Abelenda JA, Cruz-Oro E, Franco-Zorrilla JM, Prat S (2016) Potato StCONSTANS-like1 suppresses storage organ formation by directly activating the FT-like StSP5G repressor. Curr Biol 26:872–881. https://doi.org/10.1016/j.cub.2016.01.066

Article  CAS  PubMed  Google Scholar 

Ahmad D, Zhang Z, Rasheed H, Xu X, Bao J (2022) Recent advances in molecular improvement for potato tuber traits. Int J Mol Sci 23(17):9982. https://doi.org/10.3390/ijms23179982

Article  CAS  PubMed  PubMed Central  Google Scholar 

Ain-Ali QU, Mushtaq N, Amir R, Gul A, Tahir M, Munir F (2021) Genome-wide promoter analysis, homology modeling and protein interaction network of dehydration responsive element binding (DREB) gene family in Solanum tuberosum. PLoS ONE 16(12):e0261215. https://doi.org/10.1371/journal.pone.0261215

Article  CAS  PubMed  PubMed Central  Google Scholar 

Arsenault J-L, Poulcur S, Messier C, Guay R (1995) WinRHIZOTM, a root measuring system with a unique overlap correction method. HortScience 30(4):906D – 906

Article  Google Scholar 

Begum S, Jing S, Yu L, Sun X, Wang E, Abu Kawochar M, Qin J, Liu J, Song B (2022) Modulation of JA signalling reveals the influence of StJAZ1-like on tuber initiation and tuber bulking in potato. Plant J 109(4):952–964. https://doi.org/10.1111/tpj.15606

Article  CAS  PubMed  Google Scholar 

Buckseth T, Sharma AK, Pandey KK, