Genotypic differences explain most of the response of willow cultivars to petroleum-contaminated soil

Grenier, Vanessa; Pitre, Frédéric E.; Nissim, Werther Guidi; Labrecque, Michel

doi:10.1007/s00468-015-1168-5

Cited by 28 publications

(20 citation statements)

References 52 publications

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“…The trial was established on the site of a former petrochemical plant in Varennes,southern Quebec,Canada (45°46' N,73°22' W) Yergeau et al, 2014;Gonzalez et al, 2015;Grenier et al, 2015).…”

Section: Site Cultivar and Contamination Compositionmentioning

confidence: 99%

“…Field design was previously published (Bell et al, 2014a;Hassan et al, 2014;Grenier et al, 2015) with each area covering 300 m 2 with 75 2-year-old trees per cultivar. Cuttings were established at a density of 30,000 ha 21 , consisting of rows planted 1 m apart and trees within rows planted 30 cm from each other.…”

Section: Site Cultivar and Contamination Compositionmentioning

confidence: 99%

“…One of the current strategies to bring degraded land back into productivity using low input agriculture is to actively rejuvenate contaminated or polluted land in a process termed phytoremediation. Numerous studies have demonstrated willow's capacity to tolerate contaminated soils beyond the majority of agricultural crops (Robinson et al, 2000;Volk et al, 2006;Pitre et al, 2010;Grenier et al, 2015), presenting an industrially pertinent opportunity to reduce high biomass production costs Black et al, 2011;Yue et al, 2014) through added-value cultivation. However, the genetic mechanisms behind such tolerance are poorly understood.…”

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confidence: 99%

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Comparative Transcriptomic Approaches Exploring Contamination Stress Tolerance in Salix sp. Reveal the Importance for a Metaorganismal de Novo Assembly Approach for Nonmodel Plants

et al. 2016

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Metatranscriptomic study of nonmodel organisms requires strategies that retain the highly resolved genetic information generated from model organisms while allowing for identification of the unexpected. A real-world biological application of phytoremediation, the field growth of 10 Salix cultivars on polluted soils, was used as an exemplar nonmodel and multifaceted crop response well-disposed to the study of gene expression. Sequence reads were assembled de novo to create 10 independent transcriptomes, a global transcriptome, and were mapped against the Salix purpurea 94006 reference genome. Annotation of assembled contigs was performed without a priori assumption of the originating organism. Global transcriptome construction from 3.03 billion paired-end reads revealed 606,880 unique contigs annotated from 1588 species, often common in all 10 cultivars. Comparisons between transcriptomic and metatranscriptomic methodologies provide clear evidence that nonnative RNA can mistakenly map to reference genomes, especially to conserved regions of common housekeeping genes, such as actin, a/b-tubulin, and elongation factor 1-a. In Salix, Rubisco activase transcripts were down-regulated in contaminated trees across all 10 cultivars, whereas thiamine thizole synthase and CP12, a Calvin Cycle master regulator, were uniformly up-regulated. De novo assembly approaches, with unconstrained annotation, can improve data quality; care should be taken when exploring such plant genetics to reduce de facto data exclusion by mapping to a single reference genome alone. Salix gene expression patterns strongly suggest cultivar-wide alteration of specific photosynthetic apparatus and protection of the antenna complexes from oxidation damage in contaminated trees, providing an insight into common stress tolerance strategies in a real-world phytoremediation system.Coppiced willows have the ability to produce high biomass yields in temperate regions under challenging conditions and have positive impacts on biodiversity (Labrecque et al

