The considerable genome size variation of Hordeum species (poaceae) is linked to phylogeny, life form, ecology, and speciation rates

Genome size variation in plants is thought to be correlatedwith cytological, physiological, or ecological characters. However,conclusions drawn in several studies were often contradictory.To analyze nuclear genome size evolution in a phylogenetic framework,DNA contents of 134 accessions, representing all but one speciesof the barley genus Hordeum L., were measured by flow cytometry.The 2C DNA contents were in a range from 6.85 to 10.67 pg indiploids (2n = 14) and reached up to 29.85 pg in hexaploid species(2n = 42). The smallest genomes were found in taxa from theNew World, which became secondarily annual, whereas the largestdiploid genomes occur in Eurasian annuals. Genome sizes of polyploidtaxa equaled mostly the added sizes of their proposed progenitorsor were slightly (1% to 5%) smaller. The analysis of ancestralgenome sizes on the base of the phylogeny of the genus revealedlineages with decreasing and with increasing genome sizes. Correlationsof intraspecific genome size variation with the length of vegetationperiod were found in H. marinum populations from Western Europebut were not significant within two species from South America.On a higher taxonomical level (i.e., for species groups or theentire genus), environmental correlations were absent. Thiscould mostly be attributed to the superimposition of life-formchanges and phylogenetic constraints, which conceal ecogeographicalcorrelations.     

Genetic variation in time and space: the use of herbarium specimens to reconstruct patterns of genetic variation in the endangered orchid Anacamptis palustris

Habitat alteration, fragmentation and destruction as a consequence of human impact are a global phenomenon. Here we document changes in genetic variation in the marsh orchid Anacamptis palustris as a consequence of such habitat changes. We examined historical specimens that were collected during the nineteenth and early twentieth centuries, prior to the most recent massive habitat changes affecting this species. Sequences of a hypervariable region in the plastid DNA, located in the tRNA^LEU intron, from herbarium vouchers were compared with those from a near-exhaustive survey of the extant A. palustris populations on the Italian peninsula. It was found that private haplotypes and alleles found in small, extant populations were once widespread and more common in historic populations and that alleles, once present in historic populations, have gone extinct. In addition, genetic differentiation among populations has increased over time and haplotype frequencies significantly differ among historic and extant populations. These results document that human induced habitat changes have reduced genetic diversity and increased the importance of random genetic drift in this species. It is concluded that the analysis of herbarium specimens may provide important insights into changes of genetic diversity over time and may be critical for correct inference of the evolutionary history of rare and endangered species.     

Genome size variation in Macaronesian angiosperms: forty percent of the Canarian endemic flora completed

Genome sizes for 127 Macaronesian endemic angiosperms from 69 genera and 32 families were estimated using propidium iodide flow cytometry. Only about 30-fold variation in 1C-values was found, ranging from 0.32 pg in Echium bonnetii to 9.52 pg in Scilla dasyantha. Taxa with very small DNA amounts (1C 1.4 pg) were the most dominant group (71.7%), whereas the frequency of other categories was much lower (18.9% and 9.4% in taxa with small (1.41–3.50 pg) and intermediate 1C-values (3.51–14.00 pg), respectively). Comparisons of average C- and Cx-values between Macaronesian endemics and non-Macaronesian representatives always revealed significantly smaller amounts in the former group at various taxonomic levels (genus, family, major phylogenetic lineage). Potential relationship between nuclear DNA content and insular burst of speciation is suggested owing to the marked prevalence of very small genomes among angiosperms that underwent rapid adaptive radiation. Merging all the genome size data on Macaronesian angiosperms available shows that this flora represents the best covered plant assemblage from the phytogeographic point of view.     

2C DNA variation and relationships among New World species of the genus Lupinus (Fabaceae)

The 2C DNA values in 38 species and accessions of the genus Lupinus (Fabaceae) from the New World have been analysed using flow cytometry. They are representatives of North and South American species (the Atlantic and the Andean regions). Estimated 2C DNA values ranged from 1.08 pg in L. pusillus to 2.68 pg in L. albicaulis (both from North America), that is a variation of more than 2.5-fold. The variation for North American lupins was much higher than that for South American ones. Statistical analysis of the data resulted in a grouping that showed for North American lupins some correlation with the length of life cycle. Discussion concerns some aspects of the evolution of the genus.     

