Trajectories of soil microbial recovery in response to restoration strategies in one of the largest and oldest open-pit phosphate mine in Asia.

Southwestern China has the largest geological phosphorus-rich mountain in the world, which is seriously degraded by mining activities. Understanding the trajectory of soil microbial recovery and identifying the driving factors behind such restoration, as well as conducting corresponding predictive simulations, can be instrumental in facilitating ecological rehabilitation. Here, high-throughput sequencing and machine learning-based approaches were employed to investigate restoration chronosequences under four restoration strategies (spontaneous re-vegetation with or without topsoil; artificial re-vegetation with or without the addition of topsoil) in one of the largest and oldest open-pit phosphate mines worldwide. Although soil phosphorus (P) is extremely high here (max = 68.3 mg/g), some phosphate solubilizing bacteria and mycorrhiza fungi remain as the predominant functional types. Soil stoichiometry ratios (C:P and N:P) closely relate to the bacterial variation, but soil P content contributes less to microbial dynamics. Meanwhile, as restoration age increases, denitrifying bacteria and mycorrhizal fungi significantly increased. Significantly, based on partial least squares path analysis, it was found that the restoration strategy is the primary factor that drives soil bacterial and fungal composition as well as functional types through both direct and indirect effects. These indirect effects arise from factors such as soil thickness, moisture, nutrient stoichiometry, pH, and plant composition. Moreover, its indirect effects constitute the main driving force towards microbial diversity and functional variation. Using a hierarchical Bayesian model, scenario analysis reveals that the recovery trajectories of soil microbes are contingent upon changes in restoration stage and treatment strategy; inappropriate plant allocation may impede the recovery of the soil microbial community. This study is helpful for understanding the dynamics of the restoration process in degraded phosphorus-rich ecosystems, and subsequently selecting more reasonable recovery strategies.

Taxonomy and phylogenetic appraisal of Spegazzinia musae sp. nov. and S. deightonii (Didymosphaeriaceae, Pleosporales) on Musaceae from Thailand.

Tropical plants host a range of fungal niches including endophytes, pathogens, epiphytes and saprobes. A study undertaken to discover the saprobic fungal species associated with Musa sp. (banana) from northern Thailand found two hyphomycetous taxa of Spegazzinia (Didymosphaeriaceae, Pleosporales). These were collected during the dry season and their morpho-molecular taxonomic relationships were investigated. Based on phylogenetic analysis of combined SSU, LSU, ITS and TEF1-α sequence data (77% ML, 0.99 BYPP) and contrasting morphological features to the sister taxon, we introduce Spegazzinia musae as a novel species from a decaying leaf of Musa sp. Details on the taxonomy, ecology and geographical distribution of Spegazzinia species are provided. In addition, we report S. deightonii as a new host record from Musa sp. Our data further validate the taxonomic placement of Spegazzinia in Didymosphaeriaceae.

Root hemiparasitism in Malania oleifera (Olacaceae), a neglected aspect in research of the highly valued tree species.

Malania oleifera (Olacaceae) is a valued tree species, mostly because its seeds have high precious fatty acid content (particularly nervonic acid). However, seedling mortality rates are often high and regeneration of this tree has been problematic, which greatly hinders its utilization at a large scale. Cultivation difficulties of some tree species in the family Olacaceae have been attributed to their root hemiparasitic habit. Prompted by field observations and the taxonomic proximity of M. oleifera to root hemiparasites in Olacaceae, we hypothesized that tuberous structures observed on the roots of M. oleifera are parasitic organs known as haustoria. To test this hypothesis, we collected root samples from M. oleifera plants of various ages and growth conditions, investigated the morphological and anatomical features of tuberous structures and their connections to neighboring roots. Our analyses confirmed that M. oleifera are root hemiparasites. To the best of our knowledge, this is the first empirical report on root hemiparasitism in M. oleifera. Because life strategies of root hemiparasitic plants differ greatly from autotrophic plants, the root hemiparasitic habit needs to be taken into account for successful seedling regeneration of M. oleifera. This study establishes the foundation for investigations into a long-neglected but essential aspect in research of these highly valued tree species.

Improving the Mapping of Smith-Waterman Sequence Database Searches onto CUDA-Enabled GPUs.

Sequence alignment lies at heart of the bioinformatics. The Smith-Waterman algorithm is one of the key sequence search algorithms and has gained popularity due to improved implementations and rapidly increasing compute power. Recently, the Smith-Waterman algorithm has been successfully mapped onto the emerging general-purpose graphics processing units (GPUs). In this paper, we focused on how to improve the mapping, especially for short query sequences, by better usage of shared memory. We performed and evaluated the proposed method on two different platforms (Tesla C1060 and Tesla K20) and compared it with two classic methods in CUDASW++. Further, the performance on different numbers of threads and blocks has been analyzed. The results showed that the proposed method significantly improves Smith-Waterman algorithm on CUDA-enabled GPUs in proper allocation of block and thread numbers.

Host shoot clipping depresses the growth of weedy hemiparasitic Pedicularis kansuensis.