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Section: Site Cultivar and Contamination Compositionmentioning

confidence: 99%

Section: Site Cultivar and Contamination Compositionmentioning

confidence: 99%

mentioning

confidence: 99%

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Comparative Transcriptomic Approaches Exploring Contamination Stress Tolerance in Salix sp. Reveal the Importance for a Metaorganismal de Novo Assembly Approach for Nonmodel Plants

et al. 2016

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“…In the long term, crude oil in the environment naturally degrades by physical, chemical, and biological processes (Barakat et al, 2001). This process is accelerated by plants (Ogbo et al, 2009), microorganisms (Abed et al, 2015), and their symbiosis in the rhizosphere (Newman and Reynolds, 2004; Grenier et al, 2015; Liu et al, 2015). However, in deserts a limited and unpredictable water supply and high temperature amplitudes result in low biomass production of plants and low activity of microorganisms (Noy‐Meir, 1973).…”

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confidence: 99%

Desert Vegetation Forty Years after an Oil Spill

et al. 2017

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Deserts are the most frequent locations of terrestrial crude oil contaminations. Nevertheless, the long-term effects of petroleum hydrocarbons on desert ecosystems are still unknown, which makes risk assessment and decision making concerning remediation difficult. This study examined the long-term effects of petroleum hydrocarbons on perennial desert vegetation. The study site was a hyper-arid area in the south of Israel, which was contaminated by a crude oil spill in 1975. The contaminated area was compared to uncontaminated reference areas. The composition of perennial plants 40 yr after the oil spill was not significantly affected by the contamination. However, the size distribution of the two most dominant shrub species, Baker and (Moq.) Iljin., and the only tree species, Savi and (Forssk.) Hayne, were different from the reference. These differences can be explained by decreased recruitment. The estimated recruitment of in the last 40 yr post oil spill was 74% less than recruitment in the reference area. Low recruitment of may in the future lead to the loss of tree cover, which would change the entire ecosystem, as are keystone species on which a number of microorganisms, plants, and animals rely. Remediation of oil spills and preventative measures are recommended.

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“…The response of the plant itself to contamination will also have a determining effect on the success of rhizoremediation. Willow genotypes showed large differences in the response of their growth patterns and physiology to contamination (Grenier et al ., ). These results were mirrored in the transcriptomic response of the rhizosphere microbiota (Yergeau et al ., ), with the willow species showing the largest decreases in biomass and photosynthetic capacity also showing the largest decreases in the expression of genes in their associated microbiota.…”

Section: Rhizoremediation As a Model For Microbiome Manipulationmentioning

confidence: 97%

Rhizoremediation of petroleum hydrocarbons: a model system for plant microbiome manipulation

Correa-García

Pande

Séguin

et al. 2018

Microbial Biotechnology

107

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SummaryPhytoremediation is a green and sustainable alternative to physico‐chemical methods for contaminated soil remediation. One of the flavours of phytoremediation is rhizoremediation, where plant roots stimulate soil microbes to degrade organic contaminants. This approach is particularly interesting as it takes advantage of naturally evolved interaction mechanisms between plant and microorganisms and often results in a complete mineralization of the contaminants (i.e. transformation to water and CO 2). However, many biotic and abiotic factors influence the outcome of this interaction, resulting in variable efficiency of the remediation process. The difficulty to predict precisely the timeframe associated with rhizoremediation leads to low adoption rates of this green technology. Here, we review recent literature related to rhizoremediation, with a particular focus on soil organisms. We then expand on the potential of rhizoremediation to be a model plant‐microbe interaction system for microbiome manipulation studies.

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Genotypic differences explain most of the response of willow cultivars to petroleum-contaminated soil

Cited by 28 publications

References 52 publications

Comparative Transcriptomic Approaches Exploring Contamination Stress Tolerance in Salix sp. Reveal the Importance for a Metaorganismal de Novo Assembly Approach for Nonmodel Plants

Comparative Transcriptomic Approaches Exploring Contamination Stress Tolerance in Salix sp. Reveal the Importance for a Metaorganismal de Novo Assembly Approach for Nonmodel Plants

Desert Vegetation Forty Years after an Oil Spill

Rhizoremediation of petroleum hydrocarbons: a model system for plant microbiome manipulation

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