Genetic diversity in Isoetes yunguiensis, a rare and endangered endemic fern in China

Isoetes yunguiensis is an endangered and endemic fern in China. Field survey indicated that only one population and no more than 50 individuals occur in the wild. The genetic variation of 46 individuals from the population remaining at Pingba (Guizhou Province, China) was assessed by Random Amplified Polymorphic DNA (RAPD) finger-printing. Twelve primers were screened from sixty ten-bp arbitrary primers, and a total of 95 DNA fragments were scored. Of these, 62.1% were polymorphic loci, which indicated that high level genetic variation existed in the natural population. The accumulation of genetic variation in the history of the taxon and the apparent minimal reduction effect on genetic diversity following destruction of habitat might be responsible for the high level genetic diversity presently remaining in the I. yunguiensis population. However, with the continuing decrease of population size, the genetic diversity will gradually be lost. We suggest that the materials from the extant population should be used for re-establishment of the populations. Translated from Journal of Wuhan University (Natural Sciences Edition), 2005, 51(6): 767–770 [译自: 武汉大学学报 (理学版)]     

Taxonomic implications of genome size and pollen colour and vitality for species of Agapanthus L’Héritier (Agapanthaceae)

Nuclear DNA content (2C) and pollen vitality and colour are used as new criteria to investigate all species of the genus Agapanthus LHéritier. The species have the same chromosome number (2n=2x=30), with exception of four triploid plants found. The nuclear DNA content of the diploids, as measured by flow cytometry with propidium iodide, is demonstrated to range from 22.1–31.6 pg. This implies that the largest genome contains roughly 10¹⁰ more base pairs than the smallest. The species could be divided in two groups based on pollen colour and DNA content: a group with lilac pollen and a DNA content between 22.3 and 24.1 pg containing the species A. campanulatus Leighton, A. caulescens Sprenger and the rarer A. coddii Leighton, and a group with yellow/brownish pollen and a DNA content from 25.2–31.6 pg containing the species A. praecox Willd., A. inapertus Beauv. and A. africanus (L.) Hoffmanns. Four other taxa, recognized by Leighton (1965) are treated as follows: A. comptonii Leighton, has a nuclear DNA content similar to A. praecox and is considered to be a synonym of A. praecox subsp. minimus Leighton. A. walshii L. Bol., has with 31.6 pg the same high amount of DNA as A. africanus from the same area and is therefore renamed as a subspecies (A. africanus subsp. walshii (Leighton) Zonn. & Duncan comb. nov.). The nuclear DNA amounts of A. dyeri Leighton, including the geographically isolated plants from Mozambique, are shown to be identical to A. inapertus. Therefore A. dyeri is considered synonymous with A. inapertus subsp. intermedius Leighton. A. nutans Leighton is identical in DNA content to A. caulescens and is considered to be synonymous with that species. Concluding there are six species: A. campanulatus Leighton, A. caulescens Sprenger, A. coddii Leighton, A. praecox Willd., A. inapertus Beauv. and A. africanus (L.) Hoffmanns. Nuclear DNA content as measured by flow cytometry and pollen colour are shown to be relevant traits to throw light on the relationships between Agapanthus species.     

Flow cytometric measurement of nuclear DNA content inCapsicum (Solanaceae)

Nuclei were isolated from leaf tissue of differentCapsicum species and the relative fluorescence intensity was measured by flow cytometry after propidium iodide staining.Pisum sativum nuclei with known nuclear genome size (9.07 pg) were used as internal standard to determine nuclear DNA content of the samples in absolute units. The 2C DNA contents ranged between 7.65 pg inC. annuum and 9.72 pg inC. pubescens, and the general mean of the genus was 8.42 pg. These values correspond, respectively, to 1C genome size of 3.691 (C. annuum), 4.690 (C. pubescens) and 4.063 (general mean) Mbp. In general, white-flowered species proved to have less DNA, with the exception ofC. praetermissum, which displayed a 2C DNA content of 9.23 pg. It was possible to divide the studied species into three main groups according to their DNA content, and demonstrate differences in DNA content within two of the three species complexes established on the basis of morphological traits.     

ZZW autotriploidy in a Blue-and-Yellow Macaw

We describe genome size (nuclear DNA content), and cellular and nuclear dimensions of erythrocytes in a triploid Blue-and-Yellow Macaw (Ara ararauna) and its diploid parents. The genome size of the triploid (4.23 pg) was 1.5 times greater than the genome size of the mother (2.80 pg) and the father (2.89 pg). The sex chromosome composition was ZZW, and was predicted correctly based on the genome size of the parents. Erythrocytes of the triploid were significantly larger than the erythrocytes of the parents. Because polyploidy has been reported only in one other family of birds (Phasianidae), the parrots and their relatives might prove to be useful in the study of avian triploidy.     

