Identification of a UDP-glucosyltransferase conferring deoxynivalenol resistance in Aegilops tauschii and wheat

Aegilops tauschii is the diploid progenitor of the wheat D subgenome and a valuable resource for wheat breeding, yet, genetic analysis of resistance against Fusarium head blight (FHB) and the major Fusarium mycotoxin deoxynivalenol (DON) is lacking. We treated a panel of 147 Ae. tauschii accessions with either Fusarium graminearum spores or DON solution and recorded the associated disease spread or toxin-induced bleaching. A k-mer-based association mapping pipeline dissected the genetic basis of resistance and identified candidate genes. After DON infiltration nine accessions revealed severe bleaching symptoms concomitant with lower conversion rates of DON into the non-toxic DON-3-O-glucoside. We identified the gene AET5Gv20385300 on chromosome 5D encoding a uridine diphosphate (UDP)-glucosyltransferase (UGT) as the causal variant and the mutant allele resulting in a truncated protein was only found in the nine susceptible accessions. This UGT is also polymorphic in hexaploid wheat and when expressed in Saccharomyces cerevisiae only the full-length gene conferred resistance against DON. Analysing the D subgenome helped to elucidate the genetic control of FHB resistance and identified a UGT involved in DON detoxification in Ae. tauschii and hexaploid wheat. This resistance mechanism is highly conserved since the UGT is orthologous to the barley UGT HvUGT13248 indicating descent from a common ancestor of wheat and barley.     

The enhanced LCA Resources Directory: a tool aimed at improving Life Cycle Thinking practices

The International Journal of Life Cycle Assessment - To support life cycle-based EU policies, the European Commission created the “European Platform on Life Cycle Assessment (EPLCA).”...     

ILCD Handbook Public Consultation Workshop

Introduction

The European Commission is supporting the development of the International Reference Life Cycle Data System (ILCD). This consists primarily of the ILCD Handbook and the ILCD Data Network. This paper gives an insight into the scientific positions of business, governments, consultants, academics, and others that were expressed at this public consultation workshop.

Workshop focus

The workshop focused on four of the topics of the main guidance documents of the ILCD Handbook: (1) general guidance on life cycle assessment (LCA); (2) guidance for generic and average life cycle inventory (LCI) data sets; (3) requirements for environmental impact assessment methods, models and indicators for LCA; and (4) review schemes for LCA.

Workshop participation

This consultation workshop was attended by more than 120 participants during the 4 days of the workshop. Representatives came from 23 countries, from both within and outside the European Union.

Workshop structure

Approximately half of the participants were from business associations or individual companies. Another 20% were governmental representatives. Others came predominantly from consultancies and academia.

Results

This public consultation workshop provided valuable inputs into the overall ILCD Handbook developments as well as for further development. This paper focuses on some of the main scientific issues that were raised.     

Magnetic characterizations of nickel hyperaccumulating plants (Planchonella oxyhedra and Rinorea bengalensis) from Halmahera,Indonesia

Magnetic minerals, such as magnetite and hematite, have been reported to be present, in particular, leaves as biogenic particles. The magnetic minerals and properties of Ni hyperaccumulators have not previously been reported in the literature. This study aimed to characterize the magnetic properties of two Ni hyperaccumulating plant species, R. bengalensis and P. oxyhedra, which grow in an ultramafic region on Halmahera Island, Indonesia. For comparison, similar characterization was carried out on two non-hyperaccumulating plant species which grow in the same region. Concentrations of Ni, Fe, and Mn in the leaves of the hyperaccumulating plants were measured using atomic absorption spectroscopy (AAS) and their magnetic properties were characterized using measurements of magnetic susceptibility, low temperature magnetic susceptibility, and hysteresis curves. The results show that, compared to the non-hyperaccumulating plants, the Ni hyperaccumulating plants have higher concentrations of Ni and similar concentration of Fe. The magnetic susceptibilities of hyperaccumulating plants are positive, and those of non-hyperaccumulating plants are negative. This suggests that the abundance of Ni, rather than Fe, may control the magnetic properties of Ni hyperaccumulating plants. This probable connection between Ni concentration and plant magnetic properties could be advantageous for identifying hyperaccumulators, and should, therefore, be explored further.     

