CiteULike

Delicious

Connotea

Citation for Study 21303

Citation title: "Greatly reduced phylogenetic structure in cultivated potato clade".

Study name: "Greatly reduced phylogenetic structure in cultivated potato clade".

This study is part of submission 21303 (Status: Published).

Citation

Spooner D., Ruess H., Arbizu C., Rodriguez F., & Sol?s-lemus C. 2017. Greatly reduced phylogenetic structure in cultivated potato clade. American Journal of Botany, .

Authors

• Spooner D.
• Ruess H.
• Arbizu C.
• Rodriguez F.
• Sol?s-lemus C.

Abstract

PREMISE OF THE STUDY: The species boundaries of wild and cultivated potatoes, Solanum section Petota, are controversial with most of the taxonomic problems in a clade containing cultivated potatoes. We here provide the first in-depth phylogenetic study of the cultivated potato clade to explore possible causes of these problems. METHODS: We examined 131 diploid accessions, using 12 nuclear orthologs, distributed on six of the 12 linkage groups, producing an aligned dataset of 14,072 DNA characters, 2171 of which are parsimony informative, and analyzed the data for phylogeny, concordance analysis, and goodness-of-fit tests. KEY RESULTS: There is good phylogenetic structure in clades traditionally referred to as clade 1+2, 3, and a newly discovered ?basal? clade, but drastically reduced phylogenetic structure in the cultivated potato clade (clade 4). The goodness-of-fit tests test suggests potential hybridization between some species in this study group. However, we do not have enough signal with the data at hand to explicitly estimate such hybridization events with species networks methods. A newly discovered nuclear clade ?neocardenasii?, in South America, sister to clade 1+2, possesses key morphological traits typical of diploids in Mexico and Central America. CONCLUSIONS: Our results document the close relationships of many of the species in the cultivated potato clade, provide insight into the cause of their taxonomic problems, and provide support the recent reduction of recognized species in this clade. The discovery of the ?neocardenasii? clade provides data to revise the biogeographic hypotheses of section Petota.

Keywords

conserved nuclear orthologs, hybridization, potato

External links

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S21303
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref27433,
  	 author = {David M.  Spooner and Holly  Ruess and Carlos  Arbizu and Flor  Rodriguez and Claudia  Sol?s-Lemus},
  	 title = {Greatly reduced phylogenetic structure in cultivated potato clade},
  	 year = {2017},
  	 keywords = {conserved nuclear orthologs, hybridization, potato},
  	 doi = {},
  	 url = {http://},
  	 pmid = {},
  	 journal = {American Journal of Botany},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {PREMISE OF THE STUDY: The species boundaries of wild and cultivated potatoes, Solanum section Petota, are controversial with most of the taxonomic problems in a clade containing cultivated potatoes. We here provide the first in-depth phylogenetic study of the cultivated potato clade to explore possible causes of these problems.
  
  METHODS: We examined 131 diploid accessions, using 12 nuclear orthologs, distributed on six of the 12 linkage groups, producing an aligned dataset of 14,072 DNA characters, 2171 of which are parsimony informative, and analyzed the data for phylogeny, concordance analysis, and goodness-of-fit tests.
  
  KEY RESULTS: There is good phylogenetic structure in clades traditionally referred to as clade 1+2, 3, and a newly discovered ?basal? clade, but drastically reduced phylogenetic structure in the cultivated potato clade (clade 4). The goodness-of-fit tests test suggests potential hybridization between some species in this study group. However, we do not have enough signal with the data at hand to explicitly estimate such hybridization events with species networks methods. A newly discovered nuclear clade ?neocardenasii?, in South America, sister to clade 1+2, possesses key morphological traits typical of diploids in Mexico and Central America.
  
  CONCLUSIONS: Our results document the close relationships of many of the species in the cultivated potato clade, provide insight into the cause of their taxonomic problems, and provide support the recent reduction of recognized species in this clade. The discovery of the ?neocardenasii? clade provides data to revise the biogeographic hypotheses of section Petota.
  }
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 27433
  AU  - Spooner,David M. 
  AU  - Ruess,Holly 
  AU  - Arbizu,Carlos 
  AU  - Rodriguez,Flor 
  AU  - Sol?s-Lemus,Claudia 
  T1  - Greatly reduced phylogenetic structure in cultivated potato clade
  PY  - 2017
  KW  - conserved nuclear orthologs
  KW  - hybridization
  KW  - potato
  UR  - http://dx.doi.org/
  N2  - PREMISE OF THE STUDY: The species boundaries of wild and cultivated potatoes, Solanum section Petota, are controversial with most of the taxonomic problems in a clade containing cultivated potatoes. We here provide the first in-depth phylogenetic study of the cultivated potato clade to explore possible causes of these problems.
  
  METHODS: We examined 131 diploid accessions, using 12 nuclear orthologs, distributed on six of the 12 linkage groups, producing an aligned dataset of 14,072 DNA characters, 2171 of which are parsimony informative, and analyzed the data for phylogeny, concordance analysis, and goodness-of-fit tests.
  
  KEY RESULTS: There is good phylogenetic structure in clades traditionally referred to as clade 1+2, 3, and a newly discovered ?basal? clade, but drastically reduced phylogenetic structure in the cultivated potato clade (clade 4). The goodness-of-fit tests test suggests potential hybridization between some species in this study group. However, we do not have enough signal with the data at hand to explicitly estimate such hybridization events with species networks methods. A newly discovered nuclear clade ?neocardenasii?, in South America, sister to clade 1+2, possesses key morphological traits typical of diploids in Mexico and Central America.
  
  CONCLUSIONS: Our results document the close relationships of many of the species in the cultivated potato clade, provide insight into the cause of their taxonomic problems, and provide support the recent reduction of recognized species in this clade. The discovery of the ?neocardenasii? clade provides data to revise the biogeographic hypotheses of section Petota.
  
  L3  - 
  JF  - American Journal of Botany
  VL  - 
  IS  - 
  ER  -