Taxonomic implications of genome size for all species of the genus Gasteria Duval (Aloaceae)

Nuclear DNA content (2C) is used as a new criterion to investigate all species of the genus Gasteria Duval including the three recently described species Gasteria polita van Jaarsv., G. pendulifolia van Jaarsv. and G. glauca van Jaarsv.. The 122 accessions investigated have the same chromosome number (2n=2x=14), with exception of three tetraploid plants found. The nuclear DNA content of the diploids, as measured by flow cytometry with Propidium Iodide, is demonstrated to range from 32.8–43.2 pg. This implies that the largest genome contains roughly 10¹⁰ more base pairs than the smallest. Based on DNA content the species could be divided in five groups: G. rawlinsonii Oberm. with 32.8 pg, 13 mostly inland species with 34.3–36.0 pg, five coastal species with 36.5–39.0 pg and Gasteria batesiana Rowley with 43.2 pg. The thirteen species with 34.3–36.0 pg could be divided further, in a group of eight species occupying mainly very restricted areas with 34.3–35.1 pg and a second group of five species with 35.2–36.0 pg mainly occupying large areas. These five groups did not coincide very well with the two sections and four series of Gasteria based on a cladistic analysis by van Jaarsveld et al. (1994). Based on its long leafy branches, location in the centre of Gasteria species distribution and its by far lowest DNA content, G. rawlinsonii might be the most primitive member of the genus. Nuclear DNA content as measured by flow cytometry is shown to be relevant to provide additional information on the relationships between Gasteria species.     

Genetic variation in the horsetail Equisetum variegatum Schleich., an endangered species in the Parisian region

Equisetum variegatum Schleicher is a circumboreale species of horsetail. In France, it typically grows at high elevations but is very rare in lowlands. The genetic variation of these populations is described using isozyme electrophoresis and PCR-RFLP of chloroplast DNA. Sampled sites were chosen to represent central vs. marginal and/or endangered parts of the distribution area. Extensive clonal multiplication of plants together with the absence of local recruitment by sexual reproduction seem to be responsible for the low genetic diversity observed within populations. Since adaptive response to environmental changes ultimately relies on the presence of genetic variability, clonal populations of E. variegatum may be particularly vulnerable to disturbance. Moreover, in lowland populations, isolation gives no chance to recover new genotypes through migration events. The preservation of the two endangered populations is proposed by propagation by cuttings of all extant genetic individuals. In the case of a disappearance of one genotype in the field, a replacement will be possible. This plan may be sufficient to preserve E. variegatum in the French lowland for several years.     

Genetic diversity of Astragalus nitidiflorus, a critically endangered endemic of SE Spain,and implications for its conservation

Inter-simple sequence repeats (ISSR) markers were used to assess the genetic diversity and population structure in five populations of Astragalus nitidiflorus, a critically endangered species endemic to southeast Spain. Eight primers amplified 78 bands with 40 (51.3%) being polymorphic. Statistical results indicated a low genetic diversity at the population and species level, with percentages of polymorphic bands (PPB) ranging from 28.2 to 37.2% (an average of 31.8%), and means of gene diversity (H_E) of 0.129 and 0.171 respectively. The Shannon’s index (SI) ranged from 0.160 to 0.214 at the population level and was 0.260 at the species level. A low level of genetic differentiation among populations was detected, based on the Shannon’s information index (0.297), the coefficient of genetic differentiation between populations (G_ST = 0.2418) and AMOVA analysis (Φ_ST = 0.255). The estimated gene flow (Nm) was 0.789. The high genetic connectivity found among populations of A. nitidiflorus is an evidence of a recent habitat fragmentation. In addition, a bottleneck event in the past has been revealed, with a subsequent reduction of population size and a loss of genetic variation. Based on these results, the conservation strategy of A. nitidiflorus was proposed.     

Contribution to the orchid flora of South Central Africa

11 new taxa (8 new species, 3 new varieties) ofOrchidaceae are described from South Central Africa, including data on their habitat and distribution and discussions of their systematic affinities.     

