Evolutionary history of regeneration in crinoids (Echinodermata)

The fossil record indicates that crinoids have exhibited remarkable regenerative abilities since their origin in the Ordovician, abilities that they likely inherited from stem-group echinoderms. Regeneration in extant and fossil crinoids is recognized by abrupt differences in the size of abutting plates, aberrant branching patterns, and discontinuities in carbon isotopes. While recovery is common, not all lost body parts can be regenerated; filling plates and overgrowths are evidence of non-regenerative healing. Considering them as a whole, Paleozoic crinoids exhibit the same range of regenerative and non-regenerative healing as Recent crinoids. For example, Paleozoic and extant crinoids show evidence of crown regeneration and stalk regrowth, which can occur only if the entoneural nerve center (chambered organ) remains intact. One group of Paleozoic crinoids, the camerates, may be an exception in that they probably could not regenerate their complex calyx-plating arrangements, including arm facets, but their calyxes could be healed with reparative plates. With that exception, and despite evidence for increases in predation pressure, there is no compelling evidence that crinoids have changed though time in their ability to recover from wounds. Finally, although crinoid appendages may be lost as a consequence of severe abiotic stress and through ontogenetic development, spatiotemporal changes in the intensity and frequency of biotic interactions, especially direct attacks, are the most likely explanation for observed patterns of regeneration and autotomy in crinoids.     

Latitudinal variation in life-cycle characteristics of Potamogeton pectinatus L.: vegetative growth and asexual reproduction

Across latitudinal gradients, environmental conditions that influenceplant growth and reproduction largely change. Here we study clonal variation inlife-cycle characteristics of the cosmopolitan water plantPotamogetonpectinatus L. across a broad latitudinal range.Two consecutive experiments were performed under standardised laboratoryconditions (photoperiod, irradiance and temperature). In the first experimentweinvestigated asexual reproduction among fifteen clones, obtained from latitudesranging from 24 to 68° N. After 90 days of growth, high-latitude clonesproduced more but smaller tubers, while the aboveground biomass was lower ascompared to the clones obtained from low latitudes.In a second experiment we studied inherent differences in early growth,morphology and photosynthesis for eleven clones (obtained from the samelatitudinal range as in experiment 1). We found high among clonal variation formost measured variables, but the number of latitude-correlated traits waslimited. The only trait that correlated with latitude was the number of leavesper plant, which increased in clones from higher latitudes.Our results agree with the hypothesis of a latitude-correlated switch inlife-cycle strategy for this species. For northern clones this results in ashort life-cycle, with an early and high investment in tuber biomass, while forlow latitude clones the length of the life-cycle is prolonged, with a delayedreproduction and increased total plant biomass.     

Effect of prolonged vegetative reproduction of olive tree cultivars (Olea europaea L.) in mitochondrial homoplasmy and heteroplasmy.

The inheritance of mitochondrial and chloroplast genomes does not follow Mendelian laws, but proceeds by vegetative segregation. Most organisms show organelle homoplasmy, which is probably produced and maintained during sexual reproduction. We have tested the effect of prolonged vegetative multiplication in the maintenance of mitochondrial homoplasmy and the generation of heteroplasmy in cultivated olive trees, Olea europaea L. Seven trees, each representing a different variety of olive, were analysed by the study of an intergenic spacer region of the mitochondrial genome. A very high level of heteroplasmy was detected in all cases. We found multiple genome variants of the sequence analysed. The frequency of genomes with no changes in the spacer region was 11.5%. This means that 88.5% of genomes contain at least one change. The same spacer mitochondrial region was sequenced in several clones from four olive trees of a second generation of sexually reproduced trees. In these trees, many clones were identical and had no changes, which represents a clear reduction of the heteroplasmy (p < 0.001). Therefore, this work supports the relevance of the role of sexual reproduction in the maintenance of mitochondrial homoplasmy and also shows that mutations accumulate in a non-coding sequence of the mitochondrial genome when vegetative propagation is maintained for a long period of time.     

