An entomopathogenic Caenorhabditis briggsae

Caenorhabditis elegans is a premier model organism upon which considerable knowledge of basic cell and developmental biology has been built. Yet, as is true for many traditional model systems, we have limited knowledge of the ecological context in which these systems evolved, severely limiting our understanding of gene function. A better grasp of the ecology of model systems would help us immensely in understanding the functionality of genes and evolution of genomes in an environmental context. Consequently, there are ongoing efforts to uncover natural populations of this model system globally. Here, we describe the discovery of a Caenorhabditis briggsae strain and its bacterial associate (Serratia sp.) that form an entomopathogenic complex in the wild. Laboratory experiments confirm that this nematode and its natural bacterial associate can penetrate, kill and reproduce in an insect host and that the bacterial associate can induce this insect pathogenic life cycle in other Caenorhabditis species, including C. elegans. Our findings suggest that this life history may be widespread in nature and critical to the understanding of the biology of this important model organism. Caenorhabditis–insect interaction could be a key factor in our quest for a better grasp of gene functionality in this important model species. The discovered association, consequently, wouldprovide an ecological framework for functional genomics of Caenorhabditis

Invasion of Water Hyacinth (Eichhornia crassipes) Is Associated with Decline in Macrophyte Biodiversity in an Ethiopian Rift-Valley Lake—Abaya

Macrophytes play critical ecological role in inland water bodies, especially in shallow systems. Water hyacinth ( Eichhornia crassipes ) is an invasive plant species introduced to Ethiopian water bodies around the mid 20th century with recently exacerbated devastating ecological and economic consequences. Here we report the impact of the invasive plant species on macrophyte species assemblage and biodiversity in Lake Abaya, southwestern Ethiopia. We compared four sites in Lake Abaya, two hyacinth infested and two non-infested, each site consisting of 15 plots. Our results showed that water hyacinth affects the macrophyte community composition, abundance and diversity negatively. Even though some macrophyte species from the Poaceae and Cyperaceae families appear to coexist with the alien plant, the invasive species has reduced macrophyte abundance and diversity at the infested sites, and in some cases changed the community to nearly monotypic flora. Our data affirm that water hyacinth has the potential to alter macrophyte composition, abundance and diversity in the wider Ethiopian aquatic ecosystems. A broad & closer, systematic and comprehensive look at the short and long term consequences of its expanding invasion within the framework of specific local environmental, ecological and societal conditions is long-overdue

Amylotrophic Lateral Sclerosis-Like Motor Impairment in Prion Diseases

Neurodegenerative diseases are collective diseases that affect different parts of the brain with common or distinct disease phenotype. In almost all of the Prion diseases, motor impairments that are characterized by motor derange- ment, apathy, ataxia, and myoclonus are documented and again are shared by motor neuron diseases (MND). Proteins such as; B-Cell lymphoma 2 (BCL2), Copper chaperone for superoxide dismutase (CCS), Amyloid beta precursor protein (APP), Amyloid Precursor-Like Protein1/2 (APLP1/2), Catalase (CAT), and Stress induced phosphoprotein 1 (STIP1), are common interactomes of Prion and superoxide dismutase 1 (SOD1). Although there is no strong evi- dence to show the interaction of SOD1 and Prion, the implicated common interacting proteins indicate the potential bilateral interaction of those pro- teins in health and disease. For example, down-regulation of Heat shock pro- tein A (HSPA5), a Prion interactome, increases accumulation of misfolded SOD1 leading to MND. Loss of Cu uptake function disturbs normal function of CCS. Over-expressed proteasome subunit alpha 3 (PSMA3) could fatigue its normal function of removing misfolded proteins. Studies showed the in- crease in CAT and lipid oxidation both in Prion-knocked out animal and in catalase deficiency cases. Up regulation, down regulation or direct interaction with their interactomes are predicted molecular mechanisms by which Prion and SOD exert their effect. The loss of protective function or the gain of a novel toxic property by the principal proteins is shared in Prion and MND. Thus, it might be possible to conclude that the interplay of proteins displayed in both diseases could be a key phenomenon in motor dysfunction development

Genome sequence and comparative analysis of a putative entomopathogenic Serratia isolated from Caenorhabditis briggsae

Background: Entomopathogenic associations between nematodes in the genera Steinernema and Heterorhabdus with their cognate bacteria from the bacterial genera Xenorhabdus and Photorhabdus, respectively, are extensively studied for their potential as biological control agents against invasive insect species. These two highly coevolved associations were results of convergent evolution. Given the natural abundance of bacteria, nematodes and insects, it is surprising that only these two associations with no intermediate forms are widely studied in the entomopathogenic context. Discovering analogous systems involving novel bacterial and nematode species would shed light on the evolutionary processes involved in the transition from free living organisms to obligatory partners in entomopathogenicity. Results: We report the complete genome sequence of a new member of the enterobacterial genus Serratia that forms a putative entomopathogenic complex with Caenorhabditis briggsae. Analysis of the 5.04 MB chromosomal genome predicts 4599 protein coding genes, seven sets of ribosomal RNA genes, 84 tRNA genes and a 64.8 KB plasmid encoding 74 genes. Comparative genomic analysis with three of the previously sequenced Serratia species, S. marcescens DB11 and S. proteamaculans 568, and Serratia sp. AS12, revealed that these four representatives of the genus share a core set of ~3100 genes and extensive structural conservation. The newly identified species shares a more recent common ancestor with S. marcescens with 99 % sequence identity in rDNA sequence and orthology across 85.6 % of predicted genes. Of the 39 genes/operons implicated in the virulence, symbiosis, recolonization, immune evasion and bioconversion, 21 (53.8 %) were present in Serratia while 33 (84.6 %) and 35 (89 %) were present in Xenorhabdus and Photorhabdus EPN bacteria respectively. Conclusion: The majority of unique sequences in Serratia sp. SCBI (South African Caenorhabditis briggsae Isolate) are found in ~29 genomic islands of 5 to 65 genes and are enriched in putative functions that are biologically relevant to an entomopathogenic lifestyle, including non-ribosomal peptide synthetases, bacteriocins, fimbrial biogenesis, ushering proteins, toxins, secondary metabolite secretion and multiple drug resistance/efflux systems. By revealing the early stages of adaptation to this lifestyle, the Serratia sp. SCBI genome underscores the fact that in EPN formation the composite end result – killing, bioconversion, cadaver protection and recolonization- can be achieved by dissimilar mechanisms. This genome sequence will enable further study of the evolution of entomopathogenic nematode-bacteria complexes

