Investigations into the evolutionary history of the polyploid complexAntennaria neodioica (Asteraceae: Inuleae)

TheAntennaria neodioica polyploid agamic complex is a polymorphic species occurring across North America mainly north of the terminal margin of the Wisconsin glacier. This taxonomically difficult group has recently been treated as consisting of the four subspeciesA. neodioica subsp.canadensis, subsp.howellii, subsp.neodioica, and subsp.petaloidea. TheA. neodioica agamic complex has been considered of hybrid origin with several sexual diploid species constituting its parentage. Crosses were made among five sexual diploid species ofAntennaria, morphologically similar toA. neodioica s.l., in an attempt to discover its origins. Representative specimens of the five diploid species,A. neodioica s. l., and the synthetic interspecific F₁ hybrids were subjected to various analyses including PCA, cluster (UPGMA), and discriminant analyses. Results suggest that theA. neodioica complex is of multiple hybrid origin involving the four diploid speciesA. neglecta, A. plantaginifolia, A. racemosa, andA. virginica. BecauseA. neodioica is the result of diverse origin it is more desirable to consider the agamic complex as a separate, distinct species from its sexual diploid relatives. Several morphological characters in the diploid species were determined to be polygenically inherited.Investigations into the Evolutionary History of the Polyploid Complexes inAntennaria (Asteraceae: Inuleae). I.     

CHROMOSOME NUMBERS OF NORTH AMERICAN SPECIES OF ANTENNARIA GAERTNER (ASTERACEAE: INULEAE)

Chromosome numbers are presented for 99 populations of 13 species of Antennaria, including A. plantaginifolia, A. neglecta, A. virginica, A. solitaria, A. racemosa, A. corymbosa. A. rosea, A. media, A. Parlinii, A. fallax, A. neodioica, A. canadensis, and A. petaloidea. Four species from the eastern United States (A. plantaginifolia, A. neglecta, A. solitaria, and A. virginica) were determined as diploid (n = 14), and these are all sexual. Diploid counts were also obtained for two sexual species (A. racemosa and A. corymbosa) from the western United States. Chromosome counts are presented for two heteroploid agamic complexes occurring in the eastern United States; these include what have traditionally been referred to as A. Parlinii, A. fallax, A. neodioica, A. canadensis, and A. petaloidea. Determinations of 2n = 56, 70, 84, and 112 were obtained for the A. Parlinii and A. fallax groups, where 2n = 84 had been the only number previously reported. Numbers of 2n = 84 were confirmed for A. petaloidea and A. canadensis and 2n = 56 for A. neodioica. The western United States polyploid species (A. rosea and A. media) are reported as 2n = 56. The presence of apomixis is correlated with polyploidy. The distribution of chromosome numbers in eastern United States Antennaria demonstrates that two diploids and many polyploids occur above the glacial margin, and thus there is an increase in the frequency of polyploidy with latitude. Colonization of the glaciated region by Antennaria following the recession of the Wisconsin ice sheet is also discussed. Many of the polyploids occur only in the glaciated region, thus suggesting a recent origin for these cytotypes. There is evidence indicating that the original base number in Antennaria may be x = 7.     

KARYOTYPIC VARIATION OF EASTERN NORTH AMERICAN CLAYTONIA CHEMICAL RACES

Considerable karyotypic differentiation has occurred within the group of taxa comprising the eastern North American members of the genus Claytonia. Patterns of karyotypic differentiation are congruent with evolutionary groupings based on flavonoid chemistry, particularly at the diploid level. The 2n = 16 diploid chemotype found in both C. caroliniana and C. virginica possesses a karyotype composed entirely of metacentric chromosomes, while acrocentric chromosomes predominate in the karyotypes of the 2n = 12 and 2n = 14 diploid chemotypes of C. virginica. The 2n = 16 diploid also has a karyotype significantly larger than those of the other diploid cytotypes. Polyploid karyotypes of both species show varying degrees of divergence from their presumed diploid progenitors.     

