References
- Anders, S., and W. Huber. 2010. Differential expression analysis for sequence count data. Genome Biol. 11(21). doi:https://doi.org/10.1186/gb-2010-11-10-r106.
- Ashraf, M., and M. R. Foolad. 2007. Roles of glycine betaine and proline in improving plant abiotic stress resistance. Environ. Exp. Bot. 59:206–216. doi:https://doi.org/10.1016/j.enve-xpbot.2005.12.006.
- Bradley, D. J., P. Kjellbom, and C. J. Lamb. 1992. Elicitor- and wound-induced oxidative cross-linking of a proline-rich plant cell wall protein: A novel, rapid defense response. Cell 70:21–30. doi:https://doi.org/10.1016/0092-8674(92)90530-P.
- Carvajal, F., F. Palma, J. M. Raquel, M. Jamilena, and D. Garrido. 2017. Unravelling the role of abscisic acid in chilling tolerance of zucchini during postharvest cold storage. Postharvest Biol. Technol. 133:26–35. doi:https://doi.org/10.1016/j.postharvbio.2017.07.004.
- Chen, C., Y. Zhang, Z. Xu, A. Luan, and Y. He. 2016. Transcriptome profiling of the pineapple under low temperature to facilitate its breeding for cold tolerance. PLoS One 11: e0163315.7. PMID: 27656892. doi:https://doi.org/10.1371/journal.pone.0163315.
- Chen, H., H. Shuai, J. Li, X. An, M. Yu, Y. Xu, R. Ma, and Z. Yu. 2017. Postharvest hot air and hot water treatments affect the antioxidant system in peach fruit during refrigerated storage. Postharvest Biol. Technol. 126:1–14. doi:https://doi.org/10.1016/j.postharvbio.2016.11.018.
- Chen, W. 2013. Effects of low temperature storage on chilling injure and endogenous hormones of postharvest peach fruit. J. Nucl. Agri. Sci. 27:1173–1178. doi:https://doi.org/10.11869/hnxb.2013.08.1173.
- Chinnusamy, V., J. Zhu, and J. K. Zhu. 2007. Cold stress regulation of gene expression in plants. Trends Plant Sci. 12:0–451. doi:https://doi.org/10.1016/j.tplants.2007.07.002.
- Conesa, A., S. Gotz, J. M. Garcia-Gomez, J. Terol, M. Talon, and M. Robles. 2005. Blast2go: A universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 21:3674–3676. doi:https://doi.org/10.1093/bioinformatics/bti610.
- Crisosto, C. H., F. G. Mitchell, and Z. G. Ju. 1999. Susceptibility to chilling injury of peach, nectarine, and plum cultivars grown in California. HortSci. 34:1116–1118. doi:https://doi.org/10.21273/HORTSCI.34.6.1116.
- Do, T. H., H. C. Nguyen, and K. H. Lin. 2018. The responses of antioxidant system in bitter melon, sponge gourd, and winter squash under flooding and chilling stresses. In AIP Conference Proceedings, vol. 1954, no. 1, p. 020001. AIP Publishing LLC. doi:https://doi.org/10.1063/1.5033378.
- Dong, W. M., S. M. Tian, and L. J. He. 2013. Anti-browning effect of 1-mcp and film treatments on lijiang snow peach during cold storage. Mod. Food Sci. Tech. 29:1796–1799+1795.
- Fan, W., G. Deng, H. Wang, H. Zhang, and P. Zhang. 2014. Elevated compartmentalization of Na+ into vacuoles improves salt and cold stress tolerance in sweet potato (Ipomoea batatas). Physiol. Plant. 154:560–571. doi:https://doi.org/10.1111/ppl.12301.
- Fruk, G., Z. Cmelik, T. Jemric, J. Hribar, and R. Vidrih. 2014. Pectin role in woolliness development in peaches and nectarines: A review. Sci. Hortic. 180:1–5. doi:https://doi.org/10.1016/j.scienta.2014.09.042.
- Ge, L. W., W. Ming, Y. Z. Hong, and Z. Hong. 2004. Effect of cold hardening on sod, pod activities and on contents of mda in different ploidy watermelon seedling. Acta Bot. Sin. 24:578–582. doi:https://doi.org/10.1088/1009-0630/6/5/011.
- Geo, P., X. Huang, F. Liang, A. Valentin, S. nRazvan, and K. Svetlana. 2003. Tigr gene indices clustering tools (tgicl): A software system for fast clustering of large est datasets. Bioinf. 19(5):651–652. doi:https://doi.org/10.1093/bioinformatics/btg034.
