Identification of Quantitative Trait Loci Conditioning the Main Biomass Yield Components and Resistance to Melampsora spp. in Salix viminalis × Salix schwerinii Hybrids

Sulima, P.; Przyborowski, J.; Kuszewska, Anna; Załuski, Dariusz; Jędryczka, M.; Irzykowski, Witold

doi:10.3390/ijms18030677

Cited by 8 publications

(4 citation statements)

References 43 publications

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“…With the aim of identifying markers for MAS, different QTL studies have been conducted in Populus and Salix species to understand the genetics of different disease resistance traits (Jorge et al, 2005; Rönnberg-Wästljung et al, 2008; Hanley et al, 2011; Samils et al, 2011), phenology and biomass related traits (Dillen et al, 2009; Rae et al, 2009; Wullschleger et al, 2011; Berlin et al, 2014, 2017; Ghelardini et al, 2014). More recently association mapping studies have been performed that identified putative causative genes for growth and phenology traits in Salix and in Populus species (Allwright and Taylors, 2016; Fahrenkrog et al, 2016; Hallingbäck et al, 2016; Carlson et al, 2019) and for traits related to chemical wood properties (Wegrzyn et al, 2010; Guerra et al, 2013; Porth et al, 2013; Muchero et al, 2015; Carlson et al, 2019), all that are of potential interest for breeding purposes.…”

Section: Introductionmentioning

confidence: 99%

Genome Wide Associations of Growth, Phenology, and Plasticity Traits in Willow [Salix viminalis (L.)]

et al. 2019

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The short rotation biomass crop willow ( Salix genera) has been of interest for bioenergy but recently also for biofuel production. For a faster development of new varieties molecular markers could be used as selection tool in an early stage of the breeding cycle. To identify markers associated with growth traits, genome-wide association mapping was conducted using a population of 291 Salix viminalis accessions collected across Europe and Russia and a large set of genotyping-by-sequencing markers. The accessions were vegetatively propagated and planted in replicated field experiments, one in Southern Sweden and one in Central Sweden. Phenology data, including bud burst and leaf senescence, as well as different growth traits were collected and measured repeatedly between 2010 and 2017 at both field environments. A value of the plasticity for each accession was calculated for all traits that were measured the same year in both environments as the normalized accession value in one environment subtracted by the corresponding value in the other environment. Broad-sense accession heritabilities and narrow-sense chip heritabilities ranged from 0.68 to 0.95 and 0.45 to 0.99, respectively for phenology traits and from 0.56 to 0.85 and 0.24 to 0.97 for growth traits indicating a considerable genetic component for most traits. Population structure and kinship between accessions were taken into account in the association analyses. In total, 39 marker-trait associations were found where four were specifically connected to plasticity and interestingly one particular marker was associated to several different plasticity growth traits. Otherwise association consistency was poor, possibly due to accession by environment interactions which were demonstrated by the low structure adjusted accession correlations across environments (ranging from 0.40 to 0.58). However, one marker association with biomass fresh weight was repeatedly observed in the same environment over two harvest years. For some traits where several associations were found, the markers jointly explained over 20% of the accession variation. The result from this study using a population of unrelated accessions has given useful information about marker-trait associations especially highlighting marker-plasticity associations and genotype-by-environment interactions as important factors to take account of in future strategies of Salix breeding.

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Section: Introductionmentioning

confidence: 99%

Genome Wide Associations of Growth, Phenology, and Plasticity Traits in Willow [Salix viminalis (L.)]

et al. 2019

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“…S. purpurea in vitro plantlets were obtained by bud culture of the PSP33 genotype selected from the Salix purpurea germplasm collection at the University Warmia Mazury in Olsztyn (Poland) (Sulima et al, 2017a(Sulima et al, , 2017b(Sulima et al, , 2017c. The conditions for in vitro tissue culture were previously optimized for S. purpurea genotypes (Gomes et al, 2019).…”

Section: Plant Materialsmentioning

confidence: 99%

Revealing the transitory and local effect of zebularine on development and on proteome dynamics of Salix purpurea

Pagano,

Gomes,

Timmerman

et al. 2024

Front. Plant Sci.

