Phylogenetics of the slipper orchids (Cypripedioideae, Orchidaceae): Nuclear rDNA ITS sequences

Cox, Antony V.; Pridgeon, Alec M.; Albert, Victor A.; Chase, Mark W.

doi:10.1007/bf00985442

Cited by 113 publications

(156 citation statements)

References 25 publications

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“…The slipper orchids, Cypripedioideae, represent the only other clade. of Orchidaceae that has been thoroughly examined biogeographically in a phylogenetic context (Albert 1994, Cox et a/. 1997.…”

Section: Biogeographic Implicationsmentioning

confidence: 99%

Phylogenetic Relationships of Pogoniinae (Vanilloideae, Orchidaceae): An Herbaceous Example of the Eastern North America-Eastern Asia Phytogeographic Disjunction

Cameron

Chase

1999

J Plant Res

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Phylogenetic relationships within subtribe Pogoniinae (Vanilloideae: Orchidaceae) are evaluated with analyses of plastid rbcL DNA sequences, nuclear ribosomal ITS DNA sequences, morphology, and combined evidence. All these matrices produced patterns that agree on the broader phylogenetic relationship within the clade. Duckeella is sister to all Pogoniinae, South American species of Ckistes are monophyletic, Pogmia is monophyletic and part of a larger clade of temperate taxa (/sotria, Pogmia, and Cleistes divariicata) from North America and Asia. The structure of the cladograms and the high levels of bootstrap support strongly indicate that the genus C/eistes is paraphyletic. The disjunction between tropical South American and temperate North American taxa as well as the disjunction between Pogonia ophioglassoMTes in eastern North America with P. minor and P.&mnica in eastern Asia are best explained by speciation following a northward longdistance dispersal and subsequent northwestward migration via Bering land bridges in the Tertiary. This phylogenetic study adds an additional herbaceous example to the growing list of plants that demonstrate this classical biogeographic pattern.

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Section: Biogeographic Implicationsmentioning

confidence: 99%

Phylogenetic Relationships of Pogoniinae (Vanilloideae, Orchidaceae): An Herbaceous Example of the Eastern North America-Eastern Asia Phytogeographic Disjunction

Cameron

Chase

1999

J Plant Res

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“…Therefore, ITS was a most practical option (Baldwin et al, 1995). Divergence between ITS sequences has been used in phylogenetic studies of many families, such as Asteraceae (Baldwin, 1991(Baldwin, , 1992Kim and Jansen, 1994;Kim et al, 1999;Ganders et al, 2000;Vilatersana et al, 2000), Hamamelidaceae (Shi et al, 1999), Polemoniaceae (Ferguson et al, 1999), Apiaceae (Lee and Downie, 1999), Cruciferae (Mayer and Soltis, 1999), and Orchidaceae (Cox et al, 1997). In these families, ITS was proven valuable for examining relationships within genera and among the more closely related genera.…”

Section: Introductionmentioning

confidence: 98%

Phylogenetic Studies on the Thamnocalamus Group and Its Allies (Gramineae: Bambusoideae) Based on ITS Sequence Data

Guo

Chen

2002

Molecular Phylogenetics and Evolution

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“…Paphiopedilum orchids, commonly known as lady's slipper orchids in horticulture, belong to the family Orchidaceae (Cox et al, 1997). They are distributed mainly in tropical and subtropical regions from Asia to the islands of the Pacific Ocean.…”

Section: Introductionmentioning

confidence: 99%

De novo assembly and characterization of the root transcriptome and development of simple sequence repeat markers in Paphiopedilum concolor

Zhao

Liu

et al. 2015

Genet. Mol. Res.

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ABSTRACT. Paphiopedilum orchids (Orchidaceae) have attracted much attention from botanists and horticulturists because of their peculiar leaves and beautiful flowers. Furthermore, the dry roots of Paphiopedilum plants have well-known medicinal uses. However, it is unknown how sensitive and plastic the root genes are to environmental changes or how these environmental changes regulate the biosynthesis of active ingredients. In this study, we chose Paphiopedilum concolor for root sequencing, as it is widely used as a parent in breeding experiments. A total of 3.77 Gb of sequence data were generated by Illumina paired-end sequencing. De novo assemblies yielded 72,952 contigs, 67,434 scaffolds, 64,304 unigenes with average lengths of 937, 1022, and 1047 bp, respectively. Based on Basic Local Alignment Search Tool with known protein sequences, 40,815 (63.5%) unigenes were annotated with an E-value cutoff of 1.0E-5. Among the unigenes, 24,605 were classified in the Gene Ontology database, 17,361 were assigned to Cluster of Orthologous Groups, and 14,170 were annotated in Kyoto Encyclopedia of Genes and Genomes. Among these annotations, over 1195 unigenes related to secondary metabolic pathways, as well as 609 unigenes involved in plant hormone synthesis and signal transduction, were identified. In addition, 5322 potential simple sequence repeats (SSRs) were identified, and 4989 primer pairs for 3975 sequences containing SSRs were obtained. This study provides valuable insights into the mechanisms of genes that regulate root growth and development and provides a comprehensive resource for genes related to secondary metabolism in roots and for marker-assisted studies in Paphiopedilum.

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Phylogenetics of the slipper orchids (Cypripedioideae, Orchidaceae): Nuclear rDNA ITS sequences

Cited by 113 publications

References 25 publications

Phylogenetic Relationships of Pogoniinae (Vanilloideae, Orchidaceae): An Herbaceous Example of the Eastern North America-Eastern Asia Phytogeographic Disjunction

Phylogenetic Relationships of Pogoniinae (Vanilloideae, Orchidaceae): An Herbaceous Example of the Eastern North America-Eastern Asia Phytogeographic Disjunction

Phylogenetic Studies on the Thamnocalamus Group and Its Allies (Gramineae: Bambusoideae) Based on ITS Sequence Data

De novo assembly and characterization of the root transcriptome and development of simple sequence repeat markers in Paphiopedilum concolor

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