- Grabherr, M. G., B. J. Haas, M. Yassour, J. Z. Levin, D. A. Thompson, I. Amit, X. Adiconis, L. Fan, R. Raychowdhury, Q. Zeng, et al. 2011. Full-length trans- criptome assembly from RNA-Seq data without a reference genome. Nat. Biotechnol. 29:644–652. PMID: 21572440. doi:https://doi.org/10.1038/nbt.1883.
- Han, J., S. K. Thamilarasan, S. Natarajan, J. I. Park, M. Y. Chung, and I. S. Nou. 2016. De novo assembly and transcriptome analysis of bulb onion (Allium cepa L.) during cold acclimation using contrasting genotypes. PLoS One 11:e0161987. doi:https://doi.org/10.1371/journal.pone.0161987.
- He, X., Y. Wei, J. Kou, F. Xu, Z. Chen, and X. Shao. 2018. PpVIN2, an acid invertase gene family member, is sensitive to chilling temperature and affects sucrose metabolism in postharvest peach fruit. J. Plant Growth Regul. 86 (2). doi: https://doi.org/10.1007/s10725-018-0419-z.
- Huang, B. W., G. L. Wang, S. Sun, G. M. Xing, and A. S. Xiong. 2017. Regulation of abscisic acid biosynthesis and signal transduction during carrot growth and development. J. Hortic. Sci. Biotechnol. 93:1–8.27. doi:https://doi.org/10.1080/14620316.2017.1351311.
- Ishitani, M., L. Xiong, B. Stevenson, and J. K. Zhu. 1997. Genetic analysis of osmotic and cold stress signal transduction in Arabidopsis: Interactions and convergence of abscisic acid-dependent and abscisic acid-independent pathways. Plant Cell 9:1935–1949. doi:https://doi.org/10.1105/tpc.9.11.1935.
- Kim, S. A., S. Y. Ahn, and H. K. Yun. 2016. Transcriptome analysis of grapevine shoots exposed to chilling temperature for four weeks. Hortic. Environ. Biotechnol. 57:161–172. doi:https://doi.org/10.1007/s13580-015-0118-5.
- Klíma, M., P. Vítámvás, S. Zelenková, M. Vyvadilová, and I. T. Prášil. 2012. Dehydrin and proline content in Brassica napus and B. carinata under cold stress at two irradiances. Biologia Plantarum. 56:157–161. doi:https://doi.org/10.1007/s10535-011-0213-5.
- Koshioka, M., T. Horimoto, Y. Muramatsu, S. Kubota, and T. Hisamatsu. 2015. Florigenic effect of gibberellin on flowering according to period of chilling treatment in lavandula × intermedia. Hort. J. 85:MI–053. doi:https://doi.org/10.2503/hortj.MI-053.
- Liang, X., L. Zhang, S. K. Natarajan, and D. F. Becker. 2013. Proline mechanisms of stress survival. Antioxid. Redox Signal. 19:998–1011. doi:https://doi.org/10.1089/ars.2012.5074.
- Liu, H., W. Jiang, L. Zhou, B. Wang, and Y. Luo. 2005. The effects of 1‐methylcyclopro- pene on peach fruit (prunus persica L. cv. jiubao) ripening and disease resistance. Int. J. Food Sci. Technol. 40:1–7. doi:https://doi.org/10.1111/j.1365-2621.2004.00905.x.
- Lu, J., H. Bi, A. Zhang, T. Guo, Y. Li, and Y. Li. 2018. Comparative transcriptome analysis by RNA-seq of the regulation of low temperature responses in dendranthema morifolium. Hortic. Environ. Biotechnol. 59:383–395. doi:https://doi.org/10.1007/s13580-018-0042-y.
- Lukatkin, A. S., A. Brazaityte, C. Bobinas, and P. Duchovskis. 2012. Chilling injury in chilling-sensitive plants: A review. Agriculture 99:111–124.
- Lurie, S. 2021. Genomic and transcriptomic studies on chilling injury in peach and nectarine. Postharvest Biol. Technol. 174:111444. doi:https://doi.org/10.1016/j.postharvbio.2020.111444.
- Mata, C. I., B. Fabre, H. T. Parsons, M. Hertog, G. V. Raemdonck, and G. Baggerman. 2018. Ethylene receptors, ctrs and ein2 target protein identification and quantification through parallel reaction monitoring during tomato fruit ripening. other 9. doi:https://doi.org/10.3389/fpls.2018.01626.
- Mizoi, J., K. Shinozaki, and K. Yamaguchi-Shinozaki. 2012. Ap2/erf family transcription factors in plant abiotic stress responses. Biochim. Biophys. Acta Gene. Regul. Mech. 1819:86–96. doi:https://doi.org/10.1016/j.bbagrm.2011.08.004.
- Moellering, E. R., B. Muthan, and C. Benning. 2010. Freezing tolerance in plants requires lipid remodeling at the outer chloroplast membrane. Science 330:226–228. doi:https://doi.org/10.1126/science.1191803.