EVOLUTION OF PHENOTYPIC PLASTICITY IN THE STELLARIA LONGIPES COMPLEX: COMPARISONS AMONG CYTOTYPES AND HABITATS

Variation in the amount and pattern of plasticity was studied in three cytotypes (4x, 6x, and 8x) of Stellaria longipes and diploids of its suspected progenitor S. longifolia. All 13 traits considered showed plasticity. There were significant differences among cytotypes and habitats in plasticity for many traits. Overall, the diploids, S. longifolia, were most plastic, and the three cytotypes of S. longipes did not differ in amount of plasticity. Stellaria longifolia showed divergence from S. longipes in the pattern of plasticity as well. In general, cytotypes with more similar chromosome numbers had the same pattern of plasticity for more traits. Individuals from tundra populations differed in their pattern of plasticity from those of montane, boreal, and prairie origin, which were more similar to one another. Differences in plasticity among cytotypes were due primarily to divergence in amount, while differences among habitats were most often accounted for by divergent patterns of plasticity. We conclude that both polyploidy and natural selection have affected the evolution of plastic responses in this species complex. Analysis of the correlation between pairs of traits provided evidence that the pattern and amount of plasticity operate independently of one another and may be evolving separately.     

Evolutionary dynamics of retrotransposons following autopolyploidy in the Buckler Mustard species complex

Long terminal repeat retrotransposons (LTR‐RTs) represent a major fraction of plant genomes, but processes leading to transposition bursts remain elusive. Polyploidy expectedly leads to LTR‐RT proliferation, as the merging of divergent diploids provokes a genome shock activating LTR‐RTs and/or genetic redundancy supports the accumulation of active LTR‐RTs through relaxation of selective constraints. Available evidence supports interspecific hybridization as the main trigger of genome dynamics, but few studies have addressed the consequences of intraspecific polyploidy (i.e. autopolyploidy), where the genome shock is expectedly minimized. The dynamics of LTR‐RTs was thus here evaluated through low coverage 454 sequencing of three closely related diploid progenitors and three independent autotetraploids from the young Biscutella laevigata species complex. Genomes from this early diverging Brassicaceae lineage presented a minimum of 40% repeats and a large diversity of transposable elements. Differential abundances and patterns of sequence divergence among genomes for 37 LTR‐RT families revealed contrasted dynamics during species diversification. Quiescent LTR‐RT families with limited genetic variation among genomes were distinguished from active families (37.8%) having proliferated in specific taxa. Specific families proliferated in autopolyploids only, but most transpositionally active families in polyploids were also differentiated among diploids. Low expression levels of transpositionally active LTR‐RT families in autopolyploids further supported that genome shock and redundancy are non‐mutually exclusive triggers of LTR‐RT proliferation. Although reputed stable, autopolyploid genomes show LTR‐RT fractions presenting analogies with polyploids between widely divergent genomes.     

Investigations into the evolutionary history of theAntennaria rosea (Asteraceae: Inuleae) polyploid complex

TheAntennaria rosea polyploid agamic complex is one of the most morphologically diverse and widespread complexes of N. AmericanAntennaria. The group is taxonomically confusing because of numerous agamospermous microspecies, having been recognized as distinct species. Morphometric analyses have demonstrated that the primary source of morphological variability in the complex derives from six sexually reproducing progenitors,A. aromatica, A. corymbosa, A. media, A. microphylla, A. racemona, andA. umbrinella. Additionally, two other sexually reproducing species,A. marginata andA. rosulata, may have contributed to the genetic complexity of theA. rosea complex. Cluster analysis indicates that four discrete morphological groups exist within theA. rosea complex. Each group could be the result of predominance of genes from different groups of sexual progenitors. AsA. rosea is of multiple hybrid origin, from among several sexual progenitors, it is advisable to recognizeA. rosea as a distinct species from its sexual progenitors.Investigations into the evolutionary history of the polyploid complexes inAntennaria (Asteraceae: Inuleae). 3. TheA. rosea complex.     

