Elodie Chapuis

Fast assembly of the mitochondrial genome of a plant parasitic nematode (Meloidogyne graminicola) using next generation sequencing

Little is known about the variations of nematode mitogenomes (mtDNA). Sequencing a complete mtDNA using a PCR approach remains a challenge due to frequent genome reorganizations and low sequence similarities between divergent nematode lineages. Here, a genome skimming approach based on HiSeq sequencing (shotgun) was used to assemble de novo the first complete mtDNA sequence of a root-knot nematode (Meloidogyne graminicola). An AT-rich genome (84.3%) of 20,030 bp was obtained with a mean sequencing depth superior to 300. Thirty-six genes were identified with a semi-automated approach. A comparison with a gene map of the M. javanica mitochondrial genome indicates that the gene order is conserved within this nematode lineage. However, deep genome rearrangements were observed when comparing with other species of the superfamily Hoplolaimoidea. Repeat elements of 111 bp and 94 bp were found in a long non-coding region of 7.5 kb, as similarly reported in M. javanica and M. hapla. This study points out the power of next generation sequencing to produce complete mitochondrial genomes, even without a reference sequence, and possibly opening new avenues for species/race identification, phylogenetics and population genetics of nematodes.

Environment-Dependent Sexual Selection: Bateman’s Parameters under Varying Levels of Food Availability

Sexual selection is a potent evolutionary force that has been shown to vary in strength and direction depending on demographic factors such as density and sex ratio. However, the effect of other environmental factors on the mode of sexual selection remains largely unexplored. Here, we tested experimentally how food restriction affects the potential for sexual selection in the male and the female sex function of the simultaneously hermaphroditic freshwater snail Physa acuta. We manipulated food availability and compared Bateman’s metrics of sexual selection between groups of five well-fed and five food-restricted snails. Food-restricted individuals had a reduced female reproductive output, suggesting that we successfully manipulated the reproductive resources. Importantly, food restriction reduced the male opportunity for sexual selection (in terms of a lowered variance in male mating success) and led to diminishing returns of mating in both sexes (in terms of nonsignificant Bateman gradients). Furthermore, we observed significant changes in the relative contribution of different fitness components, suggesting stronger postcopulatory selection in the male sex role and stronger fecundity selection in the female sex role under restricted food conditions. This study highlights the need to incorporate ecological factors to better understand how sexual selection operates in the wild.

Manifold aspects of specificity in a nematode–bacterium mutualism

Coevolution in mutualistic symbiosis can yield, because the interacting partners share common interests, to coadaptation: hosts perform better when associated with symbionts of their own locality than with others coming from more distant places. However, as the two partners of a symbiosis might also experience conflicts over part of their life cycle, coadaptation might not occur for all life‐history traits. We investigated this issue in symbiotic systems where nematodes (Steinernema) and bacteria (Xenorhabdus) reproduce in insects they have both contributed to kill. Newborn infective juveniles (IJs) that carry bacteria in their intestine then disperse from the insect cadaver in search of a new host to infect. We ran experiments where nematodes coinfect insects with bacteria that differ from their native symbiont. In both Steinernema carpocapsae/Xenorhabdus nematophila and Steinernema feltiae/Xenorhabdus bovienii symbioses, we detected an overall specificity which favours the hypothesis of a fine‐tuned co‐adaptation process. However, we also found that the life‐history traits involved in specificity strongly differ between the two model systems: when associated with strains that differ too much from their native symbionts, S. carpocapsae has low parasitic success, whereas S. feltiae has low survival in dispersal stage.

A survival-reproduction trade-off in entomopathogenic nematodes mediated by their bacterial symbionts.