Genome size variation in the genus Carthamus (Asteraceae, Cardueae): systematic implications and additive changes during allopolyploidization

BACKGROUND AND AIMS: Plant genome size is an important biological characteristic, with relationships to systematics, ecology and distribution. Currently, there is no information regarding nuclear DNA content for any Carthamus species. In addition to improving the knowledge base, this research focuses on interspecific variation and its implications for the infrageneric classification of this genus. Genome size variation in the process of allopolyploid formation is also addressed. METHODS: Nuclear DNA samples from 34 populations of 16 species of the genus Carthamus were assessed by flow cytometry using propidium iodide. KEY RESULTS: The 2C values ranged from 2.26 pg for C. leucocaulos to 7.46 pg for C. turkestanicus, and monoploid genome size (1Cx-value) ranged from 1.13 pg in C. leucocaulos to 1.53 pg in C. alexandrinus. Mean genome sizes differed significantly, based on sectional classification. Both allopolyploid species (C. creticus and C. turkestanicus) exhibited nuclear DNA contents in accordance with the sum of the putative parental C-values (in one case with a slight reduction, frequent in polyploids), supporting their hybrid origin. CONCLUSIONS: Genome size represents a useful tool in elucidating systematic relationships between closely related species. A considerable reduction in monoploid genome size, possibly due to the hybrid formation, is also reported within these taxa.     

Genome sizes for all genera of Cycadales

Nuclear DNA content (2C) is reported for all genera of the Cycadales, using flow cytometry with propidium iodide. Nuclear DNA content ranges from 24 to 64 pg in cycads. This implies that the largest genome contains roughly 40 × 10(9) more base pairs than the smallest genome. The narrow range in nuclear DNA content within a genus is remarkable for such an old group. Furthermore, 42 of the 58 plants measured, covering five genera, have 18 chromosomes. They vary from 36.1 to 64.7 pg, covering the whole range of genome sizes (excluding the genome of Cycas). Hence, their does not seem to be a correlation between genome size and the number of chromosomes.     

Nuclear DNA content in allopolyploid species and synthetic hybrids in the grass genus Paspalum

DNA content was estimated by flow cytometry in seventeen taxa from the Dilatata, Quadrifaria and Paniculata groups of Paspalum and five synthetic hybrids. Results were compared to known genome constitutions and phylogenetic relationships. DNA 2C-values ranged from 1.24 pg in diploid P. juergensii to 3.79 pg in a hexaploid biotype of P. dilatatum. The I genome of three Quadrifaria diploids is 1.2 to 1.5-fold larger than the J genome of P. juergensii (Paniculata). The 2C-values of the IIJJ tetraploids of the Dilatata group are lower than expected based on putative genome donors. Reduction of genome sizes could have occurred after the formation of the allopolyploids of the Dilatata group. The DNA content of all synthetic hybrids is in accordance with the sum of parental C-values. The interactions driving genome downsizing may operate differently during the transition from diploidy to polyploidy than on subsequent increases in ploidy level.     

Genetic diversity and phenotypic variation in marginal populations of the locally endangered speciesHordeum secalinum (Poaceae)

Electrophoresis was used to compare variation in hordein polypeptide patterns and isozymes in five marginal populations ofHordeum secalinum (four Swedish and one Danish population) and four populations along the Atlantic coast from Denmark to Spain. Hordein patterns were uniform within and among Swedish and Danish populations whereas the materials from France and Spain were divergent. The banding patterns for nine isozymes (AAT, IDH, MDH, PGD, GPI, ME, ACP, EST, and PRX) agreed with those reported for otherHordeum species. All putative loci were monomorphic with the exception of PRX, which showed three different phenotypes. The five marginal populations varied in seed set and cultivated plants differed in phenological traits.Dedicated to emer. Univ.-Prof. DrFriedrich Ehrendorfer on the occasion of his 70th birthday     

Causes of rarity and range restriction of an endangered, endemic limpet, Siphonaria compressa