Reasons for ineligibility in phase 1 and 2A HIV vaccine clinical trials at Kenya AIDS vaccine initiative (KAVI), Kenya

Background

With the persistent challenges towards controlling the HIV epidemic, there is an ongoing need for research into HIV vaccines and drugs. Sub-Saharan African countries - worst affected by the HIV pandemic - have participated in the conduct of clinical trials for HIV vaccines. In Kenya, the Kenya AIDS Vaccine Initiative (KAVI) at the University of Nairobi has conducted HIV vaccine clinical trials since 2001.

Methodology

Participants were recruited after an extensive informed consent process followed by screening to determine eligibility. Screening included an assessment of risk behavior, medical history and physical examination, and if clinically healthy, laboratory testing. In the absence of locally derived laboratory reference ranges, the ranges used in these trials were derived from populations in the West.

Principal findings

Two hundred eighty-one participants were screened between 2003 and 2006 for two clinical trials. Of these, 167 (59.4%) met the inclusion/exclusion criteria. Overall, laboratory abnormalities based on the non-indigenous laboratory references used were the most frequent reasons (61.4%) for ineligibility. Medical abnormalities contributed 30.7% of the total reasons for ineligibility. Based on the laboratory reference intervals now developed from East and Southern Africa, those ineligible due to laboratory abnormalities would have been 46.3%. Of the eligible participants, 18.6% declined enrolment.

Conclusions

Participant recruitment for HIV vaccine clinical trials is a rigorous and time-consuming exercise. Over 61% of the screening exclusions in clinically healthy people were due to laboratory abnormalities. It is essential that laboratory reference ranges generated from local populations for laboratory values be used in the conduct of clinical trials to avoid unnecessary exclusion of willing participants and to avoid over-reporting of adverse events for enrolled participants.

Trial registration

Protocol IAVI VRC V001 [1]. ClinicalTrials.gov {"type":"clinical-trial","attrs":{"text":"NCT00124007","term_id":"NCT00124007"}}NCT00124007 Protocol IAVI 010 [2] (registration with ClincalTrials.gov is in progress) Protocols IAVI 002 and IAVI 004 are Phase 1 trials only mentioned in introductory paragraphs; details will not be reported. Registration was not required when they were conducted.     

10-year experience with the Thai national LCI database: case study of “refinery products”

Purpose

Due to various environmental pressures such as climate change and scarcity of natural resources, as well as nontariff barriers from trade partners, Thailand has established the Thai national life cycle inventory (LCI) database in 2006. In the 1st phase (2006–2007), three working groups were developed for natural gas, refinery, and petrochemical products. Another seven working groups were established in the 2nd phase (2007–2010) for ferrous and non-ferrous metals, utilities and transportation, construction materials, agricultural materials and products, basic chemicals, recycling and waste management, and others. In the 3rd phase (2010 to present), expansion of the number of data sets from the previous phases has been carried out. The purpose of this paper is to present the experiences on national database development in emerging countries with the example of Thailand on both strategic and technical levels using refinery products as the case study.

Methods

Data sets were developed according to ISO 14044:2006. The LCI data were managed and archived at the central facility known as the “central LCI database”. The Life Cycle Assessment lab (LCA lab) at MTEC, NSTDA, has been responsible for the central LCI database management. From 2008 to 2010, the “Thai national LCI database and its applications” project was granted a 3-year funding of over 50 million THB, and was operated under supervision of a steering committee set up by the Ministry of Industry (MoI). For this case study, to illustrate the development process, primary data of the refinery products were collected by Petroleum Institute of Thailand in the year 2005 from seven refineries covering more than 70 % of the production in the country. Attributional modelling has been used, with energy content as an allocation criterion.