Dactylospora mangrovei sp. nov. (Discomycetes, ascomycota) from mangrove wood

A new speciesDactylospora mangrovei is described and illustrated and compared withD. haliotrepha andD. canariensis, all marine inhabiting species.Dactylospora haliotrepha andD. mangrovei are tropical/sub-tropical mangrove species collected in Hong Kong, Malaysia, Taiwan and Thailand, whileD. canariensis was described from temperate waters. A map of the geographical distribution of the three marineDactylospora species is presented.     

Rapid vegetative multiplication in Colocasia esculenta (L) Schott (taro)

Initial multiplication of taro was achieved by dividing corms into pieces, each with several buds, and planting them in sterile potting mix. Surface planting and decapitation of the new primary meristem on each sucker forced additional shoot meristems to grow. Meristems of six cultivars were cultured on a modified Murashige and Skoog medium plus TDZ. In experiments with the cultivar Niue, explants cultured on modified MS medium plus 2.6 μM (0.6 mg L^-1 TDZ grew more vigorously than on media including BA. Transfer to 4.3 μM (1.0 mg L^-1 TDZ subsequently gave a 15–25 fold increase in production of plantlets per four week culture period compared to four-fold with BAP. The two stage propagation technique described in this paper is an efficient way to produce taro plants for commercial planting or the production of pathogen-tested material. This revised version was published online in June 2006 with corrections to the Cover Date.     

Comparative haustorium morphology and vegetative reproduction in the Old World genus Scurrula L. (Loranthaceae) from the Central Nepal Himalayas

In a comparative morphological study of haustoria in the four Scurrula species occurring in the Annapurna Conservation Area (ACA) of Nepal, only one basic type of haustorium was found, regardless of host and elevation, namely a primary haustorium (leading to a wood rose) with epicortical root. The endophytic system of the primary haustorium, however, showed differences, which allowed classification into (1) flanging endophyte, (2) flanging endophyte with radial shaft, and (3) sinker endophyte. Scurrula elata and Scurrula gracilifolia showed marked differences in haustorium morphology on different hosts. Scurrula elata is most successful in establishing over a wide range of hosts due to its specific haustorium morphology and endophyte system. Epicortical roots of the genus Scurrula resemble those of other Old World Loranthaceae morphologically and functionally, but differ significantly from New World species. Vegetative reproduction by means of epicortical roots, which develop secondary haustoria and shoots, is very common in all four Scurrula species. The number of root-borne shoots produced by secondary haustoria varied among Scurrula species, depending on the age of the mistletoes as well as the length and vigour of the roots.     

Evolutionary and biogeographic history of weasel-like carnivorans (Musteloidea)

We analyzed a concatenated (8492 bp) nuclear-mitochondrial DNA data set from 44 musteloids (including the first genetic data for Lyncodon patagonicus) with parsimony, maximum likelihood, and Bayesian methods of phylogenetic and biogeographic inference and two Bayesian methods of chronological inference. Here we show that Musteloidea emerged approximately 32.4-30.9 million years ago (MYA) in Asia, shortly after the greenhouse-icehouse global climate shift at the Eocene-Oligocene transition. During their Oligocene radiation, which proceeded wholly or mostly in Asia, musteloids diversified into four primary divisions: the Mephitidae lineage separated first, succeeded by Ailuridae and the divergence of the Procyonidae and Mustelidae lineages. Mustelidae arose approximately 16.1 MYA within the Mid-Miocene Climatic Optimum, and extensively diversified in the Miocene, mostly in Asia. The early offshoots of this radiation largely evolved into badger and marten ecological niches (Taxidiinae, Melinae, Mellivorinae, Guloninae, and Helictidinae), whereas the later divergences have adapted to other niches including those of weasels, polecats, minks, and otters (Mustelinae, Ictonychinae, and Lutrinae). Notably, and contrary to traditional beliefs, the morphological adaptations of badgers, martens, weasels, polecats, and minks each evolved independently more than once within Mustelidae. Ictonychinae (which is most closely related to Lutrinae) arose approximately 9.5-8.9 MYA, most likely in Asia, where it diverged into the Old World Ictonychini (Vormela, Poecilictis, Ictonyx, and Poecilogale) and New World Lyncodontini (Lyncodon and Galictis) lineages. Ictonychini presumably entered Africa during the Messinian Salinity Crisis (at the Miocene-Pliocene transition), which interposed the origins of this clade (approximately 6.5-6.0 MYA) and its African Poecilictis-Ictonyx-Poecilogale subclade (approximately 4.8-4.5 MYA). Lyncodontini originated approximately 2.9-2.6 MYA at the Pliocene-Pleistocene transition in South America, slightly after the emergence of the Panamanian land bridge that provided for the Great American Biotic Interchange. As the genera Martes and Ictonyx (as currently circumscribed) are paraphyletic with respect to the genera Gulo and Poecilogale, respectively, we propose that Pekaniaand Poecilictis be treated as valid genera and that "Martes"pennanti and "Ictonyx"libyca, respectively, be assigned to these genera.     

