Genome‐wide association analysis of agronomical and physiological traits linked to drought tolerance in a diverse potatoes (<i>Solanum tuberosum</i>) panel

Tagliotti, Martin Enrique; Deperi, Sofía Irene; Bedogni, María Cecilia; Huarte, M.

doi:10.1111/pbr.12938

Cited by 10 publications

(10 citation statements)

References 55 publications

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“…According to the estimations of LD value, chromosomes 8, 10, and 11 had the highest correlation values between markers, which translates into a greater degree of association between them. High correlation values on chromosome 8 have already been reported by other authors (Berdugo‐Cely et al., 2017; Sharma et al., 2018; Tagliotti et al., 2021; Vos et al., 2015). All of them suggest that chromosome 8 has undergone low selection pressure.…”

Section: Discussionsupporting

confidence: 64%

“…Some results present in the literature seems to indicate the potential of this methodology in potato breeding programs. It has helped to identify markers associated with quantitative traits in tetraploid potato populations (Berdugo‐Cely et al., 2017; D'hoop, 2009; Fischer et al., 2013; Gebhardt et al., 2004; Li et al., 2008; Myles et al, 2009; Malosetti et al., 2007; Simko et al., 2004; Tagliotti et al., 2021; Yousaf et al., 2021). In addition, the association mapping and linkage disequilibrium analysis has been proposed to detect QTL of agronomic interest in other crops with complex inheritance (Basile et al., 2019; Li et al., 2008).…”

Section: Introductionmentioning

confidence: 99%

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Association mapping to detect Phytophthora infestans resistance in tetraploid potato

et al. 2021

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Phytophthora infestans (Mont.) de Baryis found in all areas of potato (Solanum tuberosum L.) production in Argentine. Association mapping uses the existing diversity in a a population to identify loci responsible of phenotypic variation of a character. The studied population was formed by 159 genotypes of the germplasm collection of the Instituto Nacional de Tecnología Agropecuaria (INTA) Estación Experimental Agropecuaria (EEA) Balcarce potato breeding program. These genotypes are part of a larger population that was previously analyzed using single‐nucleotide polymorphism (SNP). Phenotypic assessment was carried out in two locations over 3 yr. Environmental conditions allowed the presence of the disease in all year × location combination. Phenotypic variability was found for relative area under disease progress curve (RAUDPC) and yield parameters as, Total weight and Seed weight. Association mapping was carried out on 159 genotypes. Eight significant associations were found using Bonferroni methodology, with values of −log(p) ranging between 4.61 and 5.42 located at chromosomes 3 (solcap_snp_c2_16679), 4 (solcap_snp_c1_6126 and solcap_snp_c2_38243, solcap_snp_c2_54077), 5 (solcap_snp_c2_42374), 6 (solcap_snp_c2_33228), 7 (solcap_snp_c1_7407), and 10 (solcap_snp_c2_63) and eleven significant associations using permutation tests with values of −log(p) between 4.5 and 6.42 located at chromosomes 1(solcap_snp_c1_5150), 2 (solcap_snp_c1_13923), 4 (solcap_snp_c1_4178, and solcap_snp_c2_50004), 5 (solcap_snp_c2_11829 and solcap_snp_c2_50532), 7 (solcap_snp_c2_35057 and solcap_snp_c1_10011), and 9 (solcap_snp_c2_1915). Some of the SNPs detected are adjacent to genes that encode enzymes that participate in metabolic pathways that are activated in response to interaction with pathogens. Those markers might be included in breeding programs related to improve late blight resistance in potato cultivars.

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Section: Discussionsupporting

confidence: 64%

Section: Introductionmentioning

confidence: 99%

Association mapping to detect Phytophthora infestans resistance in tetraploid potato

et al. 2021

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“…Other authors have previously reported QTLs and genomic regions associated with chlorophyll content, chlorophyll fluorescence and NDVI in water stress assays in other populations, indicating that these results are robust [ 71 , 72 , 73 ]. For yield-related parameters, we found markers related to yield, tuber number and reducing sugar content as in previous studies reporting QTLs associated with these traits [ 74 , 75 , 76 ].…”

Section: Discussionsupporting

confidence: 63%

Genome-Wide Association Study of Agronomic and Physiological Traits Related to Drought Tolerance in Potato