- Orvar, B. L., V. Sangwan, F. Omann, and R. S. Dhindsa. 2000. Early steps in cold sensing by plant cells: The role of actin cytoskeleton and membrane fluidity. Plant J. 23:785–794. doi:https://doi.org/10.1046/j.1365-313x.2000.00845.x.
- Ouellet, F. 2002. Out of the cold: Unveiling the elements required for low temperature induction of gene expression in plants. Vitro Cell. Dev. Biol. Plant. 38:396–403.31. doi:https://doi.org/10.2307/23321148.
- OuYang, F., J. F. Mao, J. Wang, S. Zhang, and Y. Li. 2015. Transcriptome analysis reveals that red and blue light regulate growth and phytohormone metabolism in Norway spruce [Picea abies (L.) Karst.]. PLoS One 10:e0127896. doi:https://doi.org/10.1371/journal.pone.0127896.
- Patton, A. J., S. M. Cunningham, J. J. Volenec, and Z. J. Reicher. 2007. Differences in freeze tolerance of zoysiagrasses: II. Carbohydrate and proline accumulation. Crop Sci. 47:2170. doi:https://doi.org/10.2135/cropsci2006.12.0784.
- Peng, T., X. Zhu, N. Duan, and J. H. Liu. 2014. Ptrbam1, a β-amylase-coding gene of poncirus trifoliata, is a cbf regulon member with function in cold tolerance by modulating soluble sugar levels. Plant Cell Environ. 37: 48. PMID: 24905016. doi:https://doi.org/10.1111/pce.12384.
- Shi, J., B. Yan, X. Lou, H. Ma, and S. Ruan. 2017. Comparative transcriptome analysis reveals the transcriptional alterations in heat-resistant and heat-sensitive sweet maize (Zea mays L.) varieties under heat stress. BMC Plant Biol. 17:15–26. doi:https://doi.org/10.1186/s12870-017-0973-y.
- Shinozaki, Y. K., and K. Shinozaki. 2006. Transcriptional regulatory networks in cellular responses and tolerance to dehydration and cold stresses. Annu. Rev. Plant Biol. 57:781–803. doi:https://doi.org/10.1146/annurev.arplant.57.032905.105444.
- Singh, K. B., R. C. Foley, and O. S. Luis. 2002. Transcription factors in plant defense and stress responses. Curr. Opin. Plant Biol. 5:430–436. doi:https://doi.org/10.1016/S1369-5266(02)00289-3.
- Supek, F., M. Bošnjak, N. Škunca, and T. Šmuc. 2011. REVIGO summarizes and visualizes long lists of gene ontology terms. PloS One 6: e21800. PMID: 21789182. doi:https://doi.org/10.1371/journal.pone.0021800.
- Thomashow, M. F. 1999. Plant cold acclimation: Freezing tolerance genes and regulatory mechanisms. Annu. Rev. Plant Biol. 50:571–599. doi:https://doi.org/10.1146/annurev.arplant.50.1.571.
- Tong, Z., Z. Gao, F. Wang, J. Zhou, and Z. Zhang. 2009. Selection of reliable reference genes for gene expression studies in peach using real-time PCR. BMC Mol. Biol. 10:71. doi:https://doi.org/10.1186/1471-2199-10-71.
- Tsuda, K., S. Tsvetanov, S. Takumi, N. Mori, A. Atanassov, and C. Nakamura. 2000. New members of a cold-responsive group-3 lea/rab-related cor gene family from common wheat (Triticum aestivum L.). Genes Genet. Syst. 75:179–188.32. doi:https://doi.org/10.1266/ggs.75.179.
- Vágújfalvi, A., G. Galiba, L. Cattivelli, and J. Dubcovsky. 2003. The cold-regulated transcriptional activator Cbf3 is linked to the frost-tolerance locus Fr-A2 on wheat chromosome 5A. Mol. Genet. Genom. 269:60–67. doi:https://doi.org/10.1007/s00438-003-0806-6.
- Viswanathan, C., J. K. Zhu, D. J. Bowles, P. J. Lillford, D. A. Rees, and I. A. Shanks. 2002. Molecular genetic analysis of cold-regulated gene transcription. Philosophical transactions of the royal society of London. Series B. Bioll Sci. 357:877–886. doi:https://doi.org/10.1098/rstb.2002.1076.
- Von Mollendorff, L. J., and O. T. De Villiers. 1988. Physiological changes associated with the development of woolliness in ‘Peregrine’ peaches during low-temperature storage. Hort Sci. 63:47–51. doi:https://doi.org/10.1080/14620316.1988.11515826.
