Signatures of natural selection in abiotic stress-responsive genes of<i>Solanum chilense</i>

Böndel, Katharina B.; Nosenko, Tetyana; Stephan, Wolfgang

doi:10.1098/rsos.171198

Cited by 28 publications

(45 citation statements)

References 61 publications

(115 reference statements)

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“…Plants that inhabit the Atacama Desert have been studied for their high tolerance to drought, salinity, radiation, and extreme temperatures. In particular, S. chilense, given its high tolerance to hydric deficit, has been used as a model plant in physiological and molecular studies [41,42]. In our study, we have focused on the rhizosphere, in order to explore a possible role of microorganisms in the induction of tolerance to the hydric deficit characteristic of arid zones.…”

Section: Discussionmentioning

confidence: 99%

Fungal and Bacterial Microbiome Associated with the Rhizosphere of Native Plants from the Atacama Desert

et al. 2020

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The rhizosphere microbiome is key in survival, development, and stress tolerance in plants. Salinity, drought, and extreme temperatures are frequent events in the Atacama Desert, considered the driest in the world. However, little information of the rhizosphere microbiome and its possible contribution to the adaptation and tolerance of plants that inhabit the desert is available. We used a high-throughput Illumina MiSeq sequencing approach to explore the composition, diversity, and functions of fungal and bacterial communities of the rhizosphere of Baccharis scandens and Solanum chilense native plants from the Atacama Desert. Our results showed that the fungal phyla Ascomycota and Basidiomycota and the bacterial phyla Actinobacteria and Proteobacteria were the dominant taxa in the rhizosphere of both plants. The linear discriminant analysis (LDA) effect size (LefSe) of the rhizosphere communities associated with B. scandens showed the genera Penicillium and Arthrobacter were the preferential taxa, whereas the genera Oidiodendron and Nitrospirae was the preferential taxa in S. chilense. Both plant showed similar diversity, richness, and abundance according to Shannon index, observed OTUs, and evenness. Our results indicate that there are no significant differences (p = 0.1) between the fungal and bacterial communities of both plants, however through LefSe, we find taxa associated with each plant species and the PCoA shows a separation between the samples of each species. This study provides knowledge to relate the assembly of the microbiome to the adaptability to drought stress in desert plants.

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Section: Discussionmentioning

confidence: 99%

Fungal and Bacterial Microbiome Associated with the Rhizosphere of Native Plants from the Atacama Desert

et al. 2020

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“…Abiotic stress, such as recurrent droughts in the US southern Great Plains, is a strong selective force. Given the inconsistent and insufficient rainfall patterns, selection for drought tolerance and avoidance would require strong directional selection to elevate allele frequency of drought responsive genes (Böndel et al, 2018). However, breeding for individuals with drought tolerance might have depleted overall genetic diversity in regional breeding programs and disrupted the genotype-phenotype association for polygenic variation as a consequence (Assis et al, 2016;Jones et al, 2014;Pavlicev et al, 2010).…”

Section: Discussionmentioning

confidence: 99%

Effectiveness of Genomic Selection by Response to Selection for Winter Wheat Variety Improvement

Carver

Powers

et al. 2019

The Plant Genome

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The Plant Genome W heat breeding has progressed dramatically in the last century thanks to the combination of various technologies (Poland et al., 2012); taken together these advancements have driven the yearly genetic gain through selective breeding to nearly a linear increase of 1% in the potential grain yield (Bassi et al., 2016). Faced against human population growth and uncertain climates, global wheat production, however, still falls short (Curtis and Halford, 2014), as the global demand for wheat is projected to increase 60% when the population reaches 9.8 billion by 2050 (Alexandratos and Bruinsma, 2012). The emphasis now is increasingly not only meeting the food

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“…Solanum chilense occurs in southern Peru and northern Chile. Local adaptation to abiotic and biotic stresses in S. chilense or its sister species is indicated, first, by signatures of positive selection in genes involved in cold‐ and drought‐stress response (Xia et al ., ; Fischer et al ., ; Nosenko et al ., ; Böndel et al ., ), second, by balancing selection in several genes of the Pto resistance pathway providing resistance to Pseudomonas sp. (Rose et al ., ), and, third, by variable resistant phenotypes against filamentous pathogens across populations (Stam et al ., ).…”

Section: Introductionmentioning

confidence: 99%

Subsets of NLR genes show differential signatures of adaptation during colonization of new habitats

Stam

Silva‐Arias²,

Tellier³

2019

New Phytologist

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Summary Nucleotide binding site, leucine‐rich repeat receptors (NLRs) are canonical resistance (R) genes in plants, fungi and animals, functioning as central (helper) and peripheral (sensor) genes in a signalling network. We investigate NLR evolution during the colonization of novel habitats in a model tomato species, Solanum chilense. We used R‐gene enrichment sequencing to obtain polymorphism data at NLRs of 140 plants sampled across 14 populations covering the whole species range. We inferred the past demographic history of habitat colonization by resequencing whole genomes from three S. chilense plants from three key populations and performing approximate Bayesian computation using data from the 14 populations. Using these parameters, we simulated the genetic differentiation statistics distribution expected under neutral NLR evolution and identified small subsets of outlier NLRs exhibiting signatures of selection across populations. NLRs under selection between habitats are more often helper genes, whereas those showing signatures of adaptation in single populations are more often sensor‐NLRs. Thus, centrality in the NLR network does not constrain NLR evolvability, and new mutations in central genes in the network are key for R‐gene adaptation during colonization of different habitats.

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Signatures of natural selection in abiotic stress-responsive genes ofSolanum chilense

Cited by 28 publications

References 61 publications

Fungal and Bacterial Microbiome Associated with the Rhizosphere of Native Plants from the Atacama Desert

Fungal and Bacterial Microbiome Associated with the Rhizosphere of Native Plants from the Atacama Desert

Effectiveness of Genomic Selection by Response to Selection for Winter Wheat Variety Improvement

Subsets of NLR genes show differential signatures of adaptation during colonization of new habitats

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