A critique of current methods in nematode taxonomy

Morphology based nematode taxonomy and biodiversity studies have historically challenged most biologists. In the past few decades, there have been efforts to integrate molecular methods and digital 3D image-capturing technology in nematode taxonomy, the former to enhance the accuracy of identification of such a taxonomically challenging group and the latter to communicate morphological data. While the employment of these two methods is growing in recent taxonomic, biodiversity and biogeographic studies, a movement to abandon traditional phenotypic identification methods altogether has emerged. Proponents try to justify this trend by citing the challenging gap between the high estimated number of undescribed species and the limited ability of traditional taxonomy to accomplish the task of documenting such diversity. Here we present a review of the various techniques used in the taxonomy of free-living and plant parasitic nematodes and critique those methods in the context of recent developments and trends including their implications in nematode taxonomy, biodiversity and biogeography

Genome sequence and comparative analysis of a putative entomopathogenic Serratia isolated from Caenorhabditis briggsae

Background: Entomopathogenic associations between nematodes in the genera Steinernema and Heterorhabdus with their cognate bacteria from the bacterial genera Xenorhabdus and Photorhabdus, respectively, are extensively studied for their potential as biological control agents against invasive insect species. These two highly coevolved associations were results of convergent evolution. Given the natural abundance of bacteria, nematodes and insects, it is surprising that only these two associations with no intermediate forms are widely studied in the entomopathogenic context. Discovering analogous systems involving novel bacterial and nematode species would shed light on the evolutionary processes involved in the transition from free living organisms to obligatory partners in entomopathogenicity. Results: We report the complete genome sequence of a new member of the enterobacterial genus Serratia that forms a putative entomopathogenic complex with Caenorhabditis briggsae. Analysis of the 5.04 MB chromosomal genome predicts 4599 protein coding genes, seven sets of ribosomal RNA genes, 84 tRNA genes and a 64.8 KB plasmid encoding 74 genes. Comparative genomic analysis with three of the previously sequenced Serratia species, S. marcescens DB11 and S. proteamaculans 568, and Serratia sp. AS12, revealed that these four representatives of the genus share a core set of ~3100 genes and extensive structural conservation. The newly identified species shares a more recent common ancestor with S. marcescens with 99 % sequence identity in rDNA sequence and orthology across 85.6 % of predicted genes. Of the 39 genes/operons implicated in the virulence, symbiosis, recolonization, immune evasion and bioconversion, 21 (53.8 %) were present in Serratia while 33 (84.6 %) and 35 (89 %) were present in Xenorhabdus and Photorhabdus EPN bacteria respectively. Conclusion: The majority of unique sequences in Serratia sp. SCBI (South African Caenorhabditis briggsae Isolate) are found in ~29 genomic islands of 5 to 65 genes and are enriched in putative functions that are biologically relevant to an entomopathogenic lifestyle, including non-ribosomal peptide synthetases, bacteriocins, fimbrial biogenesis, ushering proteins, toxins, secondary metabolite secretion and multiple drug resistance/efflux systems. By revealing the early stages of adaptation to this lifestyle, the Serratia sp. SCBI genome underscores the fact that in EPN formation the composite end result – killing, bioconversion, cadaver protection and recolonization- can be achieved by dissimilar mechanisms. This genome sequence will enable further study of the evolution of entomopathogenic nematode-bacteria complexes

Review Article Free-living limnic nemafauna of Ethiopia: a review of the species reported outside the Rift Valley

The available information on free-living limnic nematodes from Ethiopia is reviewed with special emphasis on those reported outside the Rift Valley, for which species are listed with their corresponding sites of occurrence. The families Monhysteridae, Dorylaimidae, and Tobrilidae comprise more than half of the total of 91 species hitherto reported from Ethiopia. Among 69 species reported outside the Rift Valley, a similar trend of dominance is observed. Of these, about a quarter of the species have never been reported out of their corresponding type localities (in Ethiopia). Most of the remaining are either cosmopolitan or have been reported earlier from Africa. The occurrence of the fifteen most widely distributed species is shown on maps. Brevitobrilus graciloides is the most widely distributed species. Studies on abundance and diversity, though limited, are also included. SINET: Ethiopian Journal of Science Vol. 23, No. 2 (December 2000), pp. 273-291 Key words/phrases: Aquatic nematofauna, free-living nematodes, inland water bodie

Dynamics of freshwater nematodes. Abundance, biomass and diversity

Abebe E, Michiels I, Traunspurger W. Dynamics of freshwater nematodes. Abundance, biomass and diversity. In: Abebe E, Traunspurger W, Andrassy I, eds. Freshwater Nematodes: Ecology and taxonomy. Wallingford: CAB International; 2006: 77