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Citation for Study 2030

Citation title: "AFLP Markers as a Tool to Reconstruct Complex Relationships: A Case Study in Rosa (Rosaceae)".

This study was previously identified under the legacy study ID S2024 (Status: Published).

Citation

Koopman W., Wissemann V., Cock K., Huylenbroeck J., Riek J., Sabatino G., Visser D., Vosman B., Ritz C., Maes B., Werlemark G., Nybom H., Debener T., Linde M., & Smulders M. 2008. AFLP Markers as a Tool to Reconstruct Complex Relationships: A Case Study in Rosa (Rosaceae). American Journal of Botany, 95(3): 353-366.

Authors

• Koopman W.
• Wissemann V.
• Cock K.
• Huylenbroeck J.
• Riek J.
• Sabatino G.
• Visser D.
• Vosman B.
• Ritz C.
• Maes B.
• Werlemark G.
• Nybom H.
• Debener T.
• Linde M.
• Smulders M.

Abstract

The genus Rosa has a complex evolutionary history caused by several factors, often in conjunction: extensive hybridization, recent radiation, incomplete lineage sorting, and multiple events of polyploidy. We examined the applicability of AFLP markers for reconstructing (species) relationships in Rosa, using UPGMA clustering, Wagner parsimony, and Bayesian inference. All trees were well-resolved, but many of the deeper branches were weakly supported. The cluster analysis showed that the rose cultivars can be separated into a "European" and an "Oriental" cluster, each being related to different wild species. The phylogenetic analyses showed that 1) two of the four subgenera (Hulthemia and Platyrhodon) do not deserve subgeneric status; 2) section Carolinae should be merged with sect. Cinnamomeae; 3) subsection Rubigineae is a monophyletic group within sect. Caninae, making sect. Caninae paraphyletic; 4) there is little support for the distinction of the five other subsections within sect. Caninae. Comparison of the trees with morphological classifications and with previous molecular studies showed that all methods yielded reliable trees. Bayesian inference proved to be a useful alternative to parsimony analysis of AFLP data. Because of their genome-wide sampling, AFLPs are the markers of choice to reconstruct (species) relationships in evolutionary complex groups.

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S2030
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref16174,
  	 author = {Wim J. M.  Koopman and Volker  Wissemann and K. D.  Cock and J. V.  Huylenbroeck and J. D.  Riek and Gerda J. H.  Sabatino and Dirk  Visser and Ben  Vosman and Christiane Maria  Ritz and Bert  Maes and Gun  Werlemark and Hilde  Nybom and Thomas  Debener and Marcus  Linde and Marinus J. M.  Smulders},
  	 title = {AFLP Markers as a Tool to Reconstruct Complex Relationships: A Case Study in Rosa (Rosaceae)},
  	 year = {2008},
  	 keywords = {},
  	 doi = {},
  	 url = {},
  	 pmid = {},
  	 journal = {American Journal of Botany},
  	 volume = {95},
  	 number = {3},
  	 pages = {353--366},
  	 abstract = {The genus Rosa has a complex evolutionary history caused by several factors, often in conjunction: extensive hybridization, recent radiation, incomplete lineage sorting, and multiple events of polyploidy. We examined the applicability of AFLP markers for reconstructing (species) relationships in Rosa, using UPGMA clustering, Wagner parsimony, and Bayesian inference. All trees were well-resolved, but many of the deeper branches were weakly supported. The cluster analysis showed that the rose cultivars can be separated into a "European" and an "Oriental" cluster, each being related to different wild species. The phylogenetic analyses showed that 1) two of the four subgenera (Hulthemia and Platyrhodon) do not deserve subgeneric status; 2) section Carolinae should be merged with sect. Cinnamomeae; 3) subsection Rubigineae is a monophyletic group within sect. Caninae, making sect. Caninae paraphyletic; 4) there is little support for the distinction of the five other subsections within sect. Caninae. Comparison of the trees with morphological classifications and with previous molecular studies showed that all methods yielded reliable trees. Bayesian inference proved to be a useful alternative to parsimony analysis of AFLP data. Because of their genome-wide sampling, AFLPs are the markers of choice to reconstruct (species) relationships in evolutionary complex groups.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 16174
  AU  - Koopman,Wim J. M. 
  AU  - Wissemann,Volker 
  AU  - Cock,K. D. 
  AU  - Huylenbroeck,J. V. 
  AU  - Riek,J. D. 
  AU  - Sabatino,Gerda J. H. 
  AU  - Visser,Dirk 
  AU  - Vosman,Ben 
  AU  - Ritz,Christiane Maria 
  AU  - Maes,Bert 
  AU  - Werlemark,Gun 
  AU  - Nybom,Hilde 
  AU  - Debener,Thomas 
  AU  - Linde,Marcus 
  AU  - Smulders,Marinus J. M. 
  T1  - AFLP Markers as a Tool to Reconstruct Complex Relationships: A Case Study in Rosa (Rosaceae)
  PY  - 2008
  UR  - 
  N2  - The genus Rosa has a complex evolutionary history caused by several factors, often in conjunction: extensive hybridization, recent radiation, incomplete lineage sorting, and multiple events of polyploidy. We examined the applicability of AFLP markers for reconstructing (species) relationships in Rosa, using UPGMA clustering, Wagner parsimony, and Bayesian inference. All trees were well-resolved, but many of the deeper branches were weakly supported. The cluster analysis showed that the rose cultivars can be separated into a "European" and an "Oriental" cluster, each being related to different wild species. The phylogenetic analyses showed that 1) two of the four subgenera (Hulthemia and Platyrhodon) do not deserve subgeneric status; 2) section Carolinae should be merged with sect. Cinnamomeae; 3) subsection Rubigineae is a monophyletic group within sect. Caninae, making sect. Caninae paraphyletic; 4) there is little support for the distinction of the five other subsections within sect. Caninae. Comparison of the trees with morphological classifications and with previous molecular studies showed that all methods yielded reliable trees. Bayesian inference proved to be a useful alternative to parsimony analysis of AFLP data. Because of their genome-wide sampling, AFLPs are the markers of choice to reconstruct (species) relationships in evolutionary complex groups.
  L3  - 
  JF  - American Journal of Botany
  VL  - 95
  IS  - 3
  SP  - 353
  EP  - 366
  ER  -