Drought response of tuber genes in processing potatoes (Solanum tuberosum L.) in Japan.
Drought stress
Potato
QPCR
TAS14
Transcriptome analysis
Tuber
Journal
Molecular biology reports
ISSN: 1573-4978
Titre abrégé: Mol Biol Rep
Pays: Netherlands
ID NLM: 0403234
Informations de publication
Date de publication:
27 Sep 2024
27 Sep 2024
Historique:
received:
20
05
2024
accepted:
17
09
2024
medline:
27
9
2024
pubmed:
27
9
2024
entrez:
27
9
2024
Statut:
epublish
Résumé
Limited crop production due to lower rainfall has a major impact on the supply and demand of food for the human population. In potato (Solanum tuberosum L.), one of the major crops, there is also concern about a lack of production due to drought stress. Especially the cultivar "Toyoshiro" suitable for processing, has significant reduction in drought yield. Therefore, it is necessary to understand the mechanism of gene expression changes that occur in potato "Toyoshiro" plants and tubers during drought. Seed potatoes were split in half and one was used as a control plant (CT), and the other was used as a drought-stressed plant (DS). CT was watered daily, and DS watered off to mimic the weather conditions of the Tokachi-Obihiro region in 2021. These tubers were harvested at week 14 and the transcriptome was analyzed. DS plants showed 423 downregulated genes and 197 upregulated genes compared to CT. Factors related to cell wall modification, heat stress response, and phytosterol metabolism were detected among the genes whose expression changed. Moreover, the expression of "Abscisic acid and environmental stress-inducible protein TAS14 like (TAS14)," a molecule reported to be upregulated under drought stress, was also upregulated, and was upregulated expression in all strains that reproduced drought. The localization of this molecule in the nucleus and plasma membrane was confirmed in a mCherry-tagged TAS14 mutant line. Our findings contribute to understanding the survival strategy system of Japanese processing potatoes in response to drought stress.
Sections du résumé
BACKGROUND
BACKGROUND
Limited crop production due to lower rainfall has a major impact on the supply and demand of food for the human population. In potato (Solanum tuberosum L.), one of the major crops, there is also concern about a lack of production due to drought stress. Especially the cultivar "Toyoshiro" suitable for processing, has significant reduction in drought yield. Therefore, it is necessary to understand the mechanism of gene expression changes that occur in potato "Toyoshiro" plants and tubers during drought.
METHODS AND RESULTS
RESULTS
Seed potatoes were split in half and one was used as a control plant (CT), and the other was used as a drought-stressed plant (DS). CT was watered daily, and DS watered off to mimic the weather conditions of the Tokachi-Obihiro region in 2021. These tubers were harvested at week 14 and the transcriptome was analyzed. DS plants showed 423 downregulated genes and 197 upregulated genes compared to CT. Factors related to cell wall modification, heat stress response, and phytosterol metabolism were detected among the genes whose expression changed. Moreover, the expression of "Abscisic acid and environmental stress-inducible protein TAS14 like (TAS14)," a molecule reported to be upregulated under drought stress, was also upregulated, and was upregulated expression in all strains that reproduced drought. The localization of this molecule in the nucleus and plasma membrane was confirmed in a mCherry-tagged TAS14 mutant line.
CONCLUSIONS
CONCLUSIONS
Our findings contribute to understanding the survival strategy system of Japanese processing potatoes in response to drought stress.
Identifiants
pubmed: 39331257
doi: 10.1007/s11033-024-09953-0
pii: 10.1007/s11033-024-09953-0
doi:
Substances chimiques
Plant Proteins
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
1020Informations de copyright
© 2024. The Author(s), under exclusive licence to Springer Nature B.V.
