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Dergiler / European Journal of Biology / 2026 / Volume: 85 Issue: 2

Decoding Stress Responses in Barley Lines: Insights Using Next-Generation Sequencing from BOMI and RISO-1508

Esma Ulusoy(USKUDAR UNIVERSITY)0000-0001-9925-9562
Cristina Barrero Sicilia(University of Hertfordshire)0000-0001-7544-5619
Sayfa
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Yayın Tarihi
2026-06-12
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Conclusion: The findings indicate that environmental changes disrupt metabolic pathways in heat stress adaptation due to genotype variations, emphasizing the need to improve heat tolerance in barley.

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Amaç & Hipotez:Objective: This study investigated how stress factors (abscisic acid:ABA and heat shock) impact barley genotypes BOMI and its isogenic mutant, RISO-1508, by analyzing gene expression and transcriptomics.
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Temel Bulgular & Veri:This study is the first to assess the effects of heat stress on BOMI/RISO-1508 cells, revealing significant genetic changes under heat stress.
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Sonuç & Katkı:Conclusion: The findings indicate that environmental changes disrupt metabolic pathways in heat stress adaptation due to genotype variations, emphasizing the need to improve heat tolerance in barley.
🔬Tür:Research Article
📍Kapsam:Genişletilmiş Akademik Örneklem
⚙️Değişkenler:Hordeum vulgare L. · Barley · BOMI

Abstract

Objective: This study investigated how stress factors (abscisic acid:ABA and heat shock) impact barley genotypes BOMI and its isogenic mutant, RISO-1508, by analyzing gene expression and transcriptomics. Materials and Methods: The impact of ABA on stress during barley germination was studied, followed by heat shock stress application. After treatment, total RNA was extracted, and cDNA libraries were created for transcriptomic analysis using Oxford Nanopore Technology. Genes with altered expression levels in heat-stressed barley varieties were identified. The most highly expressed DEGs were further examined through GO and KEGG enrichment analyses. Results: High concentrations of ABA almost completely inhibited barley germination and negatively impacted leaf growth, whereas root growth was less affected. This study is the first to assess the effects of heat stress on BOMI/RISO-1508 cells, revealing significant genetic changes under heat stress. Both genotypes showed similar protective mechanisms by significantly increasing heat shock proteins (HSPs) under heat stress, with BOMI uniquely upregulating five HSPs. A notable difference was observed in fatty acid and energy metabolism, indicating a more robust stress response in the BOMI group. Compared with BOMI, RISO-1508 showed greater downregulation of key photosynthetic genes, such as ATP synthase subunit beta and ribulose biphosphate carboxylase. Under HS, ABA receptor PYL4-like (LOC123424614) was significantly increased in BOMI, unlike in RISO-1508, indicating that BOMI has a distinct ABA stress response under HS. Conclusion: The findings indicate that environmental changes disrupt metabolic pathways in heat stress adaptation due to genotype variations, emphasizing the need to improve heat tolerance in barley.

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Bu Makaleye Atıf Yap

Ulusoy, E., Sicilia, C. B. (2026). Decoding Stress Responses in Barley Lines: Insights Using Next-Generation Sequencing from BOMI and RISO-1508. European Journal of Biology, Volume: 85 Issue: 2. https://doi.org/10.26650/EurJBiol.2026.1828061

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Kaynakça (69)

