Perception of Biocontrol Potential of Bacillusinaquosorum KR2-7 against Tomato Fusarium Wilt through Merging Genome Mining with Chemical Analysis

Tomato Fusarium wilt, caused by Fusarium oxysporum f. sp. lycopersici (Fol), is a destructive disease that threatens the agricultural production of tomatoes. In the present study, the biocontrol potential of strain KR2-7 against Fol was investigated through integrated genome mining and chemical analysis. Strain KR2-7 was identified as B. inaquosorum based on phylogenetic analysis. Through the genome mining of strain KR2-7, we identified nine antifungal and antibacterial compound biosynthetic gene clusters (BGCs) including fengycin, surfactin and Bacillomycin F, bacillaene, macrolactin, sporulation killing factor (skf), subtilosin A, bacilysin, and bacillibactin. The corresponding compounds were confirmed through MALDI-TOF-MS chemical analysis. The gene/gene clusters involved in plant colonization, plant growth promotion, and induced systemic resistance were also identified in the KR2-7 genome, and their related secondary metabolites were detected. In light of these results, the biocontrol potential of strain KR2-7 against tomato Fusarium wilt was identified. This study highlights the potential to use strain KR2-7 as a plant-growth promotion agent.

Two Novel Dimorphism-Related Virulence Factors of Zymoseptoria tritici Identified Using Agrobacterium-Mediated Insertional Mutagenesis

Diseases caused by dimorphic phytopathogenic and systemic dimorphic fungi have markedly increased in prevalence in the last decades, and understanding the morphogenic transition to the virulent state might yield novel means of controlling dimorphic fungi. The dimorphic fungus Z. tritici causes significant economic impact on wheat production, and yet the regulation of the dimorphic switch, a key first step in successful plant colonization, is still largely unexplored in this fungus. The fungus is amenable to suppression by fungicides at this switch point, and the identification of the factors controlling the dimorphic switch provides a potential source of novel targets to control Septoria tritici blotch (STB). Inhibition of the dimorphic switch can potentially prevent penetration and avoid any damage to the host plant. The aim of the current work was to unveil genetic determinants of the dimorphic transition in Z. tritici by using a forward genetics strategy. Using this approach, we unveiled two novel factors involved in the switch to the pathogenic state and used reverse genetics and complementation to confirm the role of the novel virulence factors and further gained insight into the role of these genes, using transcriptome analysis via RNA-Seq. The transcriptomes generated potentially contain key determinants of the dimorphic transition.

An ancient antimicrobial protein co-opted by a fungal plant pathogen for in planta mycobiome manipulation

Microbes typically secrete a plethora of molecules to promote niche colonization. Soil-dwelling microbes are well-known producers of antimicrobials that are exploited to outcompete microbial coinhabitants. Also, plant pathogenic microbes secrete a diversity of molecules into their environment for niche establishment. Upon plant colonization, microbial pathogens secrete so-called effector proteins that promote disease development. While such effectors are typically considered to exclusively act through direct host manipulation, we recently reported that the soil-borne, fungal, xylem-colonizing vascular wilt pathogen Verticillium dahliae exploits effector proteins with antibacterial properties to promote host colonization through the manipulation of beneficial host microbiota. Since fungal evolution preceded land plant evolution, we now speculate that a subset of the pathogen effectors involved in host microbiota manipulation evolved from ancient antimicrobial proteins of terrestrial fungal ancestors that served in microbial competition prior to the evolution of plant pathogenicity. Here, we show that V. dahliae has co-opted an ancient antimicrobial protein as effector, named VdAMP3, for mycobiome manipulation in planta. We show that VdAMP3 is specifically expressed to ward off fungal niche competitors during resting structure formation in senescing mesophyll tissues. Our findings indicate that effector-mediated microbiome manipulation by plant pathogenic microbes extends beyond bacteria and also concerns eukaryotic members of the plant microbiome. Finally, we demonstrate that fungal pathogens can exploit plant microbiome-manipulating effectors in a life stage–specific manner and that a subset of these effectors has evolved from ancient antimicrobial proteins of fungal ancestors that likely originally functioned in manipulation of terrestrial biota.