Références
Umezawa T, Fujita M, Fujita Y, Yamaguchi-Shinozaki K, Shinozaki K (2006) Engineering drought tolerance in plants: discovering and tailoring genes to unlock the future. Curr Opin Biotechnol 17(2):113–122
pubmed: 16495045
doi: 10.1016/j.copbio.2006.02.002
Stark JC, Love SL, King BA, Marshall JM, Bohl WH, Salaiz T (2013) Potato cultivar response to Seasonal Drought patterns. Am J Potato Res 90(3):207–216
doi: 10.1007/s12230-012-9285-9
Mori K, Asano K, Tamiya S, Nakao T, Mori M (2015) Challenges of breeding potato cultivars to grow in various environments and to meet different demands. Breed Sci 65(1):3–16
pubmed: 25931976
pmcid: 4374562
doi: 10.1270/jsbbs.65.3
Bashir K, Matsui A, Rasheed S, Seki M (2019) Recent advances in the characterization of plant transcriptomes in response to drought, salinity, heat, and cold stress. F1000Res 8:658–669
Mould R, Rutherfoord R (1980) The effect of moisture stress during consecutive growth stages on tuber yield and quality of BP1 potatoes (Solanum tuberosum L). Crop Prod 9:89–92
Van Oort PAJ, Timmermans BGH, Meinke H, Van Ittersum MK (2012) Key weather extremes affecting potato production in the Netherlands. Eur J Agron 37(1):11–22
doi: 10.1016/j.eja.2011.09.002
Evers D, Lefèvre I, Legay S, Lamoureux D, Hausman J-F, Rosales ROG, Marca LRT, Hoffmann L, Bonierbale M, Schafleitner R (2010) Identification of drought-responsive compounds in potato through a combined transcriptomic and targeted metabolite approach. J Exp Bot 61(9):2327–2343
pubmed: 20406784
doi: 10.1093/jxb/erq060
Vasquez-Robinet C, Mane SP, Ulanov AV, Watkinson JI, Stromberg VK, De Koeyer D, Schafleitner R, Willmot DB, Bonierbale M, Bohnert HJ et al (2008) Physiological and molecular adaptations to drought in Andean potato genotypes. J Exp Bot 59(8):2109–2123
pubmed: 18535297
pmcid: 2413284
doi: 10.1093/jxb/ern073
Alvarez-Morezuelas A, Barandalla L, Ritter E, Ruiz de Galarreta JI (2022) Transcriptome analysis of two tetraploid potato varieties under water-stress conditions. Int J Mol Sci 23(22):13905
pubmed: 36430379
pmcid: 9694765
doi: 10.3390/ijms232213905
Andre CM, Schafleitner R, Guignard C, Oufir M, Aliaga CAA, Nomberto G, Hoffmann L, Hausman J-F, Evers D, Larondelle Y (2009) Modification of the health-promoting value of Potato tubers Field grown under Drought stress: emphasis on dietary antioxidant and glycoalkaloid contents in five native Andean cultivars (Solanum tuberosum L). J Agric Food Chem 57(2):599–609
pubmed: 19105644
doi: 10.1021/jf8025452
Albiski F, Najla S, Sanoubar R, Alkabani N, Murshed R (2012) In vitro screening of potato lines for drought tolerance. Physiol Mol Biol Plants 18(4):315–321
pubmed: 24082493
pmcid: 3550549
doi: 10.1007/s12298-012-0127-5
SHIMODA S, KANAYA M, KOMINAMI Y, TSUJI H (2023) Decline in tuber number and weight of potato (Solanum tuberosum L) associated with drought in 2020 and 2021 in a humid region of eastern Hokkaido. J Agricultural Meteorol 79(2):59–68
doi: 10.2480/agrmet.D-22-00031
Dong T, Zhu M, Yu J, Han R, Tang C, Xu T, Liu J, Li Z (2019) RNA-Seq and iTRAQ reveal multiple pathways involved in storage root formation and development in sweet potato (Ipomoea batatas L). BMC Plant Biol 19(1):136