Results and discussion

During the initial phase of the “Thai National LCI Database Development Project”, two key barriers have been faced. One was the lack of awareness from stakeholders as LCI and LCA were quite new tools for most people in Thailand. This problem was tackled by collaborating with the right strategic partners to drive the LCI national project and educating stakeholders with the training supports from Japan. The other hindrance was the lack of expertise of local experts on LCA. It took several years to continually build the capacity through seminars and workshops in Thailand and Japan, including “on the job training” on some pilot projects. As of May 2016, there were more than 700 data sets in the Thai national LCI database, considering only the data that MTEC acted as the project commissioner. However, only 515 data were certified as the national database. The other 211 data were qualified merely as the data from pilot projects. More details of the database list and how to access the data can be viewed in Thai language at the URL: http://www.thailcidatabase.net. Because the Thai national LCI data were mostly primary data from a core set of products for the Thai economy with a very high representativeness (>60 %) of the actual Thai productions, the data have been treated carefully. Only C-to-G data and G-to-G data from literature were allowed to disclose to Thai delegates with some signing agreements. However, G-to-G data from the actual Thai productions were sometimes provided, only with the signing confidentiality contracts. For refinery products, seven average data sets were established as national LCI data sets, i.e. liquefied petroleum gas, sulfur, gasoline, kerosene/jet oil, naphtha, fuel oil and diesel, with the year 2005 as the reference year. The data representativeness was very high covering more than 70 % of the production in Thailand. Due to the positive feedback and engagement from industries, several LCI projects have been started after this initial phase. The national LCI data sets have been used in various national applications and policies such as sustainable biofuels, government green public procurement, green GDP, Thai carbon footprint, etc. However, some relevant limitations of the Thai LCI database were listed as follows. Similar to most surveyed national LCI database worldwide, the climate change impact category has been chosen as the main focus for these data sets. Nevertheless, there is a more growing demand to use the data for other applications. As a result, more data sets that cover other impact categories will be required in the near future. Regarding the nomenclature and format, the Thai data sets were technically unique and not fully compatible with any other database.

Conclusions

The Thai national LCI database could be considered as the pioneer case for other countries in the South East Asia region. Thailand has further progressed in its LCI database development. Since 2009, the Thai national LCI database has been used as one of the key infrastructures of Thailand to support public policies and applications related to green growth. Many Thai stakeholders are well aware on LCI, LCA, and EcoDesign. Expertise of local experts has been increasingly improved. However, there are still more challenges to be faced to harvest the value of the Thai database in its full potential for better decision making in industry and policy, and for better positioning of Thai products on the global markets. From our experience, the following issues could be identified as “lessons learned”. At the onset of the project, it was crucial to get in expert advices from LCA-experienced countries to establish local expertise. Also, industry experts from abroad could help in clarifying the concept and addressing confidentiality concerns, as well as building awareness on LCA to Thai industries. Searching for some supporting programmes for capacity building, such as the GPP from Japan in our case, could provide great benefits to any emerging economies for national LCI initiatives. However, sustaining the trained human resources was also vital. Continual funding supports for LCI development and its applications were necessary to keep the momentum of active people in the field. Multiplying effect of the LCI knowledge to related organizations in the three main groups, i.e. government, academia, and industries, could help sustain the knowhow. Also, effective knowledge management through media such as books, guidelines, training courses, etc. would relief the turnover problem of trained staffs. Although it took a lot of time to develop local expertise, it was an essential step to have sufficient number of local experts to sustain the national database project. Moreover, a strong network of experts and researchers locally and internationally also strengthened the technical capacity to deal with any challenges during the project implementation. Furthermore, collaboration with the right strategic partners to drive the project was also very important in order to elevate it to the national level. It should be noted for any emerging economies aiming to initiate national LCI, the work plan for LCI database development (including the database management system) and its applications should be well balanced. Also, a well-designed database management system would enhance the database usage in the long run, especially when dealing with various impact categories like those in PEF.

     

Compatibility of toluidine blue with laser microdissection and saturation labeling DIGE

Tissue fixation and staining protocols for laser microdissection are frequently not fully compatible with subsequent proteomic analysis. We compared the effect of three common histological stains (toluidine blue (TB), hemotoxylin, and hematoxylin and eosin (HE)) on tissue visualization, protein recovery, the saturation labeling reaction, and 2‐D electrophoresis. TB provided the best visualization of colorectal tumor tissue during laser microdissection (LMD) and had a comparable effect on protein recovery and the saturation labeling reaction with hematoxylin, provided a modified 2‐D clean‐up protocol was used. Eosin inhibited both protein recovery and the saturation labeling reaction.     

Key issues and options in accounting for carbon sequestration and temporary storage in life cycle assessment and carbon footprinting

The International Journal of Life Cycle Assessment - Biological sequestration can increase the carbon stocks of non-atmospheric reservoirs (e.g. land and land-based products). Since this contained...