Molecular phylogeny of Gavilea (Chloraeinae: Orchidaceae) using plastid and nuclear markers

Álvarez-Molina, 2009, Molecular phylogenetics of Prescottiinae s.l. and their close allies (Orchidaceae, Cranichideae) inferred from plastid and nuclear ribosomal DNA sequences, Am. J. Bot., 96, 1020, 10.3732/ajb.0800219 Bailey, 2003, Characterization of angiosperm nrDNA polymorphism, paralogy, and pseudogenes, Mol. Phylogenet. Evol., 29, 435, 10.1016/j.ympev.2003.08.021 Barkman, 2002, Hybrid origin and parentage of Dendrochilum acuiferum (Orchidaceae) inferred in a phylogenetic context using nuclear and plastid DNA sequence data, Syst. Bot., 27, 209 Brinegar, 2009, Assessing evolution and biodiversity in plants at the molecular level, Kathmandu Univ. J. Sci., Eng. Technol., 5, 149 Cameron, 2006, A comparison and combination of plastid atpB and rbcL gene sequences for inferring phylogenetic relationships within Orchidaceae, Aliso, 22, 447, 10.5642/aliso.20062201.36 Cameron, 1999, A phylogenetic analysis of the Orchidaceae: evidence from rbcL nucleotide sequences, Am. J. Bot., 86, 208, 10.2307/2656938 Chase, 2005, Classification of Orchidaceae in the age of DNA data, Curtis’s Bot. Mag., 22, 2, 10.1111/j.1355-4905.2005.00466.x Chemisquy, 2009, Novedades nomenclaturales en el género Gavilea (Orchidaceae, Chloraeinae), con especial énfasis en las especies chilenas, Darwiniana, 47, 315 Chemisquy, 2010 Chemisquy, 2010, Phylogenetic analysis of the subtribe Chloraeinae (Orchidaceae): a preliminary approach based on three chloroplast markers, Aust. Syst. Bot., 23, 38, 10.1071/SB09026 Clements, 2002, Phylogenetics of Diurideae (Orchidaceae) based on the Internal Transcribed Spacer (ITS) regions of nuclear ribosomal DNA, Lindleyana, 17, 135 Clements, 2011, Phylogenetic relationships in Pterostylidinae (Cranichideae: Orchidaceae): combined evidence from nuclear ribosomal and plastid DNA sequences, Aust. J. Bot., 59, 99, 10.1071/BT10190 Correa, 1956, Las especies argentinas del género Gavilea, Bol. Soc. Argent. Bot., 6, 73 Correa, 1966, Una especie nueva y algunas observaciones críticas del género Gavilea (Orchidaceae), Bol. Soc. Argent. Bot., 11, 60 Correa, 1969, Chloraea, género sudamericano de Orchidaceae, Darwiniana, 15, 374 Corriveau, 1988, Rapid screening method to detect potential biparental inheritance of plastid DNA and results for over 200 angiosperm species, Am. J. Bot., 75, 1443, 10.2307/2444695 Domínguez, E., 2004. Catálogo preliminar de la familia Orchidaceae del Parque Nacional Torres del Paine, XII Región, Chile. Chloris Chilensis, año 7; No. 1. <http://www.chlorischile.cl>. Doyle, 1987, A rapid DNA isolation procedure for small quantities of fresh leaf tissue, Phytochem. Bull., 19, 11 Dressler, 1981 Dressler, 1993 Feliner, 2007, Better the devil you know? Guidelines for insightful utilization of nrDNA ITS in species-level evolutionary studies in plants, Mol. Phylogenet. Evol., 44, 911, 10.1016/j.ympev.2007.01.013 Felsenstein, J., 1993. DNADIST Version 3.5c – Program to Compute Distance Matrix from Nucleotide Sequences. © Copyright 1986–1993 by Joseph Felsenstein and the University of