Responses of genes of DNA repair, alternative oxidase, and pro-/antioxidant state in Arabidopsis thaliana with altered expression of AOX1a to gamma irradiation

References

• Beauchamp CO, Fridovich I. 1971. Superoxide dismutase: improved assays and an assay applicable to acrylamide gels. Anal Biochem. 44(1):276–287.
   PubMed Web of Science ®Google Scholar
• Bellincampi D, Dipierro N, Salvi G, Cervone F, De Lorenzo G. 2000. Extracellular H2O2 induced by oligogalacturonides is not involved in the inhibition of the auxin-regulated rolB gene expression in tobacco leaf explants. Plant Physiol. 122(4):1379–1385.
   PubMed Web of Science ®Google Scholar
• Boyes DC, Zayed AM, Ascenzi R, McCaskill AJ, Hoffman NE, Davis KR, Görlach J. 2001. Growth stage-based phenotypic analysis of Arabidopsis: a model for high throughput functional genomics in plants. Plant Cell. 13(7):1499–1510.
   PubMed Web of Science ®Google Scholar
• Bradford MM. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem. 72:248–254.
   PubMed Web of Science ®Google Scholar
• Caplin N, Willey N. 2018. Ionizing radiation, higher plants, and radioprotection: from acute high doses to chronic low doses. Front Plant Sci. 9:847.
   PubMed Web of Science ®Google Scholar
• Chaitanya KSK, Naithani SC. 1994. Role of superoxide, lipid peroxidation and superoxide dismutase in membrane perturbation during loss of viability in seeds of Shorea robusta Gaertn. New Phytol. 126(4):623–627.
   Web of Science ®Google Scholar
• Chaudhuri AR, Nussenzweig A. 2017. The multifaceted roles of PARP1 in DNA repair and chromatin remodelling. Nat Rev Mol Cell Biol. 18(10):610–621.
   PubMed Web of Science ®Google Scholar
• Clifton R, Millar AH, Whelan J. 2006. Alternative oxidases in Arabidopsis: A comparative analysis of differential expression in the gene family provides new insights into function of non-phosphorylating bypasses. Biochim Biophys Acta. 1757(7):730–741.
   PubMed Web of Science ®Google Scholar
• Czechowski T, Stitt M, Altmann T, Udvardi MK, Scheible WR. 2005. Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiol. 139(1):5–17.
   PubMed Web of Science ®Google Scholar
• Feng H, Guan D, Sun K, Wang Y, Zhang T, Wang R. 2013. Expression and signal regulation of the alternative oxidase genes under abiotic stresses. Acta Biochim Biophys Sin. 45(12):985–994.
   Google Scholar
• Garmash EV, Belykh ES, Velegzhaninov IO. 2021. The gene expression profiles of mitochondrial respiratory components in Arabidopsis plants with differing amounts of ALTERNATIVE OXIDASE1a under high intensity light. Plant Signal Behav. 16(3):1864962.
   PubMed Web of Science ®Google Scholar
• Garmash EV, Velegzhaninov IO, Ermolina KV, Rybak AV, Malyshev RV. 2020. Altered levels of AOX1a expression result in changes in metabolic pathways in Arabidopsis thaliana plants acclimated to low dose rates of ultraviolet B radiation. Plant Sci. 291:110332.
   PubMed Web of Science ®Google Scholar
• Garmash EV, Velegzhaninov IO, Grabelnych OI, Borovik OA, Silina EV, Voinikov VK, Golovko TK. 2017. Expression profiles of genes for mitochondrial respiratory energy-dissipating systems and antioxidant enzymes in wheat leaves during de-etiolation. J Plant Physiol. 215:110–121.
   PubMed Web of Science ®Google Scholar
• Giraud E, Ho LH, Clifton R, Carroll A, Estavillo G, Tan YF, Howell KA, Ivanova A, Pogson BJ, Millar AH, et al. 2008. The absence of ALTERNATIVE OXIDASE1a in Arabidopsis results in acute sensitivity to combined light and drought stress. Plant Physiol. 147(2):595–610.
   PubMed Web of Science ®Google Scholar
• Goh EJ, Kim JB, Kim WJ, Ha BK, Kim SH, Kang SY, Seo YW, Kim DS. 2014. Physiological changes and anti-oxidative responses of Arabidopsis plants after acute and chronic γ-irradiation. Radiat Environ Biophys. 53(4):677–693.