Evolutionary history of pentamerids (Brachiopoda) in the Timan-North Ural Basin

Evolutionary history of Early Paleozoic pentamerids, which first appeared in the Late Ordovician and existed until the Early Devonian in the Timan-North Ural Basin is closely related to changes in sedimentation conditions, processes of the reef formation, and considerable rearrangements in marine ecosystems. Several parallel pentamerid communities similar in ecology and morphology are recognized.     

Evolutionary history of mammalian sucking lice (Phthiraptera: Anoplura)

Background  

Sucking lice (Phthiraptera: Anoplura) are obligate, permanent ectoparasites of eutherian mammals, parasitizing members of 12 of the 29 recognized mammalian orders and approximately 20% of all mammalian species. These host specific, blood-sucking insects are morphologically adapted for life on mammals: they are wingless, dorso-ventrally flattened, possess tibio-tarsal claws for clinging to host hair, and have piercing mouthparts for feeding. Although there are more than 540 described species of Anoplura and despite the potential economical and medical implications of sucking louse infestations, this study represents the first attempt to examine higher-level anopluran relationships using molecular data. In this study, we use molecular data to reconstruct the evolutionary history of 65 sucking louse taxa with phylogenetic analyses and compare the results to findings based on morphological data. We also estimate divergence times among anopluran taxa and compare our results to host (mammal) relationships.     

Sexual vs. vegetative reproduction in relation to forest dynamics in the understorey shrub,Hydrangea paniculata (Saxifragaceae)

In the forest understorey, shrubs usually reproduce vegetatively rather than sexually, but the relative contribution of these two reproductive modes may vary with temporal changes in environmental conditions (e.g., light, substrates of forest floor) that are closely related to forest dynamics. To evaluate the occasional changes in reproductive modes of the clonal understorey shrub Hydrangea paniculata, the reproductive characteristics (i.e., flowering, seedling establishment, vegetative propagation, reproductive size and age) were investigated in four different developmental stages in a Japanese beech forest (early gap, EG; late gap, LG; building, BU; mature, MA). Flowering individuals occurred only in EG and LG, and a much greater number of seedlings was observed in both EG and LG than in BU and MA, mainly because canopy gaps provided sufficient light for flowering and suitable substrates (fallen trees and exposed mineral-soil) for seedling establishment. The flowering individuals originated from plants that had persisted in the shaded understorey until gap formation. In contrast to sexual reproduction, clonal fragmentation increased with forest development in the order LG, EG, BU, MA. This is because, in later stages of forest dynamics (BU and MA), large individuals, some of which had previously flowered in gap stages, were layered on the forest floor and subsequently produced a substantial number of clonal fragments by separation of the buried branches from the main stems which had decayed. This resulted in a large number of clonal fragments originating from a single mother plant. These results suggest that the reproductive modes of H. paniculata is strongly influenced by the changes in environmental conditions with respect to the dynamics of canopy trees. Reproduction from seed in gap stages, despite their short period, provide new genets in established populations, whereas vegetative propagation via fragmentation in closed-canopy stages enhance the stability of the population until the next disturbance.     