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IntroductionDNA methylation plays major roles in the epigenetic regulation of gene expression, transposon and transcriptional silencing, and DNA repair, with implications in developmental processes and phenotypic plasticity. Relevantly for woody species, DNA methylation constitutes a regulative layer in cell wall dynamics associated with xylogenesis. The use of methyltransferase and/or demethylase inhibitors has been proven informative to shed light on the methylome dynamics behind the regulation of these processes.MethodsThe present work employs the cytidine analog zebularine to inhibit DNA methyltransferases and induce DNA hypomethylation in Salix purpurea plantlets grown in vitro and in soil. An integrative approach was adopted to highlight the effects of zebularine on proteomic dynamics, revealing age-specific (3 weeks of in vitro culture and 1 month of growth in soil) and tissue-specific (stem and root) effects.Results and discussionAfter 3 weeks of recovery from zebularine treatment, a decrease of 5-mC levels was observed in different genomic contexts in the roots of explants that were exposed to zebularine, whereas a functionally heterogeneous subset of protein entries was differentially accumulated in stem samples, including entries related to cell wall biosynthesis, tissue morphogenesis, and hormonal regulation. Significant proteomic remodeling was revealed in the development from in vitro to in-soil culture, but no significant changes in 5-mC levels were observed. The identification of tissue-specific proteomic hallmarks in combination with hypomethylating agents provides new insights into the role of DNA methylation and proteome in early plant development in willow species. Proteomic data are available via ProteomeXchange with identifier PXD045653. WGBS data are available under BioProject accession PRJNA889596.

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“…In closely related pathosystems, including poplar rust caused by M. larici-populina or ax rust caused by M. lini, research has identi ed speci c quantitative and qualitative rust resistance using candidate gene analysis and QTL mapping approaches (16)(17)(18)(19)(20)(21). Most research in the Salix -Melampsora pathosystem has focused on S. viminalis and M. larici-epitea (22)(23)(24). While S. viminalis is well-adapted and popular in European bioenergy willow breeding programs, S. purpurea is most commonly used in the US.…”

Section: Introductionmentioning

confidence: 99%

Comparative Transcriptomics And eQTL Mapping Of Response To Melampsora Americana In Selected Salix Purpurea F2 Progeny

Wilkerson

Crowell

Carlson

et al. 2021

Preprint

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Background: Melampsora spp. rusts are the greatest pathogen threat to shrub willow (Salix spp.) bioenergy crops. Genetic resistance is key to limit the effects of these foliar diseases on host response and biomass yield, however, the genetic basis of host resistance has not been characterized. The addition of new genomic resources for Salix provides greater power to investigate the interaction between S. purpurea and M. americana, species commonly found in the Northeast US. Here, we utilize 3' RNA-seq to investigate host-pathogen interactions following controlled inoculations of M. americana on resistant and susceptible F2 S. purpurea genotypes identified in a recent QTL mapping study. Differential gene expression, network analysis, and eQTL mapping was used to contrast the response to inoculation and to identify associated candidate genes.Results: Controlled inoculation in a replicated greenhouse study identified 19 and 105 differentially expressed genes between resistant and susceptible genotypes at 42 and 66 HPI, respectively. Defense response gene networks were activated in both resistant and susceptible genotypes and enriched for many of the same defense response genes, yet the hub genes of these common response modules showed greater mean expression among the resistant plants. Further, eight and six eQTL hotspots were identified at 42 and 66 HPI, respectively. The combined results of the three analyses highlight 124 candidate genes in the host for further analysis while analysis of pathogen RNA showed differential expression of 22 genes, two of which are candidate pathogen effectors. Conclusions: We identified two differentially expressed M. americana transcripts and 124 S. purpurea genes that are good candidates for future studies to confirm their role in conferring resistance.

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Identification of Quantitative Trait Loci Conditioning the Main Biomass Yield Components and Resistance to Melampsora spp. in Salix viminalis × Salix schwerinii Hybrids

Cited by 8 publications

References 43 publications

Genome Wide Associations of Growth, Phenology, and Plasticity Traits in Willow [Salix viminalis (L.)]

Genome Wide Associations of Growth, Phenology, and Plasticity Traits in Willow [Salix viminalis (L.)]

Revealing the transitory and local effect of zebularine on development and on proteome dynamics of Salix purpurea

Comparative Transcriptomics And eQTL Mapping Of Response To Melampsora Americana In Selected Salix Purpurea F2 Progeny

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