   PubMed Web of Science ®Google Scholar
• Gu Z, Pan W, Chen W, Qichao L, Wu Q, Lv Z, Cheng X, Ge X. 2019. New perspectives on the plant PARP family: Arabidopsis PARP3 is inactive, and PARP1 exhibits predominant poly (ADP-ribose) polymerase activity in response to DNA damage. BMC Plant Biol. 19(1):364.
   PubMed Web of Science ®Google Scholar
• Gudkov SV, Grinberg MA, Sukhov V, Vodeneev V. 2019. Effect of ionizing radiation on physiological and molecular processes in plants. J Environ Radioact. 202:8–24.
   PubMed Web of Science ®Google Scholar
• Hase Y, Satoh K, Seito H, Oono Y. 2020. Genetic consequences of acute/chronic gamma and carbon ion irradiation of Arabidopsis thaliana. Front Plant Sci. 11:336.
   PubMed Web of Science ®Google Scholar
• Hwang SG, Kim DS, Kim JB, Hwang JE, Park HM, Kim JH, Jang CS. 2016. Transcriptome analysis of reproductive-stage Arabidopsis plants exposed gamma-ray irradiation at various doses. Int J Radiat Biol. 92(8):451–465.
   PubMed Web of Science ®Google Scholar
• Keunen E, Schellingen K, Van Der Straeten D, Remans T, Colpaert J, Vangronsveld J, Cuypers A. 2015. ALTERNATIVE OXIDASE1a modulates the oxidative challenge during moderate Cd exposure in Arabidopsis thaliana leaves. J Exp Bot. 66(10):2967–2977.
   PubMed Web of Science ®Google Scholar
• Kim DS, Kim JB, Goh EJ, Kim WJ, Kim SH, Seo YW, Jang CS, Kang SY. 2011. Antioxidant response of Arabidopsis plants to gamma irradiation: Genome-wide expression profiling of the ROS scavenging and signal transduction pathways. J Plant Physiol. 168(16):1960–1971.
   PubMed Web of Science ®Google Scholar
• Kim JH, Kim JE, Lee MH, Lee SW, Cho EJ, Chung BY. 2013. Integrated analysis of diverse transcriptomic data from Arabidopsis reveals genetic markers that reliably and reproducibly respond to ionizing radiation. Gene. 518(2):273–279.
   PubMed Web of Science ®Google Scholar
• Kim JH. 2019. Chromatin remodeling and epigenetic regulation in plant DNA damage repair. Int J Mol Sci. 20(17):4093.
   Web of Science ®Google Scholar
• Kim SH, Song M, Lee KJ, Hwang SG, Jang CS, Kim JB, Kim SH, Ha BK, Kang SY, Kim DS. 2012. Genome-wide transcriptome profiling of ROS scavenging and signal transduction pathways in rice (Oryza sativa L.) in response to different types of ionizing radiation. Mol Biol Rep. 39(12):11231–11248.
   PubMed Web of Science ®Google Scholar
• Kühn K, Yin G, Duncan O, Law SR, Kubiszewski-Jakubiak S, Kaur P, Meyer E, Wang Y, Colas Des Francs Small C, Giraud E, et al. 2015. Decreasing electron flux through the cytochrome and/or alternative respiratory pathways triggers common and distinct cellular responses dependent on growth conditions. Plant Physiol. 167(1):228–250.
   PubMed Web of Science ®Google Scholar
• Libik M, Konieczny R, Surowka E, Miszalski Z. 2005. Superoxide dismutase activity in organs of Mesembryanthenum crystallinum L: at different stages of CAM development. Acta Biologica. 47:199–204.
   Google Scholar
• Liu J, Li Z, Wang Y, Xing D. 2014. Overexpression of ALTERNATIVE OXIDASE1a alleviates mitochondria-dependent programmed cell death induced by aluminium phytotoxicity in Arabidopsis. J Exp Bot. 65(15):4465–4478.
   PubMed Web of Science ®Google Scholar
• Livak KJ, Schmittgen TD. 2001. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods. 25(4):402–408.
   PubMed Web of Science ®Google Scholar
• Maréchal A, Zou L. 2013. DNA damage sensing by the ATM and ATR kinases. Cold Spring Harb Perspect Biol. 5(9):a012716.
   PubMed Web of Science ®Google Scholar
• Meinke DW, Sussex IM. 1979. Embryo-lethal mutants of Arabidopsis thaliana. A model system for genetic analysis of plant embryo development. Dev Biol. 72(1):50–61.