Root hemiparasitic plants show optimal growth when attached to a suitable host by abstracting water and nutrients. Despite the fact that damage to host plants in the wild occurs frequently in various forms (e.g. grazing), effects of host damage on growth and physiological performance of root hemiparasites remain unclear. In this study, host shoot clipping was conducted to determine the influence of host damage on photosynthetic and growth performance of a weedy root hemiparasite, Pedicularis kansuensis, and its interaction with a host, Elymus nutans. Photosynthetic capacity, tissue mineral nutrient content and plant biomass of P. kansuensis were significantly improved when attached to a host plant. Host clipping had no effect on quantum efficiency (ΦPSII), but significantly reduced the growth rate and biomass of P. kansuensis. In contrast, clipping significantly improved photosynthetic capacity and accumulation of potassium in E. nutans. No significant decrease in biomass was observed in clipped host plants. By changing nutrient absorption and allocation, clipping affected the interaction between P. kansuensis and its host. Our results showed that host clipping significantly suppressed the growth of weedy P. kansuensis, but did not affect biomass accumulation in E. nutans. We propose that grazing (a dominant way of causing host damage in the field) may have a potential in the control against the weedy hemiparasite.

Nutrient requirements differ in two Pedicularis species in the absence of a host plant: implication for driving forces in the evolution of host preference of root hemiparasitic plants.

BACKGROUND AND AIMS: Facultative root hemiparasitic plants generally have a wide host range, but in most cases show an obvious host preference. The reasons for the marked difference in growth performance of hemiparasites when attached to different hosts are not fully understood. In this study, the hypothesis was tested that hemiparasites showing a preference for different hosts have different nutrient requirements. METHODS: Two facultative root hemiparasitic Pedicularis species (P. rex and P. tricolor) with a different host dependency and preference were used to test their responses to inorganic solutes. The effects of nitrogen, phosphorus and potassium on growth of the hemiparasitic plants not attached to a host were determined, using an orthogonal design in pot cultivation under greenhouse conditions. Variables including biomass, shoot nutrient concentration, root:shoot (R:S) ratios and the number of haustoria were measured. KEY RESULTS: As in autotrophic plants, nutrient deficiency reduced dry weight (DW) and nutrient concentrations in the root hemiparasites. Nitrogen and phosphorus significantly influenced growth of both Pedicularis species, while potassium availability influenced only shoot DW of P. rex. Nitrogen had far more effect on growth of P. rex than on P. tricolor, while phosphorus deficiency caused more marked growth depression in P. tricolor than in P. rex. Pedicularis rex grew faster than P. tricolor in a range of nutrient supplies. Different patterns of biomass allocation between the two Pedicularis species were observed. While P. rex invested more into roots (particularly fine rootlets) than P. tricolor, the number of haustoria produced by P. rex was relatively much lower than that produced by P. tricolor, which had a much smaller root system. CONCLUSIONS: The two Pedicularis species differ in nutrient requirements and biomass allocation. Distinct interspecific traits in growth and nutrient requirements can be driving forces for the differential interactions between hemiparasites and their hosts.

Designing a tailored Web-based educational mammography program.

Breast cancer has become increasingly prevalent in Taiwanese women, especially in younger women. Unfortunately, early breast cancer detection may be hampered by Taiwanese women's beliefs about breast cancer, risk factors, and mammography. The Internet has become a powerful way to disseminate health information, but health education Web sites are frequently neither patient-centered nor theoretically based. We used the Transtheoretical Model as the theoretical basis for the design of a tailored Web-based educational program aimed at correcting Taiwanese women's misconceptions about breast cancer and mammography and increasing their intent to obtain routine mammography. In this article, we describe the Web-based educational intervention and the results of an initial preliminary evaluation study.

Effects of a Web-based course on nursing skills and knowledge learning.

The purpose of the study was to assess the effectiveness of supplementing traditional classroom teaching with Web-based learning design when teaching intramuscular injection nursing skills. Four clusters of nursing students at a junior college in eastern Taiwan were randomly assigned to experimental and control groups. A total of 147 students (80 in the experimental group, 67 in the control group) completed the study. All participants received the same classroom lectures and skill demonstration. The experimental group interacted using a Web-based course and were able to view the content on demand. The students and instructor interacted via a chatroom, the bulletin board, and e-mail. Participants in the experimental group had significantly higher scores on both intramuscular injection knowledge and skill learning. A Web-based design can be an effective supplementing learning tool for teaching nursing knowledge and skills.

Application of bubble separation for quantitative analysis of choline in Dioscorea (yam) tubers.

A modified assay based on the AACC official method 86-45 (AACC, 2000) for the determination of choline in three cereals and three varieties of Dioscorea (yam) tubers was developed. When tested in wheat, rice, and oat flour, choline estimated by the modified method was 34.0-45.3% higher than that of the original AACC method. In a system with higher contents of starch and mucilage, such as Dioscorea (yam) tubers, extra procedures in sample preparation needed to be carried out to separate starch and mucilage. The choline contents of the following Dioscorea (yam) tubers using the original AACC method and the present modified AACC method through coupling an additional bubble separation procedure, respectively, were (mean +/- SD, mg/g solid) Keelung yam (D. pseudojaponicaY.) 0.92 +/- 0.09 and 2.21 +/- 0.12, Yangmingshan yam (D. alata L.) 0.77 +/- 0.09 and 1.78 +/- 0.28, and Ming-Chien yam (D. purpurea) 0.44 +/- 0.09 and 1.35 +/- 0.19. Choline was 231-306% higher than when the original AACC method was used. Dioscorea (yam) tubers were much higher in choline content than they were in cereals. Bubble separation is an appropriate procedure in the practice for the maximum assay of choline in yams. It is accurate, rapid, easy to handle, and especially good for recovering choline from a starch and polysaccharide-protein-containing system.