  1. Vinje MA, Simmons CH. Characterization of barley (Horduem vulgare) lys3 mutants identifies genes under the regulation of the prolamin-box binding transcription factor and elucidates its role in endosperm promoter methylation during grain development. Mol Genet Genomics. 2024;299(1):17. doi:10.1007/s00438-024-02112-x google scholar
  2. The State of Agricultural Commodity Markets 2024. FAO; 2024. doi:10.4060/ cd2144en google scholar
  3. Davies WJ, Bennett MJ. Achieving more crop per drop. Nat Plants. 2015;1(8):15118. doi:10.1038/nplants.2015.118 google scholar
  4. Ray DK, Gerber JS, MacDonald GK, West PC. Climate variation explains a third of global crop yield variability. Nat Commun. 2015;6(1):5989. doi:10.1038/ ncomms6989 google scholar
  5. Challinor AJ, Watson J, Lobell DB, Howden SM, Smith DR, Chhetri N. A meta- analysis of crop yield under climate change and adaptation. Nat Clim Change. 2014;4(4):287-291. doi:10.1038/nclimate2153 google scholar
  6. Redden R. Wild relatives for the crop improvement challenges of climate change: The adaptation range of Crops. In: Redden R, Yadav SS, Maxted N, Dulloo ME, Guarino L, Smith P, eds. Crop Wild Relatives and Climate Change. 1st ed. Wiley; 2015:61-79. doi:10.1002/9781118854396.ch4 google scholar
  7. Baum M, Von Korff M, Guo P, et al. Molecular approaches and breeding strategies for drought tolerance in barley. In: Varshney RK, Tuberosa R, eds. Genomics-Assisted Crop Improvement. Springer Netherlands; 2007:51-79. doi:10.1007/978-1-4020-6297-1_3 google scholar
  8. Rae SJ, Macaulay M, Ramsay L, et al. Molecular barley breeding. Euphytica. 2007;158(3):295-303. doi:10.1007/s10681-006-9166-8 google scholar
  9. Khakimov B, Rasmussen MA, Kannangara RM, Jespersen BM, Munck L, Engelsen SB. From metabolome to phenotype: GC-MS metabolomics of developing mutant barley seeds reveals effects of growth, temperature and genotype. Sci Rep. 2017;7(1):8195. doi:10.1038/s41598-017-08129-0 google scholar
  10. Fernie AR, Schauer N. Metabolomics-assisted breeding: A viable option for crop improvement? Trends Genet. 2009;25(1):39-48. doi:10.1016/j.tig.2008.10.010 google scholar
  11. Ricroch AE, Bergé JB, Kuntz M. Evaluation of genetically engineered crops using transcriptomic, proteomic, and metabolomic profiling techniques. Plant Physiol. 2011;155(4):1752-1761. doi:10.1104/pp.111.173609 google scholar
  12. An YQ, Lin L. Transcriptional regulatory programs underlying barley germination and regulatory functions of gibberellin and abscisic acid. BMC Plant Biol. 2011;11(1):105. doi:10.1186/1471-2229-11-105 google scholar
  13. Collin A, Daszkowska-Golec A, Kurowska M, Szarejko I. Barley ABI5 (Abscisic Acid INSENSITIVE 5) is involved in abscisic acid-dependent drought response. Front Plant Sci. 2020;11:1138. doi:10.3389/fpls.2020.01138 google scholar
  14. Dawson IK, Russell J, Powell W, Steffenson B, Thomas WTB, Waugh R. Barley: A translational model for adaptation to climate change. New Phytol. 2015;206(3):913-931. doi:10.1111/nph.13266 google scholar
  15. Guo Q, Li X, Niu L, Jameson PE, Zhou W. Transcription-associated metabolomic adjustments in maize occur during combined drought and cold stress. Plant Physiol. 2021;186(1):677-695. doi:10.1093/plphys/kiab050 google scholar
  16. Mahalingam R, Duhan N, Kaundal R, Smertenko A, Nazarov T, Bregitzer P. Heat and drought induced transcriptomic changes in barley varieties with contrasting stress response phenotypes. Front Plant Sci. 2022;13:1066421. doi:10.3389/fpls.2022.1066421 google scholar
  17. Wang Y, Chang H, Hu S, et al. Plastid casein kinase 2 knockout reduces abscisic acid (ABA) sensitivity, thermotolerance, and expression of ABA- and heat- stress-responsive nuclear genes. J Exp Bot. 2014;65(15):4159-4175. doi:10.1093/ jxb/eru190 google scholar
  18. Scharf KD, Berberich T, Ebersberger I, Nover L. The plant heat stress transcription factor (Hsf) family: Structure, function and evolution. Biochim Biophys Acta BBA-Gene Regul Mech. 2012;1819(2):104-119. doi:10.1016/ j.bbagrm.2011.10.002 google scholar