pubmed: 30971210
pmcid: 6458706
doi: 10.1186/s12870-019-1731-0
Gong L, Zhang H, Gan X, Zhang L, Chen Y, Nie F, Shi L, Li M, Guo Z, Zhang G et al (2015) Transcriptome profiling of the potato (Solanum tuberosum L.) plant under drought stress and water-stimulus conditions. PLoS ONE 10(5):e0128041
pubmed: 26010543
pmcid: 4444143
doi: 10.1371/journal.pone.0128041
Tang R, Gupta SK, Niu S, Li XQ, Yang Q, Chen G, Zhu W, Haroon M (2020) Transcriptome analysis of heat stress response genes in potato leaves. Mol Biol Rep 47(6):4311–4321
pubmed: 32488578
doi: 10.1007/s11033-020-05485-5
Hironaka K, Ishibashi K-i, Minami M, Koaze H (2001) Unequal distribution of sugar and starch contents within Japanese processing potatoes during storage. Food Preservation Sci 27(6):331–338
doi: 10.5891/jafps.27.331
Kim D, Paggi JM, Park C, Bennett C, Salzberg SL (2019) Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype. Nat Biotechnol 37(8):907–915
pubmed: 31375807
pmcid: 7605509
doi: 10.1038/s41587-019-0201-4
Hoopes G, Meng X, Hamilton JP, Achakkagari SR, de Alves Freitas Guesdes F, Bolger ME, Coombs JJ, Esselink D, Kaiser NR, Kodde L et al (2022) Phased, chromosome-scale genome assemblies of tetraploid potato reveal a complex genome, transcriptome, and predicted proteome landscape underpinning genetic diversity. Mol Plant 15(3):520–536
pubmed: 35026436
doi: 10.1016/j.molp.2022.01.003
Liao Y, Smyth GK, Shi W (2013) featureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics 30(7):923–930
pubmed: 24227677
doi: 10.1093/bioinformatics/btt656
Love MI, Huber W, Anders S (2014) Moderated estimation of Fold change and dispersion for RNA-seq data with DESeq2. Genome Biol 15(12):550
pubmed: 25516281
pmcid: 4302049
doi: 10.1186/s13059-014-0550-8
Benjamini Y, Hochberg Y (1995) Controlling the false Discovery rate: a practical and powerful Approach to multiple testing. J Roy Stat Soc: Ser B (Methodol) 57(1):289–300
doi: 10.1111/j.2517-6161.1995.tb02031.x
Wu T, Hu E, Xu S, Chen M, Guo P, Dai Z, Feng T, Zhou L, Tang W, Zhan L et al (2021) clusterProfiler 4.0: a universal enrichment tool for interpreting omics data. Innov 2(3):100141
Nicot N, Hausman JF, Hoffmann L, Evers D (2005) Housekeeping gene selection for real-time RT-PCR normalization in potato during biotic and abiotic stress. J Exp Bot 56(421):2907–2914
pubmed: 16188960
doi: 10.1093/jxb/eri285
Tang X, Zhang N, Si H, Calderón-Urrea A (2017) Selection and validation of reference genes for RT-qPCR analysis in potato under abiotic stress. Plant Methods 13:85
pubmed: 29075311
pmcid: 5644265
doi: 10.1186/s13007-017-0238-7
Xie F, Wang J, Zhang B (2023) RefFinder: a web-based tool for comprehensively analyzing and identifying reference genes. Funct Integr Genom 23(2):125
doi: 10.1007/s10142-023-01055-7
Pfaffl MW (2001) A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res 29(9):e45
pubmed: 11328886
pmcid: 55695
doi: 10.1093/nar/29.9.e45