Cooperative Behaviors in Group-Living Spider Mites

Cooperative behaviors are evolutionary stable if the direct and/or indirect fitness benefits exceed the costs of helping. Here we discuss cooperation and behaviors akin to cooperation in subsocial group-living species of two genera of herbivorous spider mites (Tetranychidae), i.e., the largely polyphagous Tetranychus spp. and the nest-building Stigmaeopsis spp., which are specialized on grasses, such as bamboo. These spider mites are distributed in patches on various spatial scales, that is, within and among leaves of individual host plants and among individual hosts of single or multiple plant species. Group-living of spider mites is brought about by plant-colonizing foundresses ovipositing at local feeding sites and natal site fidelity, and by multiple individuals aggregating in the same site in response to direct and/or indirect cues, many of which are associated with webbing. In the case of the former, emerging patches are often composed of genetically closely related individuals, while in the case of the latter, local patches may consist of kin of various degrees and/or non-kin and even heterospecific spider mites. We describe and discuss ultimate and proximate aspects of cooperation by spider mites in host plant colonization and exploitation, dispersal, anti-predator behavior, and nesting-associated behaviors and conclude with theoretical and practical considerations of future research on cooperation in these highly rewarding model animals.

A Mini-Review on the Co-growth and Interactions Among Microorganisms (Fungi and Bacteria) From Rhizosphere of Metal-Hyperaccumulators

The co-growth and synergistic interactions among fungi and bacteria from the rhizosphere of plants able to hyper accumulate potentially toxic metals (PTMs) are largely unexplored. Fungi and bacteria contribute in an essential way to soil biogeochemical cycles mediating the nutrition, growth development, and health of associated plants at the rhizosphere level. Microbial consortia improve the formation of soil aggregates and soil fertility, producing organic acids and siderophores that increase solubility, mobilization, and consequently the accumulation of nutrients and metals from the rhizosphere. These microorganism consortia can both mitigate the soil conditions promoting plant colonization and increase the performance of hyperaccumulator plants. Indeed, microfungi and bacteria from metalliferous soils or contaminated matrices are commonly metal-tolerant and can play a key role for plants in the phytoextraction or phytostabilization of metals. However, few works deepen the effects of the inoculation of microfungal and bacterial consortia in the rhizosphere of metallophytes and their synergistic activity. This mini-review aimed to collect and report the data regarding the role of microbial consortia and their potentialities known to date. Moreover, our new data had shown an active fungal-bacteria consortium in the rhizosphere of the hyperaccumulator plant Alyssoides utriculata.

Historia de la vegetación del sitio Huapilacuy II durante el Holoceno Medio a partir del análisis polínico y de macrofósiles vegetales, Isla Grande de Chiloé, Chile

This study examines the new fossiliferous site Huapilacuy II of Mid-Holocene age (7,344±51-6,865±58 cal years BP.) located in the northwestern coast of the Isla Grande de Chiloé. This area was not affected by the successive Pleistocene glaciations, and therefore it presents a biogeographic relevance as a potential area of refugia and stability for the vegetation. The presence of plant macrofossils contained in a sedimentary sequence of ca. 300 cm thick, confers a special interest to the site, due to the scarce information available on this type of indicator in paleoenvironmental studies of southern Chile. Additionally, several pollen-based reconstructions from the southern Lake District of Chile (40-44˚ S), document the Holocene sequence of recolonization by the different temperate rainforests types that today occupy this region, although there are non-Holocene records for the Pacific coast of the region. The aim of this study is to reconstruct the local environmental conditions and paleoecology based on the stratigraphic context and the analysis of plant macrofossils at the site Huapilacuy II. In addition, based on the pollen analysis of the deposit, we provide new information to reconstruct the regional characteristics of the vegetation during the Middle-Holocene. In particular, the plant macrofossil record of marsh species contained in the sediments of the lower section of the studied sedimentary sequence, together with the pollen analysis of the same sequence, document a first phase of plant colonization at 7,344±51 cal yrs. BP, with predominance of Poaceae, ferns, and trees with regeneration capacity in open areas, such as Embothrium coccineum and Drimys winteri. The analysis of leaf macrofossils and palynomorphs recovered from several intercalated layers, from the middle section of the sedimentary sequence, show the local and regional development of dense and very humid forests dominated by Aextoxicon punctatum, associated with several species of Myrtaceae. The presence of soil moisture indicator species, such as Luma chequen, Myrceugenia sp. and Myrtaceae Blepharocalyx-type is consistent with the sedimentary environment and the local development of swamp or riverine forests. This hygrophile forest environment is also consistent with the assemblage of fossil mosses, dominated by species that grow today in dense closed-canopy forests, such as Weymouthia, Ptychomnium, Rigodium, Porothamnium and Eucamptodon. The regional correlation of the pollen spectra from Huapilacuy II and other records from the Lake District allows us to establish latitudinal and longitudinal differences of tree composition in the temperate-rainforests that expanded during the Early to Mid-Holocene. In particular, this study established for the northwestern coast of the Isla Grande de Chiloé the presence of the coastal association of the valdivian forest (As. Lapagerio-Aextoxiconetum), currently distributed along the Chilean coastline between 30˚- 43˚S. In contrast, the Valdivian associations recorded in other areas of the region exhibit the dominance of Eucryphia cordifolia, Caldcluvia paniculata, Weinmannia trichosperma and different species of Nothofagus. Despite the differences in tree composition, the fossil bryophyte species recorded in several of the sites compared are common with those reported for Huapilacuy II, thus showing the wide ecological range of Chilean bryophytes associated with closed-canopy temperate-rainforests.