RFLP variability in peanut (Arachis hypogaea L.) cultivars and wild species

Summary RFLP variability was studied in eight U.S. peanut cultivars, representing the four market types, and in 14 wild Arachis species accessions, using random genomic clones from a PstI library. Very low levels of RFLP variability were found among the allotetraploids, which included the U.S. cultivars and Arachis monticola, a wild species. The diploid wild species were very diverse, however. RFLP patterns of the allotetraploids were more complex than the diploids, and the two constituent genomes could usually be distinguished. On the basis of RFLP band sharing, A. ipaensis, A. duranensis, and A. spegazzinii appeared most closely related to the diploid progenitor species of the allotetraploids. A dendrogram of relationships among the diploid wild species was constructed based on band sharing.     

Ecogeographic isolation: a reproductive barrier between species and between cytotypes in Houstonia (Rubiaceae)

‘Ecogeographic isolation’ describes the combined role of ecology and geography as a reproductive barrier, and an important component in speciation. Evidence increasingly shows that this form of isolation is important for maintaining the genetic integrity of populations and species. Further, ecogeographic isolation can be a reproductive barrier between polyploid individuals and their diploid progenitors. New ecoinformatic methods, which includes niche modeling and associated statistical assessments of these models with spatially explicit environmental data, allow us to test if ecogeographic isolation is a contributing isolating barrier between species and between cytotypes within a species. We tested the hypothesis that ecogeographic isolation contributes to isolation of species and cytotypes within species of the plant genus Houstonia. We found that species in this group occupied significantly different niches, which suggests ecogeographic isolation is a contributing reproductive barrier. We also found that diploid and tetraploid forms of H. longifolia show some level of ecogeographic isolation, but H. purpurea diploids and tetraploids did not. Our results suggest that ecogeographic isolation plays a role in reproductive isolation between Houstonia species and between cytotypes of H. longifolia.     

MOLECULAR EVIDENCE FOR THE ORIGIN OF THE S-DERIVED GENOMES OF POLYPLOID TRITICUM SPECIES

The genus Triticum includes several polyploid species that arose due to hybridization between two or more diploid species. Section Sitopsis is comprised of five diploid species given the genome designation S. Four polyploid species are recognized that contain an S or S-derived genome. We have used two repetitive DNA sequences found primarily in the S genomes of Triticum to determine the likely diploid progenitors of the polyploid species. Comparison of restriction fragments that hybridize to probes for these sequences suggests that T. speltoides is distinct from other members of section Sitopsis (i.e., T. longissimum, T. bicorne, T. searsii, and T. sharonense). The S-derived genome of T. aestivum is more closely related to T. speltoides than to the other Sitopsis diploids. The restriction fragment pattern of T. timopheevii is 98% identical to that of T. speltoides, while those of T. kotschyi and T. syriacum are identical to the group of diploids represented by T. longissimum, T. bicorne, T. searsii, and T. sharonense. Our results are compatible with previous molecular and biochemical data regarding relationships among Triticum species containing an S or S-derived genome.     

