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Citation for Study 15722

Citation title: "Phylogenetics, divergence times, and diversification from three genomic partitions in monocots".

Study name: "Phylogenetics, divergence times, and diversification from three genomic partitions in monocots".

This study is part of submission 15722 (Status: Published).

Citation

Hertweck K.L., Kinney M.S., Stuart S.A., Maurin O., Mathews S., Chase M.W., Gandolfo M.A., & Pires J.C. 2015. Phylogenetics, divergence times, and diversification from three genomic partitions in monocots. Botanical Journal of the Linnean Society, 178(3): 375-393.

Authors

• Hertweck K.L. (submitter) 573-289-8189
• Kinney M.S.
• Stuart S.A.
• Maurin O.
• Mathews S.
• Chase M.W.
• Gandolfo M.A.
• Pires J.C.

Abstract

Resolution of evolutionary relationships among some monocot orders remains problematic despite the application of various taxon and molecular locus sampling strategies. In this study we sequenced and analyzed a fragment of the low-copy, nuclear phytochrome C (PHYC) gene and combined these data with the multigene data set (four plastid, one mitochondrial, two nuclear ribosomal loci) of Chase et al. (2006) to determine if adding this marker improved resolution and support of relationships among major lineages of monocots. Our results indicate the addition of PHYC to the multigene dataset increases support along the backbone of the monocot tree, although relationships among orders of commelinids remain elusive. We also estimated divergence times in monocots by applying newly-evaluated fossil calibrations to our resolved phylogenetic tree. Inclusion of early diverging angiosperm lineages confirmed the origin of extant monocots ca. 131 mya and strengthen the hypothesis of recent divergence times for some lineages, although current divergence time estimation methods may inadequately model rate heterogeneity within monocots. We note significant shifts in diversification in at least two monocot orders, Poales and Asparagales. We describe patterns of diversification in the context of radiation of other relevant plant and animal lineages.

Keywords

divergence time estimation, diversification, fossil calibration, molecular phylogenetics, monocotyledoneous plants,

External links

• DOI: 10.1111/boj.12260
• Other URL: http://onlinelibrary.wiley.com/doi/10.1111/boj.12260/full

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S15722
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref23270,
  	 author = {Kate L Hertweck and Michael S Kinney and Stephanie A Stuart and Olivier  Maurin and Sarah  Mathews and Mark W Chase and Maria  A.  Gandolfo and J. Chris Pires},
  	 title = {Phylogenetics, divergence times, and diversification from three genomic partitions in monocots},
  	 year = {2015},
  	 keywords = {divergence time estimation, diversification, fossil calibration, molecular phylogenetics, monocotyledoneous plants,},
  	 doi = {10.1111/boj.12260},
  	 url = {http://onlinelibrary.wiley.com/doi/10.1111/boj.12260/full},
  	 pmid = {},
  	 journal = {Botanical Journal of the Linnean Society},
  	 volume = {178},
  	 number = {3},
  	 pages = {375--393},
  	 abstract = {Resolution of evolutionary relationships among some monocot orders remains problematic despite the application of various taxon and molecular locus sampling strategies. In this study we sequenced and analyzed a fragment of the low-copy, nuclear phytochrome C (PHYC) gene and combined these data with the multigene data set (four plastid, one mitochondrial, two nuclear ribosomal loci) of Chase et al. (2006) to determine if adding this marker improved resolution and support of relationships among major lineages of monocots. Our results indicate the addition of PHYC to the multigene dataset increases support along the backbone of the monocot tree, although relationships among orders of commelinids remain elusive. We also estimated divergence times in monocots by applying newly-evaluated fossil calibrations to our resolved phylogenetic tree. Inclusion of early diverging angiosperm lineages confirmed the origin of extant monocots ca. 131 mya and strengthen the hypothesis of recent divergence times for some lineages, although current divergence time estimation methods may inadequately model rate heterogeneity within monocots. We note significant shifts in diversification in at least two monocot orders, Poales and Asparagales. We describe patterns of diversification in the context of radiation of other relevant plant and animal lineages.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 23270
  AU  - Hertweck,Kate L
  AU  - Kinney,Michael S
  AU  - Stuart,Stephanie A
  AU  - Maurin,Olivier 
  AU  - Mathews,Sarah 
  AU  - Chase,Mark W
  AU  - Gandolfo,Maria  A. 
  AU  - Pires,J. Chris
  T1  - Phylogenetics, divergence times, and diversification from three genomic partitions in monocots
  PY  - 2015
  KW  - divergence time estimation
  KW  - diversification
  KW  - fossil calibration
  KW  - molecular phylogenetics
  KW  - monocotyledoneous plants
  UR  - http://onlinelibrary.wiley.com/doi/10.1111/boj.12260/full
  N2  - Resolution of evolutionary relationships among some monocot orders remains problematic despite the application of various taxon and molecular locus sampling strategies. In this study we sequenced and analyzed a fragment of the low-copy, nuclear phytochrome C (PHYC) gene and combined these data with the multigene data set (four plastid, one mitochondrial, two nuclear ribosomal loci) of Chase et al. (2006) to determine if adding this marker improved resolution and support of relationships among major lineages of monocots. Our results indicate the addition of PHYC to the multigene dataset increases support along the backbone of the monocot tree, although relationships among orders of commelinids remain elusive. We also estimated divergence times in monocots by applying newly-evaluated fossil calibrations to our resolved phylogenetic tree. Inclusion of early diverging angiosperm lineages confirmed the origin of extant monocots ca. 131 mya and strengthen the hypothesis of recent divergence times for some lineages, although current divergence time estimation methods may inadequately model rate heterogeneity within monocots. We note significant shifts in diversification in at least two monocot orders, Poales and Asparagales. We describe patterns of diversification in the context of radiation of other relevant plant and animal lineages.
  L3  - 10.1111/boj.12260
  JF  - Botanical Journal of the Linnean Society
  VL  - 178
  IS  - 3
  SP  - 375
  EP  - 393
  ER  -