Pan-genome analysis identifies intersecting roles for Pseudomonas specialized metabolites in potato pathogen inhibition

Agricultural soil harbors a diverse microbiome that can form beneficial relationships with plants, including the inhibition of plant pathogens. Pseudomonas spp. are one of the most abundant bacterial genera in the soil and rhizosphere and play important roles in promoting plant health. However, the genetic determinants of this beneficial activity are only partially understood. Here, we genetically and phenotypically characterize the Pseudomonas fluorescens population in a commercial potato field, where we identify strong correlations between specialized metabolite biosynthesis and antagonism of the potato pathogens Streptomyces scabies and Phytophthora infestans. Genetic and chemical analyses identified hydrogen cyanide and cyclic lipopeptides as key specialized metabolites associated with S. scabies inhibition, which was supported by in planta biocontrol experiments. We show that a single potato field contains a hugely diverse and dynamic population of Pseudomonas bacteria, whose capacity to produce specialized metabolites is shaped both by plant colonization and defined environmental inputs.

Modelling of Vegetation Dynamics from Satellite Time Series to Determine Proglacial Primary Succession in the Course of Global Warming—A Case Study in the Upper Martell Valley (Eastern Italian Alps)

Satellite-based long-term observations of vegetation cover development in combination with recent in-situ observations provide a basis to better understand the spatio-temporal changes of vegetation patterns, their sensitivity to climate drivers and thus climatic impact on proglacial landscape development. In this study we combined field investigations in the glacier forelands of Fürkele-, Zufall- and Langenferner (Ortles-Cevedale group/Eastern Italian Alps) with four different Vegetation Indices (VI) from Landsat scenes in order to test the suitability for modelling an area-wide vegetation cover map by using a Bayesian beta regression model (RStan). Since the model with the Normalized Difference Vegetation Index (NDVI) as predictor showed the best results, it was used to calculate a vegetation cover time series (1986–2019). The alteration of the proglacial areas since the end of the Little Ice Age (LIA) was analyzed from digital elevation models based on Airborne Laser Scanning (ALS) data and areal images, orthophotos, historical maps and field mapping campaigns. Our results show that a massive glacier retreat with an area loss of 8.1 km2 (56.9%; LIA–2019) resulted in a constant enlargement of the glacier forelands, which has a statistically significant impact on the degree of vegetation cover. The area covered by vegetation increased from 0.25 km2 (5.6%) in 1986 to 0.90 km2 (11.2%) in 2019 with a significant acceleration of the mean annual changing rate. As patterns of both densification processes and plant colonization at higher elevations can be reflected by the model results, we consider in-situ observations combined with NDVI time series to be powerful tools for monitoring vegetation cover changes in alpine proglacial areas.

Hitchhiking Halophytes in Wrack and Sediment-Laden Ice Blocks Contribute To Tidal Marsh Development in The Upper Bay of Fundy.

Salt marshes are a type of coastal wetland that are affected by dynamic coastal processes. Ice blocks and wrack (mats of plant debris) regularly float onto northern marshes and become stranded, affecting vegetation and soil accretion. There is little research regarding the capacity of ice and wrack to transport viable plant propagules onto marshes where they can colonize, which may be particularly important at barren new salt marsh restoration sites. Contributions of sediment by ice may also be important at restoration sites to raise the marsh platform to elevations appropriate for plant colonization. We collected ice (n = 27) and wrack (n = 18) samples at marshes in the Bay of Fundy, ran germination trials with the contents, and measured the quantity of sediment in the ice. We found viable propagules from halophytic and non-halophytic species in wrack, and viable propagules of Sporobolus pumilus in ice. Additionally, we found sediment densities between 0.01 and 4.75 g·cm−3 in ice blocks that translated to 26.61 – 21,483.59 kg of total sediment per block, representing a large source of sediment. We found that the number of germinating propagules could not be predicted by wrack size, and that pH, sediment density, sediment weight in ice blocks were variable across the marsh surface, while ice salinity was negatively correlated with elevation and distance from creek. Our results indicate that ice and wrack represent a potential source for vegetation colonization at salt marsh sites and highlights their contributions to facilitating vegetation colonization through building marsh soils.