PLANT POLYPLOIDY AND POLLINATION: FLORAL TRAITS AND INSECT VISITS TO DIPLOID AND TETRAPLOID HEUCHERA GROSSULARIIFOLIA

In many polyploid species, polyploids often have different suites of floral traits and different flowering times than their diploid progenitor species. We hypothesized that such differences in floral traits in polyploids may subsequently affect their interactions with pollinating and other insect visitors. We measured floral morphology and flowering phenology in 14 populations of diploid and autotetraploid Heuchera grossulariifolia Rydb. (Saxifragaceae), determined if repeated evolution of independent polyploid lineages resulted in differentiation in floral morphology among those lineages, and ascertained if there was a consistent pattern of differentiation among genetically similar diploid and autotetraploid populations. In addition, we evaluated the differences in suites of floral visitors within a natural community where diploids and autotetraploids occur sympatrically. Overall, flowers of autotetraploid plants were larger and shaped differently than those of diploids, had a different flowering phenology than that of diploids, and attracted different suites of floral visitors. In comparison with flowers of diploids, tetraploid floral morphology varied widely from pronounced differences between cytotypes in some populations to similar flower shapes and sizes between ploidal levels in other populations. Observations of floral visitors to diploids and autotetraploids in a natural sympatric population demonstrated that the cytotypes had different suites of floral visitors and six of the 15 common visitors preferentially visited one ploidy more frequently. Moreover, we also found that floral morphology differed among independent autotetraploid origins, but there was no consistent pattern of differentiation between genetically similar diploid and autotetraploid populations. Hence, the results suggest that the process of polyploidization creates the potential for attraction of different suites of floral visitors. Multiple origins of polyploidy also presents the opportunity for new or different plant-insect interactions among independent polyploid lineages. These differences in turn may affect patterns of gene flow between diploids and polyploids and also among plants of independent polyploid origin. Polyploidy, therefore, may result in a geographic mosaic of interspecific interactions across a species' range, contributing to diversification in both plant and insect groups.     

Parental Ploidy Strongly Affects Offspring Fitness in Heteroploid Crosses among Three Cytotypes of Autopolyploid Jacobaea carniolica (Asteraceae)

Reproductive interactions among cytotypes in their contact zones determine whether these cytotypes can co-exist and form stable contact zones or not. In autopolyploids, heteroploid cross-compatibilities might depend on parental ploidy, but tests of this hypothesis in autopolyploid systems with more than two ploidies are lacking. Here, we study Jacobaea carniolica, which comprises diploid, tetraploid, and hexaploid individuals regularly forming contact zones. Seeds obtained from in situ cross-pollinations within and among cytotypes were subjected to DNA flow cytometry and greenhouse germination experiments. Hybrid fitness and parental effects on hybrid fitness were tested with regression models comparing fitness parameters of early life stages. Irrespective of the direction of crosses, seed viability and seedling survival in diploid-polyploid crosses were substantially lower than in tetraploid-hexaploid crosses. In contrast, seedling growth traits indicated neither transgressive character expression nor any selection against hybrid offspring. Congruent with a model of genome dosage effects, these traits differed between reciprocal crosses, especially of diploids and tetraploids, where trait values resembled those of the maternal parent. The strong effect of parental ploidy on offspring fitness in heteroploid crosses may cause contact zones involving exclusively polyploid cytotypes to be less stable over longer terms than those involving diploids and polyploids.     

Polyploidy associated with altered and broader ecological niches in the Claytonia perfoliata (Portulacaceae) species complex

? Premise of the study: Polyploids are often hypothesized to have distinct and broader niches than their diploid progenitors. Differences in geographic distributions between diploid and polyploids are frequently used to infer niche differentiation and increased breadth, but they are seldom used to test these hypotheses explicitly. ? Methods: Niche overlap and breadth were compared for diploids, tetraploids, and hexaploids of three taxa in the Claytonia perfoliata complex (C. parviflora, C. perfoliata, and C. rubra) with the use of species distribution models. Resampling and randomization approaches were used to test hypotheses of niche differentiation, breadth, and conservatism. ? Key results: Niche differentiation was detected between polyploid and diploid cytotypes assigned to the same taxon (e.g., C. parviflora 2× vs. 4×) but not between hexaploids and tetraploids within a taxon (e.g., C. parviflora 4× vs. 6×). Individual hexaploid cytotypes had broader ecological niches than individual diploid cytotypes. However, as a group the three hexaploid taxa did not exceed the combined niche breadth of the three diploids, suggesting that polyploidy does not result in transgressive niche breadth for this group. Niche overlap was lowest among diploids and was highest among the three hexaploid cytotypes, consistent with introgression associated with polyploidy resulting in greater ecological similarity. Although cytotypes possessed nonidentical niches, after accounting for environmental differences among ranges, cytotypes were more similar than expected, suggesting niche conservatism and similar responses to environmental characteristics. ? Conclusions: These results suggest that polyploids occupy distinct and broader niches relative to diploids but that cytotypes also share fundamentally similar responses to environmental variation across ploidy levels.     