Chaiyong S, Sutthanont N, Menakongka A (2022) Evaluation of in vitro cytotoxic property against cholangiocarcinoma cell line and GC/MS analysis from leaf of erythrophleum succirubrum gagnep. Asian Pac J Cancer Prev 23(9):3187–3194
pubmed: 36172683
pmcid: 9810296
doi: 10.31557/APJCP.2022.23.9.3187
Sugiyama M, Kitagawa C, Igarashi M, Tsumura K, Nakamura A, Matsumura Y, Samoto M (2024) Relationship between soybean protein composition and breaking load of heat-induced gel prepared from acid-precipitated soybean flour. LWT 198:115999
doi: 10.1016/j.lwt.2024.115999
Hanano S, Goto K (2011) Arabidopsis TERMINAL FLOWER1 is involved in the regulation of flowering fime and inflorescence development through transcriptional repression. Plant Cell 23(9):3172–3184
pubmed: 21890645
pmcid: 3203435
doi: 10.1105/tpc.111.088641
Shinohara N, Nishitani K (2021) Cryogenian origin and subsequent diversification of the plant cell-wall enzyme XTH family. Plant Cell Phys 62(12):1874–1889
doi: 10.1093/pcp/pcab093
MacMillan CP, Taylor L, Bi Y, Southerton SG, Evans R, Spokevicius A (2015) The fasciclin-like arabinogalactan protein family of Eucalyptus grandis contains members that impact wood biology and biomechanics. New Phytol 206(4):1314–1327
pubmed: 25676073
doi: 10.1111/nph.13320
Salleh FM, Evans K, Goodall B, Machin H, Mowla SB, Mur LA, Runions J, Theodoulou FL, Foyer CH, Rogers HJ (2012) A novel function for a redox-related LEA protein (SAG21/AtLEA5) in root development and biotic stress responses. Plant Cell Environ 35(2):418–429
pubmed: 21736589
doi: 10.1111/j.1365-3040.2011.02394.x
Parra MM, del Pozo O, Luna R, Godoy JA, Pintor-Toro JA (1996) Structure of the dehydrin tas14 gene of tomato and its developmental and environmental regulation in transgenic tobacco. Plant Mol Biol 32(3):453–460
pubmed: 8980494
doi: 10.1007/BF00019097
Xufeng X, Yuanfeng H, Ming Z, Shucheng S, Haonan Z, Weifeng Z, Fei G, Caijun W, Shuying F (2023) Transcriptome profiling reveals the genes involved in tuberous root expansion in Pueraria (Pueraria montana var. Thomsonii). BMC Plant Biol 23(1):338
pubmed: 37365513
pmcid: 10291767
doi: 10.1186/s12870-023-04303-x
Rose JKC, Braam J, Fry SC, Nishitani K (2002) The XTH Family of enzymes involved in Xyloglucan Endotransglucosylation and Endohydrolysis: current perspectives and a New Unifying nomenclature. Plant Cell Physiol 43(12):1421–1435
pubmed: 12514239
doi: 10.1093/pcp/pcf171
Lee D, Polisensky DH, Braam J (2005) Genome-wide identification of touch- and darkness-regulated Arabidopsis genes: a focus on calmodulin-like and XTH genes. New Phytol 165(2):429–444
pubmed: 15720654
doi: 10.1111/j.1469-8137.2004.01238.x
Hidvégi N, Gulyás A, Dobránszki J, Teixeira da Silva JA (2020) Mining sequences with similarity to XTH genes in the Solanum tuberosum L. transcriptome: introductory step for identifying homologous XTH genes. Plant Signal Behav 15(10):1797294
pubmed: 32727267
pmcid: 8550622
doi: 10.1080/15592324.2020.1797294
Shafee T, Bacic A, Johnson K (2020) Evolution of sequence-diverse disordered regions in a protein family: order within the Chaos. Mol Biol Evol 37(8):2155–2172
pubmed: 32359163
doi: 10.1093/molbev/msaa096