  19. Wang W, Vinocur B, Shoseyov O, Altman A. Role of plant heat-shock proteins and molecular chaperones in the abiotic stress response. Trends Plant Sci. 2004;9(5):244-252. doi:10.1016/j.tplants.2004.03.006 google scholar
  20. Mangelsen E, Kilian J, Harter K, Jansson C, Wanke D, Sundberg E. Transcriptome analysis of high-temperature stress in developing barley caryopses: Early stress responses and effects on storage compound biosynthesis. Mol Plant. 2011;4(1):97-115. doi:10.1093/mp/ssq058 google scholar
  21. Mishra SK, Chaudhary C, Baliyan S, et al. Heat-stress-responsive HvHSFA2e gene regulates the heat and drought tolerance in barley through modulation of phytohormone and secondary metabolic pathways. Plant Cell Rep. 2024;43(7):172. doi:10.1007/s00299-024-03251-6 google scholar
  22. Xue GP, Sadat S, Drenth J, McIntyre CL. The heat shock factor family from Triticum aestivum in response to heat and other major abiotic stresses and their role in regulation of heat shock protein genes. J Exp Bot. 2014;65(2):539-557. doi:10.1093/ jxb/ert399 google scholar
  23. Bailey-Serres J, Parker JE, Ainsworth EA, Oldroyd GED, Schroeder JI. Genetic strategies for improving crop yields. Nature. 2019;575(7781):109-118. doi:10.1038/ s41586-019-1679-0 google scholar
  24. Munck L, Karlsson KE, Hagberg A, Eggum BO. Gene for improved nutritional value in barley seed protein. Science. 1970;168(3934):985-987. doi:10.1126/ science.168.3934.985 google scholar
  25. Doll H, Køie B, Eggum BO. Induced high lysine mutants in barley. Radiat Bot. 1974;14(2):73-80. doi:10.1016/S0033-7560(74)90179-3 google scholar
  26. Doll H. Inheritance of the high-lysine character of a barley mutant. Hereditas. 1973;74(2):293-294. doi:10.1111/j.1601-5223.1973.tb01131.x google scholar
  27. Ingversen J, Køie B. Lysine-rich proteins in high-lysine Hordeum vulgare grain. Phytochemistry. 1973;12(5):1107-1111. doi:10.1016/0031-9422(73)85024-1 google scholar
  28. Karlsson KE. Linkage studies in a gene for high lysine content in Risoe barley mutant 1508. Barley Genet Newsl. 1977;7(ref.2):40-43. google scholar
  29. Tallberg A. Comparison between screening methods for lysine with the use of a barley material with a varying amino acid composition. Acta Agric Scand. 1979;30(1):26-32. doi:10.1080/00015128009435693 google scholar
  30. Kreis M, Doll H. Starch and prolamin level in single and double high‐lysine barley mutants. Physiol Plant. 1980;48(1):139-143. doi:10.1111/ j.1399-3054.1980.tb03233.x google scholar
  31. Hejgaard J, Boisen S. High-lysine proteins in Hiproly barley breeding: Identification, nutritional significance and new screening methods. Hereditas. 1980;93(2):311-320. doi:10.1111/j.1601-5223.1980.tb01369.x google scholar
  32. Kreis M. Primer dependent and independent forms of soluble starch synthetase from developing barley endosperms. Planta. 1980;148(4):412-416. doi:10.1007/BF00388131 google scholar
  33. Batterham ES. Availability and utilization of amino acids for growing pigs. Nutr Res Rev. 1992;5(1):1-18. doi:10.1079/NRR19920004 google scholar
  34. Bose U, Juhász A, Yu R, et al. Proteome and nutritional shifts observed in hordein double-mutant barley lines. Front Plant Sci. 2021;12:718504. doi:10.3389/ fpls.2021.718504 European Journal of Biology, 85 (2): 159–179 178ABA and Heat Stress Responses in Barley | Ulusoy & Barrero Sicilia, 2026 google scholar
  35. Mena M, Cejudo FJ, Isabel-Lamoneda I, Carbonero P. A Role for the DOF transcription factor BPBF in the regulation of gibberellin-responsive genes in barley aleurone. Plant Physiol. 2002;130(1):111-119. doi:10.1104/pp.005561 google scholar
  36. Isabel‐LaMoneda I, Diaz I, Martinez M, Mena M, Carbonero P. SAD: A new DOF protein from barley that activates transcription of a cathepsin B‐like thiol protease gene in the aleurone of germinating seeds. Plant J. 2003;33(2):329-340. doi:10.1046/j.1365-313X.2003.01628.x google scholar