Washington. Freudenstein, 2004, An expanded plastid DNA phylogeny of Orchidaceae and analysis of jackknife branch support strategy, Am. J. Bot., 91, 149, 10.3732/ajb.91.1.149 Funk, 2003, Species-level paraphyly and polyphyly: frequency, causes, and consequences, with insights from animal mitochondrial DNA, Annu. Rev. Ecol. Evol. Syst., 34, 397, 10.1146/annurev.ecolsys.34.011802.132421 Goloboff, 2003, Improvements to resampling measures of group support, Cladistics, 19, 324, 10.1111/j.1096-0031.2003.tb00376.x Goloboff, 2008, TNT, a free program for phylogenetic analysis, Cladistics, 24, 774, 10.1111/j.1096-0031.2008.00217.x Hall, 1999, BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT, Nucl. Acids Symp. Ser., 41, 95 Katoh, 2008, Recent developments in the MAFFT multiple sequence alignment program, Brief Bioinform., 9, 286, 10.1093/bib/bbn013 Kores, 2000, Phylogenetic relationships within the Diurideae (Orchidaceae): inferences from plastid matK DNA sequences, 449 Kores, 2001, A phylogenetic analysis of Diurideae (Orchidaceae) based on plastid DNA sequence data, Am. J. Bot., 88, 1903, 10.2307/3558366 Liu, 1994, A conserved sequence in Internal Transcribed Spacer 1 of plant nuclear rRNA genes, Plant Mol. Biol., 26, 775, 10.1007/BF00013763 Mayol, 2001, Why nuclear ribosomal DNA spacers (ITS) tell different stories in Quercus, Mol. Phylogenet. Evol., 19, 167, 10.1006/mpev.2001.0934 Müller, 2005, SeqState – primer design and sequence statistics for phylogenetic DNA data sets, Appl. Bioinform., 4, 65 Nieuwenhuizen, 1993, Discovery of a surprising orchid in Talca, Gayana Bot., 50, 11 Nishimoto, 2003, Topological incongruence between nuclear and chloroplast DNA trees suggesting hybridization in the Urophyllum group of the genus Fagopyrum (Polygonaceae), Genes Genet. Syst., 78, 139, 10.1266/ggs.78.139 Novoa, 2006 Posada, 1998, ModeltestL testing the model of DNA substitution, Bioinformatics, 14, 817, 10.1093/bioinformatics/14.9.817 Pridgeon, 2003 Ronquist, 2003, MrBayes 3: Bayesian phylogenetic inference under mixed models, Bioinformatics, 19, 1572, 10.1093/bioinformatics/btg180 Salazar, 2009, Phylogenetic relationships of Cranichidinae and Prescottiinae (Orchidaceae, Cranichideae) inferred from plastid and nuclear DNA sequences, Ann. Bot., 104, 403, 10.1093/aob/mcn257 Simmons, 2000, Gaps as characters in sequence-based phylogenetic analyses, Syst. Biol., 49, 369, 10.1093/sysbio/49.2.369 Soltis, 2008, ITS and ETS sequence data and phylogeny reconstruction in allopolyploids and hybrids, Syst. Bot., 33, 7, 10.1600/036364408783887401 Syring, 2007, Widespread genealogical nonmonophyly in species of Pinus subgenus Strobus, Syst. Biol., 56, 163, 10.1080/10635150701258787 Szlachetko, 1995, Systema orchidalium, Fragm. Florist Geobot. Suppl., 3, 1 Szlachetko, 2001, Genera et species Orchidalium. 4, Pol. Bot. J., 46, 123 Szlachetko, 2008, Notes on subtribe Chloraeinae (Orchidaceae), Acta Soc. Bot. Pol., 77, 111, 10.5586/asbp.2008.015 Tsutsui, 2009, Incongruence among mitochondrial, chloroplast and nuclear gene trees in Pinus subgenus Strobus (Pinaceae), J. Plant Res., 122, 509, 10.1007/s10265-009-0246-4 Vidal, 2008