Muñiz M, Zurzolo C (2014) Sorting of GPI-anchored proteins from yeast to mammals–common pathways at different sites? J Cell Sci 127(Pt 13):2793–2801
pubmed: 24906797
Johnson KL, Jones BJ, Bacic A, Schultz CJ (2003) The fasciclin-like arabinogalactan proteins of Arabidopsis. A multigene family of putative cell adhesion molecules. Plant Physiol 133(4):1911–1925
pubmed: 14645732
pmcid: 300743
doi: 10.1104/pp.103.031237
Liu E, MacMillan CP, Shafee T, Ma Y, Ratcliffe J, van de Meene A, Bacic A, Humphries J, Johnson KL (2020) Fasciclin-like arabinogalactan-protein 16 (FLA16) is required for stem development in arabidopsis. Front Plant Sci 11:615392
pubmed: 33362841
pmcid: 7758453
doi: 10.3389/fpls.2020.615392
Godoy JA, Lunar R, Torres-Schumann S, Moreno J, Rodrigo RM, Pintor-Toro JA (1994) Expression, tissue distribution and subcellular localization of dehydrin TAS14 in salt-stressed tomato plants. Plant Mol Biol 26(6):1921–1934
pubmed: 7858227
doi: 10.1007/BF00019503
Martínez-Andújar C, Martínez-Pérez A, Albacete A, Martínez-Melgarejo PA, Dodd IC, Thompson AJ, Mohareb F, Estelles-Lopez L, Kevei Z, Ferrández-Ayela A et al (2021) Overproduction of ABA in rootstocks alleviates salinity stress in tomato shoots. Plant Cell Environ 44(9):2966–2986
pubmed: 34053093
doi: 10.1111/pce.14121
van Muijen D, Anithakumari AM, Maliepaard C, Visser RG, van der Linden CG (2016) Systems genetics reveals key genetic elements of drought induced gene regulation in diploid potato. Plant Cell Environ 39(9):1895–1908
pubmed: 27353051
doi: 10.1111/pce.12744
Kappachery S, Yu JW, Baniekal-Hiremath G, Park SW (2013) Rapid identification of potential drought tolerance genes from Solanum tuberosum by using a yeast functional screening method. C R Biol 336(11–12):530–545
pubmed: 24296077
doi: 10.1016/j.crvi.2013.09.006
Hernández-Sánchez IE, Maruri-López I, Ferrando A, Carbonell J, Graether SP, Jiménez-Bremont JF (2015) Nuclear localization of the dehydrin OpsDHN1 is determined by histidine-rich motif. Front Plant Sci 6:702
pubmed: 26442018
pmcid: 4561349
doi: 10.3389/fpls.2015.00702
Danyluk J, Perron A, Houde M, Limin A, Fowler B, Benhamou N, Sarhan F (1998) Accumulation of an acidic dehydrin in the vicinity of the plasma membrane during cold acclimation of wheat. Plant Cell 10(4):623–638
pubmed: 9548987
pmcid: 144014
doi: 10.1105/tpc.10.4.623
Bouvier-Navé P, Husselstein T, Desprez T, Benveniste P (1997) Identification of cDNAs encoding sterol methyl-transferases involved in the second methylation step of plant sterol biosynthesis. Eur J Biochem 246(2):518–529
pubmed: 9208946
doi: 10.1111/j.1432-1033.1997.t01-1-00518.x
Surina S, Yamagami A, Miyaji T, Chagan Z, Chung KM, Mitsuda N, Nishida K, Tachibana R, Zhu Z, Miyakawa T et al (2024) BIL9 promotes both plant growth via BR Signaling and Drought stress resistance by binding with the transcription factor HDG11. Plant Cell Physiol 00(00):1–15
Yang D, Shin HY, Kang HK, Shang Y, Park SY, Jeong DH, Nam KH (2023) Reciprocal inhibition of expression between RAV1 and BES1 modulates plant growth and development in Arabidopsis. J Integr Plant Biol 65(5):1226–1240
pubmed: 36511120
doi: 10.1111/jipb.13431