Reticulate evolution in kiwifruit (Actinidia, Actinidiaceae) identified by comparing their maternal and paternal phylogenies.

Evolutionary relationships within Actinidia, a genus known for the contrasting mode of inheritance of its plastids and mitochondria, were studied. The phylogenetic analysis is based on chloroplast (cp) and mitochondrial (mt) restriction site and sequence data (matK, psbC-trnS, rbcL, and trnL-trnF for cpDNA; nad1-2/3 and nad4-1/2 for mtDNA). The analysis of cp sequence data confirms the hypothesis that the four currently recognized sections are not monophyletic. The detection of incongruences among phylogenies (mtDNA vs. cpDNA tree) coupled with the detection of intraspecific polymorphisms confirms some of the reticulations previously emphasized, diagnoses new hybridization/introgression events, and provides evidence for multiple origin of at least two polyploid taxa. A number of hybridization/introgression events at the diploid, tetraploid, and possibly hexaploid levels are documented. The extensive reticulate evolution undergone by Actinidia could account for the lack of clear morphological discontinuities at the species level.

[1]  S. T. Dunn.  A revision of the genus Actinidia, Lindl. , 1911 .

[2]  A. Rendle.  The Classification of Flowering Plants , 1926, Nature.

[3]  H. L. Li.  A taxonomic review of the genus Actinidia. J , 1952 .

[4]  H-L. Li.  A taxonomic review of the genus Actinidia , 1952, Journal of the Arnold Arboretum..

[5]  J. Farris.  A Successive Approximations Approach to Character Weighting , 1969 .

[6]  R. Schmid.  Reproductive anatomy of Actinidia chinensis(Actinidiaceae). , 1978 .

[7]  J. Skvarla,et al.  POLLEN MORPHOLOGY OF THE DILLENIACEAE AND ACTINIDIACEAE , 1982 .

[8]  Arthur Cronquist,et al.  Angiosperm Orders and Families. (Book Reviews: An Integrated System of Classification of Flowering Plants) , 1982 .

[9]  Zhang Jie,et al.  Chromosome numbers in two varieties of Actinidia chinensis Planch , 1983 .

[10]  J. Felsenstein.  CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP , 1985, Evolution; international journal of organic evolution.

[11]  A. Ferguson,et al.  The botanical nomenclature of the kiwifruit and related taxa. , 1986 .

[12]  M. McNeilage,et al.  Chromosome studies in some Actinidia taxa and implications for breeding , 1989 .

[13]  J. Doyle,et al.  Multiple origins of polyploids in the Glycine tabacina complex inferred from chloroplast DNA polymorphism. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[14]  M. Chase,et al.  Systematics of the Ericaceae, Empetraceae, Epacridaceae and Related Taxa Based Upon rbcL Sequence Data , 1993 .

[15]  D. Soltis,et al.  Molecular data and the dynamic nature of polyploidy , 1993 .

[16]  K. Bremer,et al.  BRANCH SUPPORT AND TREE STABILITY , 1994 .

[17]  A. von Haeseler,et al.  Plant mitochondrial nucleic acid sequences as a tool for phylogenetic analysis. , 1994, Proceedings of the National Academy of Sciences of the United States of America.

[18]  C. Bult,et al.  TESTING SIGNIFICANCE OF INCONGRUENCE , 1994 .

[19]  M. E. Hopping.  Flow cytometric analysis of Actinidia species , 1994 .

[20]  J. Palmer,et al.  Chloroplast DNA systematics: a review of methods and data analysis , 1994 .

[21]  W C Wheeler,et al.  Elision: a method for accommodating multiple molecular sequence alignments with alignment-ambiguous sites. , 1995, Molecular phylogenetics and evolution.

[22]  R. Petit,et al.  A set of universal primers for amplification of polymorphic non‐coding regions of mitochondrial and chloroplast DNA in plants , 1995, Molecular ecology.

[23]  Zhengwang Jiang,et al.  Isozyme inheritance and variation in Actindia , 1997, Heredity.

[24]  R. Testolin,et al.  MOLECULAR APPROACHES TO SYSTEMATICS OF ACTINIDIA , 1997 .

[25]  R. Testolin,et al.  Paternal inheritance of chloroplast DNA and maternal inheritance of mitochondrial DNA in the genus Actinidia , 1997, Theoretical and Applied Genetics.

[26]  R. Testolin,et al.  Isozyme Polymorphism in the Genus Actinidia and the Origin of the Kiwifruit Genome , 1997 .

[27]  J. Thompson,et al.  The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. , 1997, Nucleic acids research.