Evolutionary history of the poly(ADP-ribose) polymerase gene family in eukaryotes

Background  

The Poly(ADP-ribose)polymerase (PARP) superfamily was originally identified as enzymes that catalyze the attachment of ADP-ribose subunits to target proteins using NAD⁺ as a substrate. The family is characterized by the catalytic site, termed the PARP signature. While these proteins can be found in a range of eukaryotes, they have been best studied in mammals. In these organisms, PARPs have key functions in DNA repair, genome integrity and epigenetic regulation. More recently it has been found that proteins within the PARP superfamily have altered catalytic sites, and have mono(ADP-ribose) transferase (mART) activity or are enzymatically inactive. These findings suggest that the PARP signature has a broader range of functions that initially predicted. In this study, we investigate the evolutionary history of PARP genes across the eukaryotes.     

Sexual and vegetative reproduction of Hieracium pilosella L. under competition and disturbance: a grid-based simulation model

We used a spatially explicit simulation model to examine the relative importance of vegetative and sexual reproduction in Hieracium pilosella L. Based on an understanding of the complex life cycle of this species and on data from in situ population dynamics in a calcareous grassland in NW Switzerland, we simulated growth and the relative contribution of clonal reproduction by stolons and reproduction by seeds across a gradient of increasing soil fertility. Competition by a clonal grass resulted in nearly complete exclusion of H. pilosella from the more fertile part of the simulation plot. Under low soil fertility, when grass could not survive, H. pilosella largely persisted by vegetatively produced rosettes. This pattern of a sharp separation of both species was shifted slightly in favour of H. pilosella by introducing random disturbances. Only by adding: (1) long-distance seed dispersal, and (2) facilitation of seedling establishment in the vicinity of grass tussocks in vegetation gaps was a more realistic representation of field observations realised, with rosettes of H. pilosella grown from seeds occasionally distributed within dense grass vegetation. Phenotypic plasticity of stolon length was a decisive factor for the maintenance of H. pilosella populations. We conclude that a mixed strategy of clonal growth and reproduction by seeds in H. pilosella is necessary to maintain populations of this species in the presence of high interspecific competition and a shortage of open space.     

Effects of temperature and irradiance on vegetative growth of cauliflower (Brassica oleracea L. botrytis) and broccoli (Brassica oleracea L. italica)

Cauliflower (Brassica oleracea L. botrytis) and broccoli (Brassicaoleracea L. italica) plants were grown in large pots in growthchambers for a range of temperatures (mean air temperaturesfrom 7.0-25.3 C) and irradi-ances (from 9.3-50.8 mol m^–2d^–1 or 4.7-25.4 MJ m^–2 d^–1). The extinctioncoefficient for PAR decreased with plant size reaching a valueof 0.55 in cauliflower and 0.45 in broccoli at plant leaf areasof 0.235 m² and 0.227 m², respectively. The leaf area expansionrate was unaffected by irradiance when compared at identicalleaf surface temperatures. The response of expansion rate tosurface temperature was fitted to a broken stick model witha base temperature of –0.7C and an optimum temperatureof 21.0C. The radiation conversion coefficient increased withair temperature below 13.8C and remained constant above this.The estimated radiation conversion coefficient above 13.8Cand for a PPFD of 20 mol m^–2 d^–1 was 0.77 g mol^–1in cauliflower and 0.87 g mol^–1 in broccoli. The radiationconversion coefficient declined with increasing irradiance levelfrom a maximum of 1.89 g mol^–1 at near nil irradiancein cauliflower. Key words: Leaf area, dry matter, radiation use efficiency, extinction coefficient     

On the question of vegetative reproduction in apiculate yeasts

Fluorescence microscopy, carbon replicas, ultrathin sections and metal-shadowed walls were used for studying changes during cell division of yeasts. Some common features and differences between multipolar budding, fission and the so-called bipolar budding of apiculate yeasts are specified. The conclusion was reached that in apiculate yeasts we are not dealing with a kind of budding but with a type of reproduction that is synonymous with multipolar budding and fission.     

