Research Article
Ahn, S. Y., Le Myint, Z., Kim, S. A., Kim, S. H., Yun, H. K. (2024) Selection of differentially expressed genes responding to high temperatures in ‘Fuji’ apple tree leaves by a transcriptome analysis. Hortic Sci Technol 42:654-666.
10.7235/HORT.20240050Andersen, C. L., Jensen, J. L., Ørntoft, T. F. (2004) Normalization of real-time quantitative reverse transcription-PCR data: A model-based variance estimation approach to identify genes suited for normalization, applied to bladder and colon cancer data sets. Cancer Res 64:5245-5250.
10.1158/0008-5472.CAN-04-0496Bland, J. M., Altman, D. G. (1986) Statistical methods for assessing agreement between two methods of clinical measurement. Lancet 1:307-310.
10.1016/S0140-6736(86)90837-8Bowen, J., Ireland, H. S., Crowhurst, R., Luo, Z., Watson, A. E., Foster, T., Gapper, N., Giovannoni, J. J., Mattheis, J. P., Watkins, C., Rudell, D., Johnston, J. W., Schaffer, R. J. (2014) Selection of low-variance expressed Malus x domestica (apple) genes for use as quantitative PCR reference genes (housekeepers). Tree Genet Genomes 10:751-759.
10.1007/s11295-014-0720-6Bu, Y.-F., Wang, S., Li, C.-Z., Fang, Y., Zhang, Y., Li, Q.-Y., Wang, H.-B., Chen, X.-S., Feng, S.-Q. (2022) Transcriptome analysis of apples in high-temperature treatments reveals a role of MdLBD37 in the inhibition of anthocyanin accumulation. Int J Mol Sci 23:3766.
10.3390/ijms23073766Bustin, S. A., Ruijter, J. M., van den Hoff, M. J. B., Kubista, M., Pfaffl, M. W., Shipley, G. L., Tran, N., Rödiger, S., Untergasser, A., Mueller, R., Nolan, T., Milavec, M., Burns, M. J., Huggett, J. F., Vandesompele, J., Wittwer, C. T. (2025) MIQE 2.0: Revision of the minimum information for publication of quantitative real-time PCR experiments guidelines. Clin Chem 71:634-651.
10.1093/clinchem/hvaf043Clarida (2026) Reference gene finder (geNorm). Accessed in https://clarida.bio/tools/genorm on 2 July 2026.
Daccord, N., Celton, J.-M., Linsmith, G., Becker, C., Choisne, N., Schijlen, E., van de Geest, H., Bianco, L., Micheletti, D., Velasco, R., Di Pierro, E. A., Gouzy, J., Rees, D. J. G., Guérif, P., Muranty, H., Durel, C.-E., Laurens, F., Lespinasse, Y., Gaillard, S., Aubourg, S., Quesneville, H., Weigel, D., van de Weg, E., Troggio, M., Bucher, E. (2017) High-quality de novo assembly of the apple genome and methylome dynamics of early fruit development. Nat Genet 49:1099-1106.
10.1038/ng.3886Espley, R. V., Hellens, R. P., Putterill, J., Stevenson, D. E., Kutty-Amma, S., Allan, A. C. (2007) Red colouration in apple fruit is due to the activity of the MYB transcription factor, MdMYB10. Plant J 49:414-427.
10.1111/j.1365-313X.2006.02964.xHeide, O. M., Rivero, R., Sønsteby, A. (2020) Temperature control of shoot growth and floral initiation in apple (Malus × domestica Borkh.). CABI Agric Biosci 1:8.
10.1186/s43170-020-00007-6Hellemans, J., Mortier, G., De Paepe, A., Speleman, F., Vandesompele, J. (2007) qbase relative quantification framework and software for management and automated analysis of real-time quantitative PCR data. Genome Biol 8:R19.
10.1186/gb-2007-8-2-r19Intergovernmental Panel on Climate Change (IPCC) (2021) Climate change 2021: The physical science basis. Contribution of Working Group I to the Sixth Assessment Report of the Intergovernmental Panel on Climate Change. Cambridge University Press, Cambridge, United Kingdom and New York, NY, USA.
Kumar, G., Singh, A. K. (2015) Reference gene validation for qRT-PCR based gene expression studies in different developmental stages and under biotic stress in apple. Sci Hortic 197:597-606.