The pulmonate limpet Siphonaria compressa is South Africa's most endangered marine mollusc. It is endemic to just two localities: Langebaan Lagoon on the west coast, and Knysna Estuary on the south coast, and occurs only on the eelgrass Zostera capensis. In Langebaan Lagoon, eelgrass has fluctuated substantially over the last 34 years, and S. compressa has twice approached extinction. S. compressa is largely confined to the lower edge of the eelgrass beds there, being replaced higher up by another small gastropod, Assiminea globulus. We explored the physical and biological factors underlying the limpet's narrow habitat, using field observations, translocations, caging and transplant experiments. Abundance of S. compressa was positively correlated with Z. capensis cover and negatively correlated with shore height. When moved to the upper portions of the eelgrass bed, S. compressa had lower rates of persistence and survival than in the lowest zone. The lower limit of zonation for S. compressa was set indirectly by bioturbation by the sandprawn Callianassa kraussi, which excluded eelgrass from intertidal sandbanks. Transplants of eelgrass into the sandbanks proliferated provided C. kraussi was experimentally eliminated, and supported densities of S. compressa 20-fold greater than in control eelgrass beds, suggesting that high-shore eelgrass beds to which S. compressa is normally confined are suboptimal for the limpet. A. globulus showed patterns opposite to those of S. compressa: its persistence and survival were greatest in the upper zone and it actively avoided the lower sections of these beds and never colonised eelgrass transplanted into sandflats lower on the shore. There was no evidence that competition between S. compressa and A. globulus influenced the zonation or abundance of either species. Rarity of S. compressa and its endangered status seem dictated by its extremely narrow and temporally changeable habitat-range, which is defined by physical stress in the high-shore and bioturbation by C. kraussi in the low-shore. Fluctuations in eelgrass abundance and limitation of S. compressa to just two localities add substantially to the risks of extinction for this embattled stenotypic limpet.     

Genetic variation in the endangered <Emphasis Type="Italic">Anisodus tanguticus</Emphasis> (Solanaceae), an alpine perennial endemic to the Qinghai-Tibetan Plateau

We used random amplified polymorphic DNA markers (RAPDs) to assess genetic variation between- and within-populations of Anisodus tanguticus (Solanaceae), an endangered perennial endemic to the Qinghai-Tibetan Plateau with important medicinal value. We recorded a total of 92 amplified bands, using 12 RAPD primers, 76 of which (P = 82.61%) were polymorphic, and calculated values of H_t and H_sp of 0.3015 and 0.4459, respectively, suggesting a remarkably high rate of genetic variation at the species level. The average within-population diversity also appeared to be high, with P, H_e and H_pop values of 55.11%, 0.1948 and 0.2918, respectively. Analyses of molecular variance (AMOVA) showed that among- and between-population genetic variation accounted for 67.02% and 32.98% of the total genetic variation, respectively. In addition, Nei’s coefficient of differentiation (G_ST) was found to be high (0.35), confirming the relatively high level of genetic differentiation among the populations. These differentiation coefficients are higher than mean corresponding coefficients for outbreeding species, but lower than reported coefficients for some rare species from this region. The genetic structure of A. tanguticus has probably been shaped by its breeding attributes, biogeographic history and human impact due to collection for medicinal purposes. The observed genetic variations suggest that as many populations as possible should be considered in any planned in situ or ex situ conservation programs for this species.     

High RAPD but no cpDNA sequence variation in the endemic and endangered plant, Heptacodium miconioides Rehd. (Caprifoliaceae)

Heptacodium miconioides Rehd. is an endangered species endemic to China and has suffered rapid decrease of distribution range and population size. This species has been disappeared in central China where the modal specimen was collected. We analyzed the genetic variation of the remaining populations to reveal whether the genetic diversity also suffered decrease and to provide some suggestions for conservation. All the nine known remaining populations were sampled. Genetic variation was analyzed based on RAPD markers and two fragments of cpDNA sequence, intergenic spacers of petG-trnP and trnS-trnG. No variation was observed in the two fragments of cpDNA sequence. However, the species exhibited high level of RAPD variation compared to other threatened or rare plants. Measures of genetic diversity within populations were strongly related to the log of estimated population size, indicating that large populations usually have more genetic diversity than that of small ones. About 25% of the variation was partitioned among populations. Significant relationship was observed between differentiation and geographical distance, indicating a pattern of isolation-by-distance. Given for few populations remaining, all the populations should be protected and urgent efforts be paid on the small populations to avoid their local extinction.     

Spatial distribution patterns and implications for conservation ofScrophularia takesimensis (Scrophulariaceae), an endangered endemic species on Ulleung Island, Korea

As part of an on-going effort to conserve endangered and endemicScrophularia takesimensis (Scrophulariaceae), we analyzed its spatial distribution patterns by applying an index of dispersion, plant-to-all-plant distances, and the varying quadrat size method. Three indices — Dispersion, Morisita, and Standardized Morisita — all revealed clumping with small aggregates, and distances between aggregates were more or less regular. The asymptote level occurred at a distance of 20 to 30 m; the distance showing 90% of cumulative frequency coincided with 20 to 21 m; 95%, 24 to 25 m; and 99%, 31 to 32 m. The 20 m× 20 m and 40 m×40 m quadrats contained 25 and 40 plants, respectively. We conclude that this number of individuals and size of area are the minimum required for the conservation of this species.