Alvarez-Morezuelas

Barandalla

Ritter

et al. 2023

Plants

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Potato (Solanum tuberosum L.) is often considered a water-sensitive crop and its production can be threatened by drought events, making water stress tolerance a trait of increasing interest. In this study, a panel of 144 tetraploid potato genotypes was evaluated for two consecutive years (2019 and 2020) to observe the variation of several physiological traits such as chlorophyll content and fluorescence, stomatal conductance, NDVI, and leaf area and circumference. In addition, agronomic parameters such as yield, tuber fresh weight, tuber number, starch content, dry matter and reducing sugars were determined. GGP V3 Potato array was used to genotype the population, obtaining a total of 18,259 high-quality SNP markers. Marker-trait association was performed using GWASpoly package in R software and Q + K linear mixed models were considered. This approach allowed us to identify eighteen SNP markers significantly associated with the studied traits in both treatments and years, which were related to genes with known functions. Markers related to chlorophyll content and number of tubers under control and stress conditions, and related to stomatal conductance, NDVI, yield and reducing sugar content under water stress, were identified. Although these markers were distributed throughout the genome, the SNPs associated with the traits under control conditions were found mainly on chromosome 11, while under stress conditions they were detected on chromosome 4. These results contribute to the knowledge of the mechanisms of potato tolerance to water stress and are useful for future marker-assisted selection programs.

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“…The soil water content of each pot was determined at 9 a.m. every morning using the gravimetric method described by Martin Enrique Tagliotti et. al [28], and replenished water according to the target soil water content. Sampling was performed after 0, 7, 14, and 21 days of drought treatment.…”

Section: Drought Treatment and Samplingmentioning

confidence: 99%

Time-course transcriptome and WGCNA analysis revealed the drought response mechanism of two sunflower inbred lines

Wang

Shi

et al. 2022

PLoS ONE

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Drought is one of the most serious abiotic stress factors limiting crop yields. Although sunflower is considered a moderate drought-tolerant plant, drought stress still has a negative impact on sunflower yield as cultivation expands into arid regions. The extent of drought stress is varieties and time-dependent, however, the molecular response mechanisms of drought tolerance in sunflower with different varieties are still unclear. Here, we performed comparative physiological and transcriptome analyses on two sunflower inbred lines with different drought tolerance at the seedling stage. The analysis of nine physiological and biochemical indicators showed that the leaf surface area, leaf relative water content, and cell membrane integrity of drought tolerance inbred line were higher than those of drought-sensitive inbred line under drought stress, indicating that DT had stronger drought resistance. Transcriptome analyses identified 24,234 differentially expressed genes (DEGs). Gene ontology (GO) analysis showed the up-regulated genes were mainly enriched in gibberellin metabolism and rRNA processing, while the down-regulated genes were mainly enriched in cell-wall, photosynthesis, and terpene metabolism. Kyoto Encyclopedia of Genes and Genomes(KEGG) pathway analysis showed genes related to GABAergic synapse, ribosome biogenesis were up-regulated, while genes related with amino sugar and nucleotide sugar metabolism, starch and sucrose metabolism, photosynthesis were down-regulated. Mapman analysis revealed differences in plant hormone-signaling genes over time and between samples. A total of 1,311 unique putative transcription factors (TFs) were identified from all DEGs by iTAK, among which the high abundance of transcription factor families include bHLH, AP2/ERF, MYB, C2H2, etc. Weighted gene co-expression network analysis (WGCNA) revealed a total of 2,251 genes belonging to two modules(blue 4, lightslateblue), respectively, which were significantly associated with six traits. GO and KEGG enrichment analysis of these genes was performed, followed by visualization with Cytoscape software, and the top 20 Hub genes were screened using the CytoHubba plugin.

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Genome‐wide association analysis of agronomical and physiological traits linked to drought tolerance in a diverse potatoes (Solanum tuberosum) panel

Cited by 10 publications

References 55 publications

Association mapping to detect Phytophthora infestans resistance in tetraploid potato

Association mapping to detect Phytophthora infestans resistance in tetraploid potato

Genome-Wide Association Study of Agronomic and Physiological Traits Related to Drought Tolerance in Potato

Time-course transcriptome and WGCNA analysis revealed the drought response mechanism of two sunflower inbred lines

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