  37. Yoshida T, Fujita Y, Sayama H, et al. AREB1, AREB2, and ABF3 are master transcription factors that cooperatively regulate ABRE-dependent ABA signaling involved in drought stress tolerance and require ABA for full activation. Plant J. 2010;61(4):672-685. doi:10.1111/j.1365-313X.2009.04092.x google scholar
  38. Nakashima K, Yamaguchi-Shinozaki K. ABA signaling in stress-response and seed development. Plant Cell Rep. 2013;32(7):959-970. doi:10.1007/ s00299-013-1418-1 google scholar
  39. Yao C, Zhang F, Sun X, et al. Effects of s-abscisic acid (S-ABA) on seed germination, seedling growth, and Asr1 gene expression under drought stress in maize. J Plant Growth Regul. 2019;38(4):1300-1313. doi:10.1007/ s00344-019-09934-9 google scholar
  40. Finkelstein RR, Gampala SSL, Rock CD. Abscisic acid signaling in seeds and seedlings. Plant Cell. 2002;14(suppl 1):S15-S45. doi:10.1105/tpc.010441 google scholar
  41. Fujita Y, Fujita M, Shinozaki K, Yamaguchi-Shinozaki K. ABA-mediated transcriptional regulation in response to osmotic stress in plants. J Plant Res. 2011;124(4):509-525. doi:10.1007/s10265-011-0412-3 google scholar
  42. Penfield S. Temperature perception and signal transduction in plants. New Phytol. 2008;179(3):615-628. doi:10.1111/j.1469-8137.2008.02478.x google scholar
  43. Hu Y, Chen X, Shen X. Regulatory network established by transcription factors transmits drought stress signals in plants. Stress Biol. 2022;2(1):26. doi:10.1007/ s44154-022-00048-z google scholar
  44. Moreno‐Risueno MÁ, Díaz I, Carrillo L, Fuentes R, Carbonero P. The HvDOF19 transcription factor mediates the abscisic acid‐dependent repression of hydrolase genes in germinating barley aleurone. Plant J. 2007;51(3):352-365. doi:10.1111/j.1365-313X.2007.03146.x google scholar
  45. Ashburner M, Ball CA, Blake JA, et al. Gene Ontology: Tool for the unification of biology. Nat Genet. 2000;25(1):25-29. doi:10.1038/75556 google scholar
  46. Kanehisa M. KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res. 2000;28(1):27-30. doi:10.1093/nar/28.1.27 google scholar
  47. Cook F, Hughes A, Nibau C, et al. Barley lys3 mutants are unique amongst shrunken-endosperm mutants in having abnormally large embryos. J Cereal Sci. 2018;82:16-24. doi:10.1016/j.jcs.2018.04.013 google scholar
  48. Howard TP, Fahy B, Craggs A, et al. Barley mutants with low rates of endosperm starch synthesis have low grain dormancy and high susceptibility to preharvest sprouting. New Phytol. 2012;194(1):158-167. doi:10.1111/j.1469-8137.2011.04040.x google scholar
  49. Fidler J, Graska J, Gietler M, et al. PYR/PYL/RCAR receptors play a vital role in the abscisic-acid-dependent responses of plants to external or internal stimuli. Cells. 2022;11(8):1352. doi:10.3390/cells11081352 google scholar
  50. Bharath P, Gahir S, Raghavendra AS. Abscisic acid-induced stomatal closure: An important component of plant defense against abiotic and biotic stress. Front Plant Sci. 2021;12:615114. doi:10.3389/fpls.2021.615114 google scholar
  51. Zhang X, Wang X, Zhuang L, Gao Y, Huang B. Abscisic acid mediation of drought priming‐enhanced heat tolerance in tall fescue (Festuca arundinacea) and Arabidopsis. Physiol Plant. 2019;167(4):488-501. doi:10.1111/ppl.12975 google scholar
  52. Charng Y yung, Liu H chin, Liu N yu, et al. A Heat-inducible transcription factor, HsfA2, is required for extension of acquired thermotolerance in Arabidopsis. Plant Physiol. 2007;143(1):251-262. doi:10.1104/pp.106.091322 google scholar
  53. Pratx L, Dakhiya Y, Nissen R, et al. Conserved heat shock factors HvHSFA2 and HvHSFA3 control barley heat stress memory through diverged mechanisms. Nat Commun. 2025;16(1):10411. doi:10.1038/s41467-025-66651-6 google scholar
