Microbiome Innovation in Agriculture: Development of Microbial Based Tools for Insect Pest Management

Qadri, Masroor; Short, Sierra; Gast, Kalani; Hernandez, J. T.; Wong, Adam C. N.

doi:10.3389/fsufs.2020.547751

Cited by 33 publications

(19 citation statements)

References 256 publications

(268 reference statements)

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“…TSWV, INSV, and IYSV are endemically present in the Mediterranean Basin and Europe, and TSWV causes major loss in a number of horticultural crops, particularly because of resistance breaking strains in pepper and tomato ( 9 ). This necessitates new approaches in integrated pest management (IPM): in this regard, specific attention has been paid to the possibility of altering the microbiome associated with insects as a new tool for crop pest management ( 10 ).…”

Section: Introductionmentioning

confidence: 99%

Complexity and Local Specificity of the Virome Associated with Tospovirus-Transmitting Thrips Species

Chiapello

Bosco

Ciuffo

et al. 2021

J Virol

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Frankliniella occidentalis (western flower thrips=WFT) and Thrips tabaci (onion thrips=OT) are insect species that greatly impact horticultural crops through direct damage and their efficient vectoring of tomato spotted wilt virus and iris yellow spot virus. In this study we collected thrips of these species from 12 field populations in various regions in Italy. We also included one field population of Neohydatothrips variabilis (soybean thrips=ST) from the U.S.A. Total RNAseq from high-throughput sequencing (HTS) was used to assemble the virome and then we assigned putative viral contigs to each thrips sample by qRT-PCR. Excluding plant and fungal viruses, we were able to identify 61 viral segments, corresponding to 41 viruses: 14 were assigned to WFT, 17 to OT, one from ST and 9 viruses could not be assigned to any species based on our stringent criteria. All these viruses are putative representative of new species (with only the exception of a sobemo-like virus that is 100% identical to a virus recently characterized in ST) and some belong to new higher-ranking taxa. These additions to the viral phylogeny suggest previously undescribed evolutionary niches. Most of the Baltimore’s classes of RNA viruses were present (positive- and minus- strand and dsRNA viruses), but only one DNA virus was identified in our collection. Repeated sampling in a subset of locations in 2019 and 2020 and further virus characterization in a subset of four thrips populations maintained in laboratory allowed us to provide evidence of a locally persistent thrips core virome that characterizes each population. IMPORTANCE Harnessing the insect microbiome can result in new approaches to contain their populations or the damage they cause vectoring viruses of medical, veterinary, or agricultural importance. Persistent insect viruses are a neglected component of their microbiota. Here for the first time, we characterize the virome associated with the two model systems for tospovirus-transmitting thrips species, of utmost importance for the direct and indirect damage they cause to a number of different crops. The thrips virome here characterized includes several novel viruses, that in some cases reveal previously undescribed clades. More importantly, some of the viruses we describe are part of a core virome that is specific and consistently present in distinct geographical locations monitored over the years, hinting at a possible mutualistic symbiotic relationship with their host.

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Section: Introductionmentioning

confidence: 99%

Complexity and Local Specificity of the Virome Associated with Tospovirus-Transmitting Thrips Species

Chiapello

Bosco

Ciuffo

et al. 2021

J Virol

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“…However, utilization of microbes in agriculture still depends upon culturability of target microbes. The microbiota which are economically mass cultured are commercialized for enhancing resource use efficiency, promoting plant growth, mitigation of stresses, and insect pest management (Qadri et al 2020) (Fig. 2).…”

Section: Utilization Of Beneficial Microbiome To Boost Agriculture Pr...mentioning

confidence: 99%

Microbiome for sustainable agriculture: a review with special reference to the corn production system

et al. 2021

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Microbial diversity formed by ages of evolution in soils plays an important role in sustainability of crop production by enriching soil and alleviating biotic and abiotic stresses. This diversity is as an essential part of the agro-ecosystems, which is being pushed to edges by pumping agrochemicals and constant soil disturbances. Consequently, efficiency of cropping system has been decreasing, aggravated further by the increased incidence of abiotic stresses due to changes in climatic patterns. Thus, the sustainability of agriculture is at stake. Understanding the microbiota inhabiting phyllosphere, endosphere, spermosphere, rhizosphere, and non-rhizosphere, and its utilization could be a sustainable crop production strategy. This review explores the available information on diversity of beneficial microbes in agricultural ecosystem and synthesizes their commercial uses in agriculture. Microbiota in agro-ecosystem works by nutrient acquisition, enhancing nutrient availability, water uptake, and amelioration of abiotic and abiotic stresses. External application of such beneficial microbiota or microbial consortia helps in boosting plant growth and provides resistance to drought, salinity, heavy metal, high-temperature and radiation stress in various crop plants. These have been instrumental in enhancing tolerance to diseases, insect pest and nematodes in various cropping system. However, studies on the microbiome in revolutionary production systems like conservation agriculture and protected cultivation, which use lesser agrochemicals, are limited and if exploited can provide valuable input in sustainable agriculture production.

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“…Currently, several unconventional strategies have been proposed for using microbes to enhance crop protection, either by targeting the insect or enhancing plant resistance to herbivore damage. Suggested microbial manipulation strategies for pest management include genetic modification of insect microbiomes to reduce virulence by disrupting fundamental symbiotic relationships or turning resident microbiota against their insect host (Arora and Douglas, 2017; Mason et al, 2019b;Qadri et al, 2020). The use of beneficial plantassociated microbes has generated considerable interest as a means to enhance natural defense against insect pests (e.g., Coppola et al, 2019;Kaur et al, 2020).…”

Section: Uncharted Approaches To Sustainable Insect Pest Managementmentioning

confidence: 99%

Unconventional routes to developing insect-resistant crops

Enders

Begcy

2021

Molecular Plant

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Concerns over widespread use of insecticides and heightened insect pest virulence under climate change continue to fuel the need for environmentally safe and sustainable control strategies. However, to develop such strategies, a better understanding of the molecular basis of plant-pest interactions is still needed. Despite decades of research investigating plant-insect interactions, few examples exist where underlying molecular mechanisms are well characterized, and even rarer are cases where this knowledge has been successfully applied to manage harmful agricultural pests. Consequently, the field appears to be static, urgently needing shifts in approaches to identify novel mechanisms by which insects colonize plants and plants avoid insect pressure. In this perspective, we outline necessary steps for advancing holistic methodologies that capture complex plant-insect molecular interactions. We highlight novel and underexploited approaches in plant-insect interaction research as essential routes to translate knowledge of underlying molecular mechanisms into durable pest control strategies, including embracing microbial partnerships, identifying what makes a plant an unsuitable host, capitalizing on tolerance of insect damage, and learning from cases where crop domestication and agronomic practices enhance pest virulence.

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Microbiome Innovation in Agriculture: Development of Microbial Based Tools for Insect Pest Management

Cited by 33 publications

References 256 publications

Complexity and Local Specificity of the Virome Associated with Tospovirus-Transmitting Thrips Species

Complexity and Local Specificity of the Virome Associated with Tospovirus-Transmitting Thrips Species

Microbiome for sustainable agriculture: a review with special reference to the corn production system

Unconventional routes to developing insect-resistant crops

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