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Citation for Study 21212

Citation title: "Phylogeny of the popcorn flowers: Use of genome skimming to evaluate monophyly and interrelationships in subtribe Amsinckiinae (Boraginaceae)".

Study name: "Phylogeny of the popcorn flowers: Use of genome skimming to evaluate monophyly and interrelationships in subtribe Amsinckiinae (Boraginaceae)".

This study is part of submission 21212 (Status: Published).

Citation

Simpson M.G., Guilliams C.M., Hasenstab-lehman K.E., Mabry M.E., & Ripma L. 2017. Phylogeny of the popcorn flowers: Use of genome skimming to evaluate monophyly and interrelationships in subtribe Amsinckiinae (Boraginaceae). Taxon, .

Authors

• Simpson M.G. 619-594-4479
• Guilliams C.M.
• Hasenstab-lehman K.E.
• Mabry M.E. (submitter) 818281105
• Ripma L. 6195083803

Abstract

Subtribe Amsinckiinae, currently containing 13 genera and approximately 293 species, is a species-rich group of the family Boraginaceae. Past studies assessing relationships had a limited sample size and generally weak support. Here we study phylogenetic relationships of Amsinckiinae using a large sample size and considerably more sequence data in order to evaluate the interrelationships of genera and clades within this group. Using high-throughput, genome skimming sequencing of 139 samples of Amsinckiinae and four outgroup taxa, maximum likelihood and Bayesian analyses of separate plastome, cistron, and mitochondrial datasets are presented. In almost all analyses the common ancestor of the Amsinckiinae gives rise to an Andersonglossum or to an Andersonglossum+Adelinia clade. Most genera, including Amsinckia, Eremocarya, Greeneocharis, Harpagonella, Oreocarya, and Pectocarya, are consistently monophyletic with strong support. Plagiobothrys is confirmed to be non-monophyletic, composed of three clades conforming to generic sections. Cryptantha is also non-monophyletic, with most species within a strongly supported Cryptantha s.s. clade, but some nesting within Johnstonella or our Maritimae clade, all with strong support. Although genome skimming verifies the monophyly of many genera and clades of Amsinckiinae, relationships among those clades and along the backbone of the trees remain uncertain, their elucidation possibly a factor of short branch lengths and likely requiring different types of molecular data. Our study may serve as a baseline for future work on the morphology, reproductive biology, and biogeography of the Amsinckiinae.

Keywords

Amsinckiinae, Boraginaceae, Cryptanthinae, genome skimming, high-throughput sequencing, phylogenetics

External links

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S21212
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref27375,
  	 author = {Michael George Simpson and C. M. Guilliams and Kristen Elizabeth Hasenstab-Lehman and Makenzie Elizabeth Mabry and Lee  Ripma},
  	 title = {Phylogeny of the popcorn flowers: Use of genome skimming to evaluate monophyly and interrelationships in subtribe Amsinckiinae (Boraginaceae)},
  	 year = {2017},
  	 keywords = {Amsinckiinae, Boraginaceae, Cryptanthinae, genome skimming, high-throughput  sequencing, phylogenetics},
  	 doi = {},
  	 url = {http://},
  	 pmid = {},
  	 journal = {Taxon},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {Subtribe Amsinckiinae, currently containing 13 genera and approximately 293 species, is a species-rich group of the family Boraginaceae. Past studies assessing relationships had a limited sample size and generally weak support. Here we study phylogenetic relationships of Amsinckiinae using a large sample size and considerably more sequence data in order to evaluate the interrelationships of genera and clades within this group. Using high-throughput, genome skimming sequencing of 139 samples of Amsinckiinae and four outgroup taxa, maximum likelihood and Bayesian analyses of separate plastome, cistron, and mitochondrial datasets are presented. In almost all analyses the common ancestor of the Amsinckiinae gives rise to an Andersonglossum or to an
  Andersonglossum+Adelinia clade. Most genera, including Amsinckia, Eremocarya, Greeneocharis, Harpagonella, Oreocarya, and Pectocarya, are consistently monophyletic with strong support. Plagiobothrys is confirmed to be non-monophyletic, composed of three clades conforming to generic sections. Cryptantha is also non-monophyletic, with most species within a strongly supported Cryptantha s.s. clade, but some nesting within Johnstonella or our Maritimae clade, all with strong support. Although genome skimming verifies the monophyly of many genera and clades of Amsinckiinae, relationships among those clades and along the backbone of the trees remain uncertain, their elucidation possibly a factor of short branch lengths and likely requiring different types of molecular data. Our study may serve as a baseline for future work on the morphology, reproductive biology, and biogeography of the Amsinckiinae.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 27375
  AU  - Simpson,Michael George
  AU  - Guilliams,C. M.
  AU  - Hasenstab-Lehman,Kristen Elizabeth
  AU  - Mabry,Makenzie Elizabeth
  AU  - Ripma,Lee 
  T1  - Phylogeny of the popcorn flowers: Use of genome skimming to evaluate monophyly and interrelationships in subtribe Amsinckiinae (Boraginaceae)
  PY  - 2017
  KW  - Amsinckiinae
  KW  - Boraginaceae
  KW  - Cryptanthinae
  KW  - genome skimming
  KW  - high-throughput  sequencing
  KW  - phylogenetics
  UR  - http://dx.doi.org/
  N2  - Subtribe Amsinckiinae, currently containing 13 genera and approximately 293 species, is a species-rich group of the family Boraginaceae. Past studies assessing relationships had a limited sample size and generally weak support. Here we study phylogenetic relationships of Amsinckiinae using a large sample size and considerably more sequence data in order to evaluate the interrelationships of genera and clades within this group. Using high-throughput, genome skimming sequencing of 139 samples of Amsinckiinae and four outgroup taxa, maximum likelihood and Bayesian analyses of separate plastome, cistron, and mitochondrial datasets are presented. In almost all analyses the common ancestor of the Amsinckiinae gives rise to an Andersonglossum or to an
  Andersonglossum+Adelinia clade. Most genera, including Amsinckia, Eremocarya, Greeneocharis, Harpagonella, Oreocarya, and Pectocarya, are consistently monophyletic with strong support. Plagiobothrys is confirmed to be non-monophyletic, composed of three clades conforming to generic sections. Cryptantha is also non-monophyletic, with most species within a strongly supported Cryptantha s.s. clade, but some nesting within Johnstonella or our Maritimae clade, all with strong support. Although genome skimming verifies the monophyly of many genera and clades of Amsinckiinae, relationships among those clades and along the backbone of the trees remain uncertain, their elucidation possibly a factor of short branch lengths and likely requiring different types of molecular data. Our study may serve as a baseline for future work on the morphology, reproductive biology, and biogeography of the Amsinckiinae.
  L3  - 
  JF  - Taxon
  VL  - 
  IS  - 
  ER  -