A new multi locus variable number of tandem repeat analysis scheme for epidemiological surveillance of Xanthomonas vasicola pv. musacearum, the plant pathogen causing bacterial wilt on banana and enset

Xanthomonas vasicola pv. musacearum (Xvm) which causes Xanthomonas wilt (XW) on banana (Musa accuminata x balbisiana) and enset (Ensete ventricosum), is closely related to the species Xanthomonas vasicola that contains the pathovars vasculorum (Xvv) and holcicola (Xvh), respectively pathogenic to sugarcane and sorghum. Xvm is considered a monomorphic bacterium whose intra-pathovar diversity remains poorly understood. With the sudden emergence of Xvm within east and central Africa coupled with the unknown origin of one of the two sublineages suggested for Xvm, attention has shifted to adapting technologies that focus on identifying the origin and distribution of the genetic diversity within this pathogen. Although microbiological and conventional molecular diagnostics have been useful in pathogen identification. Recent advances have ushered in an era of genomic epidemiology that aids in characterizing monomorphic pathogens. To unravel the origin and pathways of the recent emergence of XW in Eastern and Central Africa, there was a need for a genotyping tool adapted for molecular epidemiology. Multi-Locus Variable Number of Tandem Repeat Analysis (MLVA) is able to resolve the evolutionary patterns and invasion routes of a pathogen. In this study, we identified microsatellite loci from nine published Xvm genome sequences. Of the 36 detected microsatellite loci, 21 were selected for primer design and 19 determined to be highly typeable, specific, reproducible and polymorphic with two- to four- alleles per locus on a sub-collection. The 19 markers were multiplexed and applied to genotype 335 Xvm strains isolated from seven countries over several years. The microsatellite markers grouped the Xvm collection into three clusters; with two similar to the SNP-based sublineages 1 and 2 and a new cluster 3, revealing an unknown diversity in Ethiopia. Five of the 19 markers had alleles present in both Xvm and Xanthomonas vasicola pathovars holcicola and vasculorum, supporting the phylogenetic closeliness of these three pathovars. Thank to the public availability of the haplotypes on the MLVABank database, this highly reliable and polymorphic genotyping tool can be further used in a transnational surveillance network to monitor the spread and evolution of XW throughout Africa.. It will inform and guide management of Xvm both in banana-based and enset-based cropping systems. Due to the suitability of MLVA-19 markers for population genetic analyses, this genotyping tool will also be used in future microevolution studies

A highly specific tool for identification of Xanthomonas vasicola pv. musacearum based on five Xvm-specific coding sequences

Xanthomonas vasicola pv. musacearum (Xvm) is a bacterial pathogen responsible for the economically important Xanthomonas wilt disease on banana and enset crops in Sub-Saharan Africa. Given that the symptoms are similar to those of other diseases, molecular diagnosis is essential to unambiguously identify this pathogen and distinguish it from closely related strains not pathogenic on these hosts. Currently, Xvm identification is based on polymerase chain reaction (PCR) with GspDm primers, targeting the gene encoding general secretory protein D. Experimental results and examination of genomic sequences revealed poor specificity of the GspDm PCR. Here, we present and validate five new Xvm-specific primers amplifying only Xvm strains

Effects of Short-Term Thermal Alteration on Organic Matter in Experimentally-Heated Tagish Lake Observed by Raman Spectroscopy

Carbonaceous chondrites exhibit a wide range of aqueous and thermal alteration characteristics. Examples of the thermally metamorphosed carbonaceous chondrites (TMCCs) include the C2-ung/CM2TIVs Belgica (B)-7904 and Yamato (Y) 86720. The alteration extent is the most complete in these meteorites and thus they are considered typical end-members of TMCCs exhibiting complete dehydration of matrix phyllosilicates [1, 2]. The estimated heating conditions are 10 to 10(sup 3) days at 700 C to 1 to 100 hours at 890 C, i.e. short-term heating induced by impact and/or solar radiation [3]. The chemical and bulk oxygen isotopic compositions of the matrix of the carbonate (CO3)-poor lithology of the Tagish Lake (hereafter Tag) meteorite bears similarities to these TMCCs [4]. We investigated the experimentally-heated Tag with the use of Raman spectroscopy to understand how short-term heating affects the maturity of insoluble organic matter (IOM) in aqueously altered meteorites

Mineralogy of Experimentally Heated Tagish Lake

Since the 1980s, more than 20 thermally metamorphosed carbonaceous chondrites (TMCCs) have been found in Antarctica and in hot deserts. The petrology of TMCCs suggests that some C-type asteroids were heated and dehydrated after aqueous alteration. Besides, previous studies indicate that the conditions of thermal metamorphism experienced by these meteorites may have been quite variable. It reflects that metamorphism of the TMCCs was complex