10.1016/j.scienta.2015.10.025Lin, L. I. (1989) A concordance correlation coefficient to evaluate reproducibility. Biometrics 45:255-268.
10.2307/2532051Perini, P., Pasquali, G., Margis-Pinheiro, M., Oliveira, P., Revers, L. (2014) Reference genes for transcriptional analysis of flowering and fruit ripening stages in apple (Malus× domestica Borkh.). Mol Breed 34:829-842.
10.1007/s11032-014-0078-3Pfaffl, M. W., Tichopad, A., Prgomet, C., Neuvians, T. P. (2004) Determination of stable housekeeping genes, differentially regulated target genes and sample integrity: BestKeeper - Excel-based tool using pair-wise correlations. Biotechnol Lett 26:509-515.
10.1023/B:BILE.0000019559.84305.47Storch, T. T., Pegoraro, C., Finatto, T., Quecini, V., Rombaldi, C. V., Girardi, C. L. (2015) Identification of a novel reference gene for apple transcriptional profiling under postharvest conditions. PLoS ONE 10:e0120599.
10.1371/journal.pone.0120599Vandesompele, J., De Preter, K., Pattyn, F., Poppe, B., Van Roy, N., De Paepe, A., Speleman, F. (2002) Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol 3:research0034.
10.1186/gb-2002-3-7-research0034Velasco, R., Zharkikh, A., Affourtit, J., Dhingra, A., Cestaro, A., Kalyanaraman, A., Fontana, P., Bhatnagar, S. K., Troggio, M., Pruss, D., Salvi, S., Pindo, M., Baldi, P., Castelletti, S., Cavaiuolo, M., Coppola, G., Costa, F., Cova, V., Dal Ri, A., Goremykin, V., Komjanc, M., Longhi, S., Magnago, P., Malacarne, G., Malnoy, M., Micheletti, D., Moretto, M., Perazzolli, M., Si-Ammour, A., Vezzulli, S., Zini, E., Eldredge, G., Fitzgerald, L. M., Gutin, N., Lanchbury, J., Macalma, T., Mitchell, J. T., Reid, J., Wardell, B., Kodira, C., Chen, Z., Desany, B., Niazi, F., Palmer, M., Koepke, T., Jiwan, D., Schaeffer, S., Krishnan, V., Wu, C., Chu, V. T., King, S. T., Vick, J., Tao, Q., Mraz, A., Stormo, A., Stormo, K., Bogden, R., Ederle, D., Stella, A., Vecchietti, A., Kater, M. M., Masiero, S., Lasserre, P., Lespinasse, Y., Allan, A. C., Bus, V., Chagné, D., Crowhurst, R. N., Gleave, A. P., Lavezzo, E., Fawcett, J. A., Proost, S., Rouzé, P., Sterck, L., Toppo, S., Lazzari, B., Hellens, R. P., Durel, C.-E., Gutin, A., Bumgarner, R. E., Gardiner, S. E., Skolnick, M., Egholm, M., Van de Peer, Y., Salamini, F., Viola, R. (2010) The genome of the domesticated apple (Malus × domestica Borkh.). Nat Genet 42:833-839.
10.1038/ng.654Ye, J., Coulouris, G., Zaretskaya, I., Cutcutache, I., Rozen, S., Madden, T. L. (2012) Primer-Blast: A tool to design target-specific primers for polymerase chain reaction. BMC Bioinform 13:134.
10.1186/1471-2105-13-134Yoon, J.-Y., Jeong, J.-H., Choi, S.-K. (2020) Validation of reference genes for quantifying changes in physiological gene expression in apple tree under cold stress and virus infection. Res Plant Dis 26:144-158.
10.5423/RPD.2020.26.3.144Zhou, Z., Cong, P., Tian, Y., Zhu, Y. (2017) Using RNA-seq data to select reference genes for normalizing gene expression in apple roots. PLoS ONE 12:e0185288.
10.1371/journal.pone.0185288- Publisher :Agriculture and Life Sciences Research Institute, Kangwon National University
- Publisher(Ko) :None
- Journal Title :Journal of Agricultural, Life and Environmental Sciences
- Volume : 38
- No :3
- Pages :392-406
- Received Date : 2026-08-25
- Revised Date : 2026-09-03
- Accepted Date : 2026-09-04
- DOI :https://doi.org/10.22698/jales.20260027


Journal of Agricultural, Life and Environmental Sciences