Abstract In this work, we investigate the investment of entomopathogenic Steinernema nematodes (Rhabditidae) in their symbiotic association with Xenorhabdus bacteria (Enterobacteriaceae). Their life cycle comprises two phases: (1) a free stage in the soil, where infective juveniles (IJs) of the nematode carry bacteria in a digestive vesicle and search for insect hosts, and (2) a parasitic stage into the insect where bacterial multiplication, nematode reproduction, and production of new IJs occur. Previous studies clearly showed benefits to the association for the nematode during the parasitic stage, but preliminary data suggest the existence of costs to the association for the nematode in free stage. IJs deprived from their bacteria indeed survive longer than symbiotic ones. Here we show that those bacteria-linked costs and benefits lead to a trade-off between fitness traits of the symbiotic nematodes. Indeed IJs mortality positively correlates with their parasitic success in the insect host for symbiotic IJs and not for aposymbiotic ones. Moreover mortality and parasitic success both positively correlate with the number of bacteria carried per IJ, indicating that the trade-off is induced by symbiosis. Finally, the trade-off intensity depends on parental effects and, more generally, is greater under restrictive environmental conditions.

A new root-knot nematode Meloidogyne spartelensis n. sp. (Nematoda: Meloidogynidae) in Northern Morocco

Low density of an unknown root-knot nematode was found on wild olive soils at Cape Spartel near Tanger city in northern Morocco. Morphometry, esterase and malate dehydrogenase electrophoretic phenotypes, as well as ribosomal DNA (rDNA) and mitochondrial DNA (mtDNA) sequences demonstrated that this nematode species differs clearly from other previously described root-knot nematodes. The species is herein described, illustrated and named as Meloidogyne spartelensis n. sp. This new root-knot nematode can be morphologically distinguished from other Meloidogyne spp. by: (i) roundish perineal pattern, dorsal arch low, with fine, sinuous cuticle striae, lateral field faintly visible; (ii) female excretory pore posterior to stylet knobs, EP/ST ratio 1.4-2.0; (iii) second-stage juveniles with hemizonid located 1 to 2 annuli anterior to excretory pore and long, sub-digitate tail; and (iv) males with lateral field composed of four incisures, with areolated outer bands. Phylogenetic trees based on 18S, ITS1-5.8S-ITS2, D2-D3 of 28S rDNA, and partial coxII-16S rRNA and coxI gene of mtDNA showed that M. spartelensis n. sp. belongs to an undescribed root-knot nematode lineage that is clearly separated from other species with resemblance in morphology, such as M. dunensis, M. kralli, and M. sewelli.

Life history traits variation in heterogeneous environment : the case of a freshwater snail resistance to pond drying

Ecologists and population geneticists have long suspected that the diversity of living organisms was connected to the structure of their environment. In heterogeneous environments, diversifying selection combined to restricted gene flow may indeed lead to locally adapted populations. The freshwater snail, Galba truncatula, is a good model to address this question because it is present in a heterogeneous environment composed of temporary and permanent waters. In order to test the selective importance of those environments, we proposed here to measure survival of lineages from both habitats during drought episodes. To this purpose, we experimentally submitted adults and juveniles individuals from both habitats to drought. We found a difference in desiccation resistance between temporary and permanents waters only for adults. Adults from temporary habitats were found more resistant to drought. This divergence in desiccation resistance seems to explain the unexpected life history traits differences between habitats observed.

Condition dependence of male and female reproductive success: insights from a simultaneous hermaphrodite

Abstract Sexually selected traits are predicted to show condition dependence by capturing the genetic quality of its bearer. In separate‐sexed organisms, this will ultimately translate into condition dependence of reproductive success of the sex that experiences sexual selection, which is typically the male. Such condition dependence of reproductive success is predicted to be higher in males than females under conditions promoting intense sexual selection. For simultaneous hermaphrodites, however, sex allocation theory predicts that individuals in poor condition channel relatively more resources into the male sex function at the expense of the female function. Thus, male reproductive success is expected to be less condition dependent than female reproductive success. We subjected individuals of the simultaneously hermaphroditic snail Physa acuta to two feeding treatments to test for condition dependence of male and female reproductive success under varying levels of male–male competition. Condition dependence was found for female, but not for male, reproductive success, meaning that selection on condition is relatively stronger through the female sex function. This effect was consistent over both male–male competition treatments. Decomposition of male and female reproductive performance revealed that individuals in poor condition copulated more in their male role, indicating an increased male allocation to mate acquisition. These findings suggest that sex‐specific condition dependence of reproductive success is at least partially driven by condition‐dependent sex allocation. We discuss the implications of condition‐dependent sex allocation for the evolution of sexually selected traits in simultaneous hermaphrodites.