[28]  K. Karol,et al.  Phylogenetic relationships of Lecythidaceae: a cladistic analysis using rbcL sequence and morphological data. , 1997, American journal of botany.

[29]  M. McNeilage,et al.  New reports of chromosome numbers in Actinidia (Actinidiaceae) , 1997 .

[30]  R. Petit,et al.  Association between chloroplast and mitochondrial lineages in oaks. , 1998, Molecular biology and evolution.

[31]  J. Palmer,et al.  Explosive invasion of plant mitochondria by a group I intron. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[32]  J. McCreight,et al.  Differential transmission of the Cucumis organellar genomes , 1998, Theoretical and Applied Genetics.

[33]  M. Morgante,et al.  Size homoplasy in chloroplast microsatellites of wild perennial relatives of soybean (Glycine subgenus Glycine) , 1998, Molecular biology and evolution.

[34]  R. Testolin,et al.  Restriction-site variation of PCR-amplified chloroplast DNA regions and its implication for the evolution and taxonomy of Actinidia , 1998, Theoretical and Applied Genetics.

[35]  R. Petit,et al.  Strict paternal inheritance of chloroplast DNA and maternal inheritance of mitochondrial DNA in intraspecific crosses of kiwifruit , 1999, Theoretical and Applied Genetics.

[36]  H. Huang,et al.  Systematic relationships in Actinidia as revealed by cluster analysis of digitized morphological descriptors , 1999 .

[37]  D. Soltis,et al.  Polyploidy: recurrent formation and genome evolution. , 1999, Trends in ecology & evolution.

[38]  W. Powell,et al.  An example of microsatellite length variation in the mitochondrial genome of conifers. , 1999, Genome.

[39]  Mark P. Simmons,et al.  Gaps as characters in sequence-based phylogenetic analyses. , 2000, Systematic biology.

[40]  F. Bakker,et al.  Mitochondrial and chloroplast DNA-based phylogeny of Pelargonium (Geraniaceae). , 2000, American journal of botany.

[41]  C. dePamphilis,et al.  Phylogeny of seed plants based on all three genomic compartments: extant gymnosperms are monophyletic and Gnetales' closest relatives are conifers. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[42]  T. Sang,et al.  Phylogeny and divergence times in Pinaceae: evidence from three genomes. , 2000, Molecular biology and evolution.

[43]  J. Palmer,et al.  Seed plant phylogeny inferred from all three plant genomes: monophyly of extant gymnosperms and origin of Gnetales from conifers. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[44]  Mark W. Chase,et al.  Analysis of Mitochondrial nad1b-c Intron Sequences in Orchidaceae: Utility and Coding of Length-change Characters , 2009 .

[45]  Zuozhou Li,et al.  Phylogenetic Relationships in Actinidia as Revealed by RAPD Analysis , 2002 .

[46]  Hongwen Huang,et al.  Molecular Phylogeny and Infrageneric Classification of Actinidia (Actinidiaceae) , 2002 .

[47]  John Healy,et al.  GapCoder automates the use of indel characters in phylogenetic analysis , 2003, BMC Bioinformatics.

[48]  M. Källersjö,et al.  Phylogenetic relationships in the order Ericales s.l.: analyses of molecular data from five genes from the plastid and mitochondrial genomes. , 2002, American journal of botany.

[49]  Jonathan F. Wendel,et al.  Genome evolution in polyploids , 2004, Plant Molecular Biology.

[50]  D. Couvet,et al.  Mitochondrial DNA diversity and male sterility in natural populations of Daucus carota ssp carota , 1995, Theoretical and Applied Genetics.

[51]  C. Lanaud,et al.  Maternal inheritance of chloroplast genome and paternal inheritance of mitochondrial genome in bananas (Musa acuminata) , 1994, Current Genetics.

[52]  M. McNeilage,et al.  Ploidy races in Actinidia chinensis , 1994, Euphytica.

[53]  M. Morgante,et al.  Paternal inheritance of plastids in interspecific hybrids of the genus Actinidia revealed by PCR-amplification of chloroplast DNA fragments , 1995, Molecular and General Genetics MGG.

[54]  P. Taberlet,et al.  Universal primers for amplification of three non-coding regions of chloroplast DNA , 1991, Plant Molecular Biology.

[55]  R. Sederoff,et al.  Paternal inheritance of chloroplast DNA and maternal inheritance of mitochondrial DNA in loblolly pine , 1989, Theoretical and Applied Genetics.

[56]  Y. Zhong,et al.  Phylogenetic relationships of Actinidia and related genera based on micromorphological characters of foliar trichomes , 2000, Genetic Resources and Crop Evolution.