsmentioning

confidence: 75%

“…Furthermore, trnK is not maintained through trans-splicing in ferns Wolf et al 2004). However, recent analyses (Wolf et al 2010) placing the inversions and loss of trnK in a phylogenetic context indicate that trnK was lost on branch B (of Fig. 1) before the inversion occurred (branch C).…”

Section: Relationship Of Plastome Organization To Gene Functionmentioning

confidence: 98%

The evolution of chloroplast genes and genomes in ferns

et al. 2010

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“…a quilinum (Wolf et al, 2011), Lygodium japonicum , and Marsilea crenata (Gao et al, 2013). In addition, the incomplete sequences were also used for the reconstruction of the fern trees (Wolf et al, 2010). Although the comparative cp genome studies of eusporangiate ferns and leptosporangiate ferns were published, it is still difficult to understand cp genome evolution from all fern lineages because there is a lack of cp genome data for the early diverged fern lineages.…”

Section: Introductionmentioning

confidence: 99%

Chloroplast Genome Evolution in Early Diverged Leptosporangiate Ferns

Kim¹,

Chung²,

Kim³

2014

Molecules and Cells

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In this study, the chloroplast (cp) genome sequences from three early diverged leptosporangiate ferns were completed and analyzed in order to understand the evolution of the genome of the fern lineages. The complete cp genome sequence of Osmunda cinnamomea (Osmundales) was 142,812 base pairs (bp). The cp genome structure was similar to that of eusporangiate ferns. The gene/intron losses that frequently occurred in the cp genome of leptosporangiate ferns were not found in the cp genome of O. cinnamomea. In addition, putative RNA editing sites in the cp genome were rare in O. cinnamomea, even though the sites were frequently predicted to be present in leptosporangiate ferns. The complete cp genome sequence of Diplopterygium glaucum (Gleicheniales) was 151,007 bp and has a 9.7 kb inversion between the trnL-CAA and trnV-GCA genes when compared to O. cinnamomea. Several repeated sequences were detected around the inversion break points. The complete cp genome sequence of Lygodium japonicum (Schizaeales) was 157,142 bp and a deletion of the rpoC1 intron was detected. This intron loss was shared by all of the studied species of the genus Lygodium. The GC contents and the effective numbers of co-dons (ENCs) in ferns varied significantly when compared to seed plants. The ENC values of the early diverged leptosporangiate ferns showed intermediate levels between eusporangiate and core leptosporangiate ferns. However, our phylogenetic tree based on all of the cp gene sequences clearly indicated that the cp genome similarity between O. cinnamomea (Osmundales) and eusporangiate ferns are symplesiomorphies, rather than synapomorphies. Therefore, our data is in agreement with the view that Osmundales is a distinct early diverged lineage in the leptosporangiate ferns.

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“…Example-Selaginella, Pteris, Adiantum, Dryopteris (Hoshizaki and Robbin, 2001). Wolf et al, (2010) examine for the first time the structure of the plastome across fern phylogeny. They used a PCR-based strategy to map and partially sequence plastomes.…”

Section: Introductionmentioning

confidence: 99%

“…However, the ancestral (seed plant) structure is still found in early diverging branches leading to the osmundoid and filmy fern lineages (Duffy, 2010). Chase et al, (2014) concluded that a classification is presently based on our current understanding of relationships of fern and lycopodclades.…”

Section: Introductionmentioning

confidence: 99%

General Aspects of Pteridophyta – A Review

Agrawal¹,

Danai²,

Yadav³

2017

Int.J.Curr.Res.Aca.Rev.

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Article InfoPteridophyta is a phylum of plants which is commonly known as ferns. About more than 12,000 different species of ferns are distributed worldwide. They are distinguished from flowering plants by not producing seeds & fruit. The members of Pteridophyta reproduce through spores. Ferns were some of the Earth"s first land plants. They are vascular and have true leaves. In evolutionary history, the advent of vascular plants changed the way the world looked. Prior to the spread of vascular plants, the land had only plants that were no more than a few centimeters tall; the origin of the vascular system made it possible for plants to be much taller. As it became possible for plants to grow taller, it also became necessary -otherwise, they would get shaded by their taller neighbors. With the advent of vascular plants, the competition for light became intense, and forests started to cover the earth. (A forest is simply a crowd of plants competing for light). The earliest forests were composed of vascular non-seed plant, though modern forests are dominant by seed plant.

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The evolution of chloroplast genome structure in ferns

Cited by 60 publications

References 27 publications

The evolution of chloroplast genes and genomes in ferns

The evolution of chloroplast genes and genomes in ferns

Chloroplast Genome Evolution in Early Diverged Leptosporangiate Ferns

General Aspects of Pteridophyta – A Review

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