Evolutionary History of Cathepsin L (L-like) Family Genes in Vertebrates

Cathepsin L family, an important cysteine protease found in lysosomes, is categorized into cathepsins B, F, H, K, L, S, and W in vertebrates. This categorization is based on their sequence alignment and traditional functional classification, but the evolutionary relationship of family members is unclear. This study determined the evolutionary relationship of cathepsin L family genes in vertebrates through phylogenetic construction. Results showed that cathepsins F, H, S and K, and L and V were chronologically diverged. Tandem-repeat duplication was found to occur in the evolutionary history of cathepsin L family. Cathepsin L in zebrafish, cathepsins S and K in xenopus, and cathepsin L in mice and rats underwent evident tandem-repeat events. Positive selection was detected in cathepsin L-like members in mice and rats, and amino acid sites under positive selection pressure were calculated. Most of these sites appeared at the connection of secondary structures, suggesting that the sites may slightly change spatial structure. Severe positive selection was also observed in cathepsin V (L2) of primates, indicating that this enzyme had some special functions. Our work provided a brief evolutionary history of cathepsin L family and differentiated cathepsins S and K from cathepsin L based on vertebrate appearance. Positive selection was the specific cause of differentiation of cathepsin L family genes, confirming that gene function variation after expansion events was related to interactions with the environment and adaptability.     

Evolutionary history of the genus Rhamdia (Teleostei: Pimelodidae) in Central America

We constructed phylogenetic hypotheses for Mesoamerican Rhamdia, the only genus of primary freshwater fish represented by sympatric species across Central America. Phylogenetic relationships were inferred from analysis of 1990 base pairs (bp) of mitochondrial DNA (mtDNA), represented by the complete nucleotide sequences of the cytochrome b (cyt b) and the ATP synthase 8 and 6 (ATPase 8/6) genes. We sequenced 120 individuals from 53 drainages to provide a comprehensive geographic picture of Central American Rhamdia systematics and phylogeography. Phylogeographic analysis distinguished multiple Rhamdia mtDNA lineages, and the geographic congruence across evolutionarily independent Rhamdia clades indicated that vicariance has played a strong role in the Mesoamerican diversification of this genus. Phylogenetic analyses of species-level relationships provide strong support for the monophyly of a trans-Andean clade of three evolutionarily equivalent Rhamdia taxa: R. guatemalensis, R. laticauda, and R. cinerascens. Application of fish-based mitochondrial DNA clocks ticking at 1.3-1.5% sequence divergence per million years (Ma), suggests that the split between cis- and trans-Andean Rhamdia extends back about 8 Ma, and the three distinct trans-Andean Rhamdia clades split about 6 Ma ago. Thus the mtDNA divergence observed between cis- and trans-Andean Rhamdia species is too low to support an ancient colonization of Central America in the Late Cretaceous or Paleocene as had been hypothesized in one colonization model for Mesoamerican fishes. Rather the mtDNA data indicate that Rhamdia most likely colonized Central America in the late Miocene or Pliocene, promoting a strong role for the Isthmus of Panamá in the Mesoamerican expansion of this genus. Basal polytomies suggest that both the R. laticauda and R. guatemalensis clades spread rapidly across the Central American landscape, but differences in the average mtDNA genetic distances among clades comprising the two species, indicate that the R. laticauda spread and diversified across Mesoamerica about 1 million years before R. guatemalensis.     

Evolutionary history of anglerfishes (Teleostei: Lophiiformes): a mitogenomic perspective

Background  

The teleost order Lophiiformes, commonly known as the anglerfishes, contains a diverse array of marine fishes, ranging from benthic shallow-water dwellers to highly modified deep-sea midwater species. They comprise 321 living species placed in 68 genera, 18 families and 5 suborders, but approximately half of the species diversity is occupied by deep-sea ceratioids distributed among 11 families. The evolutionary origins of such remarkable habitat and species diversity, however, remain elusive because of the lack of fresh material for a majority of the deep-sea ceratioids and incompleteness of the fossil record across all of the Lophiiformes. To obtain a comprehensive picture of the phylogeny and evolutionary history of the anglerfishes, we assembled whole mitochondrial genome (mitogenome) sequences from 39 lophiiforms (33 newly determined during this study) representing all five suborders and 17 of the 18 families. Sequences of 77 higher teleosts including the 39 lophiiform sequences were unambiguously aligned and subjected to phylogenetic analysis and divergence time estimation.