The Complete Plastid Genome Sequence of Iris gatesii (Section Oncocyclus), a Bearded Species from Southeastern Turkey

Wilson, Carol

doi:10.5642/aliso.20143201.03

Cited by 11 publications

(9 citation statements)

References 36 publications

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“…gatesii and I . sanguinea plastid genomes [ 20 , 21 ], we performed pairwise Ks calculation and BI phylogenetic tree construction with 57 non-redundant plastid genes to enable the observation of speciation among Korean-native Iris . From our BI phylogenetic tree, we observed that Series Chinenses species, which did not co-cluster in with psbA-trnH and trnL-F -based phylogenetic trees calculated in a previous study [ 7 ], formed a single clade in our analysis ( Fig 2 ).…”

Section: Discussionmentioning

confidence: 99%

Identification of plastid genomic regions inferring species identity from de novo plastid genome assembly of 14 Korean-native Iris species (Iridaceae)

et al. 2020

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Iris is one of the largest genera in the family Iridaceae , comprising hundreds of species, including numerous economically important horticultural plants used in landscape gardening and herbal medicine. Improved taxonomic classification of Iris species, particularly the endangered Korean-native Iris , is needed for correct species delineation. To this end, identification of diverse genetic markers from Iris genomes would facilitate molecular identification and resolve ambiguous classifications from molecular analyses; however, only two Iris plastid genomes, from Iris gatesii and Iris sanguinea , have been sequenced. Here, we used high-throughput next-generation sequencing, combined with Sanger sequencing, to construct the plastid genomes of 14 Korean-native Iris species with one outgroup and predict their gene content. Using these data, combined with previously published plastid genomes from Iris and one outgroup ( Sisyrinchium angustifolium ), we constructed a Bayesian phylogenetic tree showing clear speciation among the samples. We further identified sub-genomic regions that have undergone neutral evolution and accurately recapitulate Bayesian-inferred speciation. These contain key markers that could be used to identify and classify Iris samples into taxonomic clades. Our results confirm previously reported speciation patterns and resolve questionable relationships within the Iris genus. These data also provide a valuable resource for studying genetic diversity and refining phylogenetic relationships between Iris species.

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Section: Discussionmentioning

confidence: 99%

Identification of plastid genomic regions inferring species identity from de novo plastid genome assembly of 14 Korean-native Iris species (Iridaceae)

et al. 2020

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“…Few Iris transcriptomes have been already sequenced 19 – 22 , all are of irises which are in distant clades from Oncocyclus iris 23 . Currently, only one NGS-based dataset is available for the Royal Irises, which is a plastid genome sequence of Iris gatesii 24 . Previous attempts to transfer molecular tools developed for Louisiana irises to Oncocyclus irises, such as the development of microsatellite loci or identifying candidate genes, have failed (Y. Sapir, un-published).…”

Section: Introductionmentioning

confidence: 99%

De novo transcriptome characterization of Iris atropurpurea (the Royal Iris) and phylogenetic analysis of MADS-box and R2R3-MYB gene families

Bar-Lev

Senden

Pasmanik‐Chor

et al. 2021

Sci Rep

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The Royal Irises (section Oncocyclus) are a Middle-Eastern group of irises, characterized by extremely large flowers with a huge range of flower colors and a unique pollination system. The Royal Irises are considered to be in the course of speciation and serve as a model for evolutionary processes of speciation and pollination ecology. However, no transcriptomic and genomic data are available for these plants. Transcriptome sequencing is a valuable resource for determining the genetic basis of ecological-meaningful traits, especially in non-model organisms. Here we describe the de novo transcriptome assembly of Iris atropurpurea, an endangered species endemic to Israel’s coastal plain. We sequenced and analyzed the transcriptomes of roots, leaves, and three stages of developing flower buds. To identify genes involved in developmental processes we generated phylogenetic gene trees for two major gene families, the MADS-box and MYB transcription factors, which play an important role in plant development. In addition, we identified 1503 short sequence repeats that can be developed for molecular markers for population genetics in irises. This first reported transcriptome for the Royal Irises, and the data generated, provide a valuable resource for this non-model plant that will facilitate gene discovery, functional genomic studies, and development of molecular markers in irises, to complete the intensive eco-evolutionary studies of this group.

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“…These two latter regions were selected as potentially informative based on a comparison of the complete plastid genome of two sect. Oncocyclus species and comparisons to other monocots (Wilson, 2014). Low-copy nuclear data of the third and fourth introns of one of two copies of the AT1G08750 locus, a gene considered part of the peptidase C13 gene family, was generated for all taxa.…”

Section: Methodsmentioning

confidence: 99%

The royal irises (Iris subg. Iris sect. Oncocyclus): Plastid and low‐copy nuclea data contribute to an understanding of their phylogenetic relationships

Wilson

Padiernos

Sapir

2016

TAXON

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Iris sect. Oncocyclus species generally occur in small populations or locally scattered over rocky hillsides, steppes, and deserts from the north Caucasus to the eastern Mediterranean. Species of this section are easily recognized by their inflorescences of a single, large, spherical flower and sepals with a dark signal spot and adjacent beard of multicellular hairs. We present here results of the first phylogenetic study of sect. Oncocyclus based on one low‐copy nuclear and six plastid markers from 33 of approximately 42 species and infraspecific taxa. Gene trees are congruent and nuclear markers are more potentially parsimony informative than plastid markers. We identify clades that do not correspond to previously described species groups based on size, color, and shape of perianth parts and show that hypotheses of species monophyly are not supported. In general, diversification is greatest along terminal branches suggesting that species diversified in isolation. The Caucasus is suggested as the ancestral area for sect. Oncocyclus and the eastern Mediterranean as an important area of diversification.

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The Complete Plastid Genome Sequence of Iris gatesii (Section Oncocyclus), a Bearded Species from Southeastern Turkey

Cited by 11 publications

References 36 publications

Identification of plastid genomic regions inferring species identity from de novo plastid genome assembly of 14 Korean-native Iris species (Iridaceae)

Identification of plastid genomic regions inferring species identity from de novo plastid genome assembly of 14 Korean-native Iris species (Iridaceae)

De novo transcriptome characterization of Iris atropurpurea (the Royal Iris) and phylogenetic analysis of MADS-box and R2R3-MYB gene families

The royal irises (Iris subg. Iris sect. Oncocyclus): Plastid and low‐copy nuclea data contribute to an understanding of their phylogenetic relationships

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