Genome and species relationships in genus<Emphasis Type="Italic"> Avena</Emphasis> based on RAPD and AFLP molecular markers

Species and genome relationships among 11 diploid (A and C genomes), five tetraploid (AB and AC genomes) and two hexaploid (ACD genome) Avena taxa were investigated using amplified fragment length polymorphisms (AFLPs) and random amplified polymorphic DNA (RAPD) markers. The two primer pairs used for the AFLP reactions produced a total of 354 polymorphic bands, while 187 reproducible bands were generated using ten RAPD primers. Genetic similarities amongst the entries were estimated using the Jaccard and Dice algorithms, and cluster analyses were performed using UPGMA and neighbor joining methods. Principle coordinate analysis was also applied. The highest cophenetic correlation coefficient was obtained for the Jaccard algorithm and UPGMA clustering method (r=0.99 for AFLP and r=0.94 for RAPD). No major clustering differences were present between phenograms produced with AFLPs and RAPDs. Furthermore, data produced with AFLPs and RAPDs were highly correlated (r=0.92), indicating the reliability of our results. All A genome diploid taxa are clustered together according to their karyotype. The AB genome tetraploids were found to form a subcluster within the A_s genome diploids (AFLPs), indicating their near-autoploid origin. The AC genome tetraploids are clustered to the ACD genome hexaploids. Finally, the C genome diploids form an outer branch, indicating the major genomic divergence between the A and C genomes in Avena.Communicated by J.S. Heslop-Harrison     

Karyotaxonomical analysis in the genusAngelica (Umbelliferae)

Morphometric karyotype characters were studied in 25Angelica spp. (Umbelliferae, Apioideae) and in one species of the related genusTommasinia. For three species the chromosome numbers are new. In our study the majority of the species investigated are diploids with 2n = 22, some are tetraploids with 2n = 44 (for these tetraploids also diploid cytotypes are reported in the literature). Among the diploid species,A. miqueliana has a distinct karyotype consisting of submetacentric and acrocentric chromosomes only, the remaining diploids with 2n = 22 as well as tetraploids with 2n = 44 have rather symmetrical karyotypes, consisting of metacentric and submetacentric chromosomes. The very different chromosome number 2n = 28 has been found inA. gmelinii. Its karyotype includes two distinct groups of chromosomes: 8 pairs of rather large metacentrics and submetacentrics and 6 pairs of very short and asymmetrical chromosomes. Chromosome numbers and structures appear to be useful in the taxonomy of some intrageneric taxa inAngelica.     

Phylogenetic inferences in Avena based on analysis of FL intron2 sequences

The development and application of molecular methods in oats has been relatively slow compared with other crops. Results from the previous analyses have left many questions concerning species evolutionary relationships unanswered, especially regarding the origins of the B and D genomes, which are only known to be present in polyploid oat species. To investigate the species and genome relationships in genus Avena, among 13 diploid (A and C genomes), we used the second intron of the nuclear gene FLORICAULA/LEAFY (FL int2) in seven tetraploid (AB and AC genomes), and five hexaploid (ACD genome) species. The Avena FL int2 is rather long, and high levels of variation in length and sequence composition were found. Evidence for more than one copy of the FL int2 sequence was obtained for both the A and C genome groups, and the degree of divergence of the A genome copies was greater than that observed within the C genome sequences. Phylogenetic analysis of the FL int2 sequences resulted in topologies that contained four major groups; these groups reemphasize the major genomic divergence between the A and C genomes, and the close relationship among the A, B, and D genomes. However, the D genome in hexaploids more likely originated from a C genome diploid rather than the generally believed A genome, and the C genome diploid A. clauda may have played an important role in the origination of both the C and D genome in polyploids.     