   PubMed Web of Science ®Google Scholar
• Millenaar FF, Lambers H. 2003. The alternative oxidase: in vivo regulation and function. Plant Biol. 5(1):2–15.
   Web of Science ®Google Scholar
• Rissel D, Peiter E. 2019. Poly(ADP-Ribose) polymerases in plants and their human counterparts: parallels and peculiarities. Int J Mol Sci. 20(7):1638.
   Web of Science ®Google Scholar
• Ryu TH, Kim JK, Kim JI, Kim JH. 2018. Transcriptome-based biological dosimetry of gamma radiation in Arabidopsis using DNA damage response genes. J Environ Radioact. 181:94–101.
   PubMed Web of Science ®Google Scholar
• Sánchez-Guerrero A, Del-Saz NF, Florez-Sarasa I, Ribas-Carbó M, Fernie AR, Jiménez A, Sevilla F. 2019. Coordinated responses of mitochondrial antioxidative enzymes, respiratory pathways and metabolism in Arabidopsis thaliana thioredoxin trxo1 mutants under salinity. Environ Exp Bot. 162:212–222.
   Web of Science ®Google Scholar
• Selinski J, Hartmann A, Deckers-Hebestreit G, Day DA, Whelan J, Scheibe R. 2018. Alternative oxidase isoforms are differentially activated by tricarboxylic acid cycle intermediates. Plant Physiol. 176(2):1423–1432.
   PubMed Web of Science ®Google Scholar
• Strodtkötter I, Padmasree K, Dinakar C, Speth B, Niazi PS, Wojtera J, Voss I, Do PT, Nunes-Nesi A, Fernie AR, et al. 2009. Induction of the AOX1D isoform of alternative oxidase in A. thaliana T-DNA insertion lines lacking isoform AOX1A is insufficient to optimize photosynthesis when treated with antimycin A. Mol Plant. 2(2):284–297.
   PubMed Web of Science ®Google Scholar
• Szal B, Lukawska K, Zdolińska I, Rychter AM. 2009. Chilling stress and mitochondrial genome rearrangement in the MSC16 cucumber mutant affect the alternative oxidase and antioxidant defense system to a similar extent. Physiol Plant. 137(4):435–445.
   PubMed Web of Science ®Google Scholar
• Umbach AL, Fiorani F, Siedow JN. 2005. Characterization of transformed Arabidopsis with altered alternative oxidase levels and analysis of effects on reactive oxygen species in tissue. Plant Physiol. 139(4):1806–1820.
   PubMed Web of Science ®Google Scholar
• van de Walle J, Horemans E, Saenen N, Van Hees M, Wannijn J, Nauts R, van Gompel A, Vangronsveld J, Vandenhove H, Cuypers A. 2016. Arabidopsis plants exposed to gamma radiation in two successive generations show a different oxidative stress response. J Environ Radioact. 165:270–279.
   PubMed Web of Science ®Google Scholar
• Vanhoudt N, Horemans N, Wannijn J, Nauts R, Van Hees M, Vandenhove H. 2014. Primary stress responses in Arabidopsis thaliana exposed to gamma radiation. J Environ Radioact. 129:1–6.
   PubMed Web of Science ®Google Scholar
• Vanlerberghe GC, Dahal K, Alber NA, Chadee A. 2020. Photosynthesis, respiration and growth: A carbon and energy balancing act for alternative oxidase. Mitochondrion. 52:197–211.
   PubMed Web of Science ®Google Scholar
• Ye J, Coulouris G, Zaretskaya I, Cutcutache I, Rozen S, Madden TL. 2012. Primer-BLAST: a tool to design target-specific primers for polymerase chain reaction. BMC Bioinformatics. 13:134.
   PubMed Web of Science ®Google Scholar
• Yoshida K, Noguchi K. 2009. Differential gene expression profiles of the mitochondrial respiratory components in illuminated Arabidopsis leaves. Plant Cell Physiol. 50(8):1449–1462.
   PubMed Web of Science ®Google Scholar
• Zhang L, Zheng F, Qi W, Wang T, Ma L, Qiu Z, Li J. 2016. Irradiation with low-dose gamma ray enhances tolerance to heat stress in Arabidopsis seedlings. Ecotoxicol Environ Saf. 128:181–188.
   PubMed Web of Science ®Google Scholar