- Wang, J., X. Zhou, Q. Zhou, S. Cheng, B. Wei, and S. Ji. 2017. Low temperature conditioning alleviates peel browning by modulating energy and lipid metabolisms of Nanguo pears during shelf life after cold storage. Postharvest Biol. Technol. 131:10–15. doi:https://doi.org/10.1016/j.postharvbio.2017.05.001.
- Wang, K., X. Shao, Y. Gong, Y. Zhu, H. Wang, X. Zhang, D. Yu, F. Yu, Z. Qiu, and H. Lu. 2013. The meta -bolism of soluble carbohydrates related to chilling injury in peach fruit exposed to cold stress. J. Postharvest Biol. Technol. 86:53–61. doi:https://doi.org/10.1016/j.postharvbio.2013.06.020.
- Yamaguchi-Shinozaki, K., and K. Shinozaki. 2005. Organization of cis-acting regulatory elements in osmotic-and cold-stress-responsive promoters. Trends Plant Sci. 10: 88–94. PMID: 15708346. doi:https://doi.org/10.1016/j.tplants.2004.12.012.
- Yan, J., L. Yu, J. Xuan, Y. Lu, S. Lu, and W. Zhu. 2016. De novo transcriptome sequencing and gene expression profiling of spinach (Spinacia oleracea L.) leaves under heat stress. Sci. Rep. 6:19473. doi:https://doi.org/10.1038/srep19473.
- Yang, Q., J. Rao, S. Yi, K. Meng, J. Wu, and Y. Hou. 2012. Antioxidant enzyme activity and chilling injury during low-temperature storage of Kiwifruit cv. Hongyang exposed to gradual postharvest cooling. Hortic. Environ. Biotechnol. 53:505–512. doi:https://doi.org/10.1007/s13580-012-0101-8.
- Yao, W., T. Xu, S. U. Farooq, P. Jin, and Y. Zheng. 2018. Glycine betaine treatment alleviates chilling injury in zucchini fruit (Cucurbita pepo L.) by modulating antioxidant enzymes and membrane fatty acid metabolism. Postharvest Biol. Technol. 144:20–28. doi:https://doi.org/10.1016/j.postharvbio.2018.05.007.
- Yong, L., H. F. Zou, W. Wei, Y.-J. Hao, A.-G. Tian, J. Huang, Y.-F. Liu, J.-S. Zhang, and S.-Y. Chen. 2008. Soybean GmbZIP44, GmbZIP62 and GmbZIP78 genes function as negative regulator of ABA signaling and confer salt and freezing tolerance in transgenic Arabidopsis. Planta 228 (2):225–240. doi:https://doi.org/10.1007/s00425-008-0731-3.
- Yu, F., X. Shao, L. Yu, F. Xu, and H. Wang. 2015. Proteomic analysis of postharvest peach fruit subjected to chilling stress or non-chilling stress temperatures during storage. J. Scientia Hortic. 197:72–89. doi:https://doi.org/10.1016/j.doi:scienta.2015.10.045.
- Zhang, T., X. Zhao, W. Wang, L. Huang, X. Liu, Y. Zong, L. Zhu, D. Yang, B. Fu, and Z. Li. 2014. Deep transcriptome sequencing of rhizome and aerial-shoot in Sorghum propinquum. Plant Mol. Bio. 84:315–327. doi:https://doi.org/10.1007/s11103-013-0135-z.
- Zhang, X., J. Zhang, W. Zhang, T. Yang, Y. Xiong, and D. Che. 2016. Transcriptome sequencing and de novo analysis of Rosa multiflora under cold stress. Acta Physiol. Plant. 38:164. doi:https://doi.org/10.1007/s11738-016-2184-9.
- Zhou, H. W., L. I. Dong, R. Ben-Arie, and S. Lurie. 2001. The role of ethylene in the prevention of chilling injury in nectarines. J. Plant Physiol. 158:61. doi:https://doi.org/10.1078/0176-1617-00126.
- Zhou, Q. Y., A. G. Tian, H. F. Zou, Z.-M. Xie, G. Lei, J. Huang, C.-M. Wang, H.-W. Wang, J.-S. Zhang, and S.-Y. Chen. 2008. Soybean WRKY-type transcription factor genes, GmWRKY13, GmWRKY21, and GmWRKY54, confer differential tolerance to abiotic stresses in transgenic Arabidopsis plants. Plant Biotechnol. 6 (5):486–503. doi:https://doi.org/10.1111/j.1467-7652.2008.00336.x.
- Zou, C., W. Jiang, and D. Yu. 2010. Male gametophyte-specific WRKY34 transcription factor mediates cold sensitivity of mature pollen in Arabidopsis. J. Exp. Bot. 61 (14):3901–3914. doi:https://doi.org/10.1093/jxb/erq204.