Plant-parasitic Nematodes Associated with Olive Tree in Southern Morocco

Plant-parasitic nematodes affect significantly the production of susceptible plants, including olive trees. In this context, nematode communities were determined in soil samples collected from 23 olive growing sites in the Haouz and Souss regions (southern Morocco). These sites corresponded to various modalities: wild (Olea europaea L. ssp. sylvestris) or cropped olive (Olea. europaea L. ssp. europaea), traditional or high-density cropping, rainfed or irrigated. Even free-living nematodes prevailed in most of the sites, high population levels of plant-parasitic nematodes were observed in rainfed cropping systems than in irrigated systems. Ten nematode families and 14 genera were identified. The most important plant-parasitic nematodes detected, in order decreasing frequency of infestation (percentage of samples), were spiral nematodes Helicotylenchus spp. (100%) and Rotylenchus spp. (87%), lesion nematodes Pratylenchus spp. (100%) and root-knot nematodes Meloidogyne spp. (40%). Most of the nematode species were assigned to more or less colonizer nematodes, whereas only one family (Longidoridae) was assigned to persistent nematodes. Considering the two producing areas, plant-parasitic nematodes were significantly more abundant in the Souss region than in the Haouz region, but nematode diversity was higher in the second one. The prevalence of Meloidogyne spp. in the Haouz region would be related to the predominance of irrigated cropping systems in this region. Hoplolaimidae nematodes (Helicotylenchus spp. and Rotylenchus spp.) are better adapted to rainfed conditions that prevail in the Souss region. Co-inertia analysis showed the importance of soil physic-chemical characteristics (e.g., pH, texture and nutrients) on the structure of the plant-parasitic nematode community patterns. The high occurrence of Helicotylenchus spp. in olive orchards may be induced by fertilization. Aphelenchoides spp., Gracilacus spp., Pratylenchus spp., Rotylenchidae and Tylenchidae were supported by coarse textures as it was observed in the Souss region

How anthropogenic changes may affect soil-borne parasite diversity? Plant-parasitic nematode communities associated with olive trees in Morocco as a case study

BackgroundPlant-parasitic nematodes (PPN) are major crop pests. On olive (Olea europaea), they significantly contribute to economic losses in the top-ten olive producing countries in the world especially in nurseries and under cropping intensification. The diversity and the structure of PPN communities respond to environmental and anthropogenic forces. The olive tree is a good host plant model to understand the impact of such forces on PPN diversity since it grows according to different modalities (wild, feral and cultivated olives). A wide soil survey was conducted in several olive-growing regions in Morocco. The taxonomical and the functional diversity as well as the structures of PPN communities were described and then compared between non-cultivated (wild and feral forms) and cultivated (traditional and high-density olive cultivation) olives.ResultsA high diversity of PPN with the detection of 117 species and 47 genera was revealed. Some taxa were recorded for the first time on olive trees worldwide and new species were also identified. Anthropogenic factors (wild vs cultivated conditions) strongly impacted the PPN diversity and the functional composition of communities because the species richness, the local diversity and the evenness of communities significantly decreased and the abundance of nematodes significantly increased in high-density conditions. Furthermore, these conditions exhibited many more obligate and colonizer PPN and less persister PPN compared to non-cultivated conditions. Taxonomical structures of communities were also impacted: genera such as Xiphinema spp. and Heterodera spp. were dominant in wild olive, whereas harmful taxa such as Meloidogyne spp. were especially enhanced in high-density orchards.ConclusionsOlive anthropogenic practices reduce the PPN diversity in communities and lead to changes of the community structures with the development of some damaging nematodes. The study underlined the PPN diversity as a relevant indicator to assess community pathogenicity. That could be taken into account in order to design control strategies based on community rearrangements and interactions between species instead of reducing the most pathogenic species.

First report of the root-knot nematode (Meloidogyne graminicola) in Madagascar rice fields

Rice is the major crop produced in Madagascar and is infested by numerous plant-parasitic nematodes. An extensive list of plant-parasitic nematodes found in association with rice roots during a survey of 14 sites is presented. This is the first time that Meloidogyne graminicola has been detected in Madagascar, which is relevant information for future management of this economically important nematode pest of rice.