  54. Mascher M, Gundlach H, Himmelbach A, et al. A chromosome conformation capture ordered sequence of the barley genome. Nature. 2017;544(7651):427-433. doi:10.1038/nature22043 google scholar
  55. Landi S, Capasso G, Ben Azaiez FE, et al. Different roles of heat shock proteins (70 kDa) During abiotic stresses in barley (Hordeum vulgare) genotypes. Plants. 2019;8(8):248. doi:10.3390/plants8080248 google scholar
  56. Marmiroli N, Pavesi A, Cola GD, et al. Identification, characterization, and analysis of cDNA and genomic sequences encoding two different small heat shock proteins in Hordeum vulgare. Genome. 1993;36(6):1111-1118. doi:10.1139/ g93-148 google scholar
  57. Pandey B, Kaur A, Gupta OP, Sharma I, Sharma P. Identification of HSP20 gene family in wheat and barley and their differential expression profiling under heat stress. Appl Biochem Biotechnol. 2015;175(5):2427-2446. doi:10.1007/ s12010-014-1420-2 google scholar
  58. Süle A, Vanrobaeys F, Hajós G, Van Beeumen J, Devreese B. Proteomic analysis of small heat shock protein isoforms in barley shoots. Phytochemistry. 2004;65(12):1853-1863. doi:10.1016/j.phytochem.2004.03.030 google scholar
  59. Chaudhary R, Baranwal VK, Kumar R, Sircar D, Chauhan H. Genome-wide identification and expression analysis of Hsp70, Hsp90, and Hsp100 heat shock protein genes in barley under stress conditions and reproductive development. Funct Integr Genomics. 2019;19(6):1007-1022. doi:10.1007/s10142-019-00695-y google scholar
  60. Alafari HA, Abd-Elgawad ME. Differential expression gene/protein contribute to heat stress-responsive in Tetraena propinqua in Saudi Arabia. Saudi J Biol Sci. 2021;28(9):5017-5027. doi:10.1016/j.sjbs.2021.05.016 google scholar
  61. Essemine J, Qu M, Mi H, Zhu XG. Response of chloroplast NAD(P)H dehydrogenase-mediated cyclic electron flow to a shortage or lack in ferredoxin-quinone oxidoreductase-dependent pathway in rice following short-term heat stress. Front Plant Sci. 2016;7. doi:10.3389/fpls.2016.00383 google scholar
  62. Yang S, Fang G, Ruan B, et al. Identification of thermo-sensitive chloroplast development gene TSCD5 required for rice chloroplast development under high temperature. Agriculture. 2023;13(3):563. doi:10.3390/agriculture13030563 google scholar
  63. Trösch R, Ries F, Westrich LD, et al. Fast and global reorganization of the chloroplast protein biogenesis network during heat acclimation. Plant Cell. 2022;34(3):1075-1099. doi:10.1093/plcell/koab317 google scholar
  64. Zubo YaO, Lysenko EA, Aleinikova AYu, Kusnetsov VV, Pshibytko NL. Changes in the transcriptional activity of barley plastome genes under heat shock. Russ J Plant Physiol. 2008;55(3):293-300. doi:10.1134/S1021443708030011 google scholar
  65. Danilova MN, Kudryakova NV, Andreeva AA, Doroshenko AS, Pojidaeva ES, Kusnetsov VV. Differential impact of heat stress on the expression of chloroplast-encoded genes. Plant Physiol Biochem. 2018;129:90-100. doi:10.1016/j.plaphy.2018.05.023 google scholar
  66. Landau AM, Lokstein H, Scheller HV, Lainez V, Maldonado S, Prina AR. A cytoplasmically inherited barley mutant is defective in photosystem assembly due to a temperature-sensitive defect in ycf3 splicing. Plant Physiol. 2009;151(4):1802-1811. doi:10.1104/pp.109.147843 google scholar
  67. Paul P, Mesihovic A, Chaturvedi P, et al. Structural and functional heat stress responses of chloroplasts of Arabidopsis thaliana. Genes. 2020;11(6):650. doi:10.3390/genes11060650 google scholar
  68. Chaudhary R, Baliyan S, Sirohi P, et al. Overexpression of barley heat stress transcription factor HvHsfA6a provide thermotolerance by thermopriming. Mol Biol. Preprint posted online March 8, 2024. doi:10.1101/2024.03.06.583688 google scholar
  69. Fragkostefanakis S, Röth S, Schleiff E, Scharf K. Prospects of engineering thermotolerance in crops through modulation of heat stress transcription factor and heat shock protein networks. Plant Cell Environ. 2015;38(9):1881-1895. doi:10.1111/pce.12396 google scholar