Origins of polyploids: an example from peonies (Paeonia) and a model for angiosperms

The majority of tetraploid peonies are allopolyploids derived from crosses between phylogenetically distinct diploid lineages. Tetraploid Paeonia obovata was previously considered to be an autopolyploid because it is morphologically indistinguishable from the diploid of the same species. The presence of the Adh2 gene in tetraploid P. obovata but the inability to amplify the Adh2 gene from Chinese diploids of P. obovata, however, suggests that the tetraploid was not an autotetraploid derivative of the geographically adjacent diploid populations in China. The Adh gene phylogenies rather suggest that the tetraploid originated from crosses between two geographical races of diploid P. obovata distributed in China and Japan. The intermediate status of tetraploid P. obovata between auto‐ and allopolyploidy highlights the need for population genetic analyses of polyploid origins along the continuous range of genomic divergence. Here we present a model that describes the probabilities of polyploid formation and establishment as a function of genomic divergence between diploid progenitors. The probability of polyploid formation (P_f) is obtained from the multiplication of the probability of production of unreduced gametes (P_g) and the probability of ‘hybridization’ (P_h). P_f stays relatively stable when the genomic divergence is low, and then decreases progressively rapidly with the increase of genomic divergence between diploid progenitors. The probability of polyploid establishment (P_e), which depends on the rate of appearance of stable beneficial gene combinations and the rate of fertility restoration, is positively correlated with the genomic divergence of diploid parents. Multiplication of P_f and P_e gives an overall probability of polyploid origins (P_o) that varies continuously along the genomic divergence between diploid progenitors. © 2004 The Linnean Society of London, Biological Journal of the Linnean Society, 2004, 82 , 561–571.     

AUTOPOLYPLOIDY IN HEUCHERA MICRANTHA (SAXIFRAGACEAE)

Heuchera micrantha (Saxifragaceae) is a morphologically variable species comprising five varieties: diversifolia, erubescens, hartwegii, micrantha, and pacifica. Both diploids (2n = 14) and tetraploids (2n = 28) occur within the species. The tetraploid cytotype occupies the central portion of the geographic range of the species, whereas diploids occur primarily in the southern and northern portions of the range. Both diploids and tetraploids have been detected within vars. diversifolia, pacifica, and hartwegii. All counts for vars. erubescens and micrantha are diploid and tetraploid, respectively. Several lines of evidence suggest that tetraploid H. micrantha is of autopolyploid origin. The species is distinct morphologically and is also well separated geographically from other closely related species in subsection Micranthae. The two cytotypes are karyologically identical, possess nearly the same suite of allozymes, and have a very high genetic identity (Ī = 0.971). Significantly, an earlier study documented tetrasomic inheritance in the tetraploid cytotype. Following theoretical expectations, the mean number of alleles per locus, proportion of loci that are polymorphic, and observed heterozygosity are significantly higher for the autotetraploid than for the diploid. The occurrence of both cytotypes in three of the varieties suggests that autopolyploidy may have occurred several times independently in H. micrantha. This was further substantiated by discriminant analysis using morphological characters, which provided evidence for a minimum of two separate origins for the autopolyploid cytotype.     

FLAVONOID RACES OF CLAYTONIA VIRGINICA (PORTULACACEAE)

Four flavonoid races have been found in the Claytonia virginica aneuploid complex, differing from one another in the accumulation of 12 kaempferol and quercetin 3-glycosides. Each of these races has a distinctive geographical distribution within the overall range of the species. The three major diploid cytotypes of C. virginica each belong to different races, two of which also include polyploids; a fourth race consists entirely of polyploids. An examination of biosynthetic pathways indicates that a small number of genetic changes are responsible for the observed variation; polyploidy per se does not appear to have contributed significantly to the production of novel compounds. Flavonoid data also suggest strongly that polyploidy within rather than between modern chemical races has been responsible for the bulk of chromosome number variation in the species.