Regulation of the unfolded protein response via S-nitrosylation of sensors of endoplasmic reticulum stress

Protein S-nitrosylation modulates important cellular processes, including neurotransmission, vasodilation, proliferation, and apoptosis in various cell types. We have previously reported that protein disulfide isomerase (PDI) is S-nitrosylated in brains of patients with sporadic neurodegenerative diseases. This modification inhibits PDI enzymatic activity and consequently leads to the accumulation of unfolded/misfolded proteins in the endoplasmic reticulum (ER) lumen. Here, we describe S-nitrosylation of additional ER pathways that affect the unfolded protein response (UPR) in cell-based models of Parkinson's disease (PD). We demonstrate that nitric oxide (NO) can S-nitrosylate the ER stress sensors IRE1α and PERK. While S-nitrosylation of IRE1α inhibited its ribonuclease activity, S-nitrosylation of PERK activated its kinase activity and downstream phosphorylation/inactivation or eIF2α. Site-directed mutagenesis of IRE1α(Cys931) prevented S-nitrosylation and inhibition of its ribonuclease activity, indicating that Cys931 is the predominant site of S-nitrosylation. Importantly, cells overexpressing mutant IRE1α(C931S) were resistant to NO-induced damage. Our findings show that nitrosative stress leads to dysfunctional ER stress signaling, thus contributing to neuronal cell death

The dynamics of genome replication using deep sequencing

Peer reviewedPublisher PD

Survey and management of potato pests in Uganda

Potato (Solanum tuberosum L.) is an important food and income generating crop for its growers. The crop is also nutritionally rich in carbohydrates, vitamins (C and B), proteins, minerals (potassium) among other nutritional components. In Uganda, potato has been recognized as a crop with potential for nutrition security and income generation. Despite these benefits, average potato yield (4.8 t/ha) in Uganda is still comparatively lower than attainable global average yield (30 to 40 t/ha), owing to several biotic and abiotic production constraints. A study was conducted to establish the status of potato pests and diseases in north eastern and south western Uganda to include districts such as Mbale, Namisindwa, Kween, Kapchorwa and Kabale, Rubanda, Kisoro, respectively. The study was aimed at assessing the incidence and prevalence of key pests and diseases affecting potato in Uganda, with special emphasis on potato cyst nematode. Several pests and diseases including leaf miner flies, aphids, potato tuber moths, whiteflies, viruses, several nematode species, bacterial wilt (Ralstonia solanacaerum), and Fusarium spp. were observed to be affecting potato. Through the prospections conducted in this survey, the potato cyst nematode (Globodera rostochiensis) was identified in north eastern and south western areas of Uganda. Male farmers were more engaged in decision-making activities for potato production than their female counterparts in Eastern Uganda. An inclusive and multi institutional team was tasked to conduct this potato disease survey; this exercise was led by the International Institute of Tropical Agriculture (IITA) and the International Fertilizer Development Centre (IFDC-GIZ), with the special cooperation of the International Potato Centre (CIP), and the active engagement of the BugiZARDI-NARO and the District Production Office of the District Local Governments and Ministry of Agriculture, Animal Industry and Fisheries-Department of National Crop Certification Services

SEM and TEM Observation of the Surfaces of the Fine-Grained Particles Retrieved from the Muses-C Regio on the Asteroid 25413 Itokawa

Surface materials on airless solar system bodies exposed to interplanetary space are gradually changed their visible to near-infrared reflectance spectra by the process called "space weathering", which makes the spectra darker and redder. Hapke et al. proposed a model of space weathering: vapor deposition of nanophase reduced iron (npFe(sup 0)) on the surfaces of the grains within the very surface of lunar regolith. This model has been proved by detailed observation of the surfaces of the lunar soil grains by transmission electron microscope (TEM). They demonstrated that npFe(sup 0) was formed by a combination of vapor deposition and irradiation effects. In other words, both micrometeorite impacts and irradiation by solar wind and galactic cosmic ray play roles on the space weathering on the Moon. Because there is a continuum of reflectance spectra from those of Q-type asteroids (almost the same as those of ordinary chondrites) to those of S-type asteroids, it is strongly suggested that reflectance spectra of asteroids composed of ordinary chondrite-like materials were modified over time to those of S-type asteroids due to space weathering. It is predicted that a small amount of npFe(sup 0) on the surface of grains in the asteroidal regolith composed of ordinary chondrite-like materials is the main agent of asteroidal space weathering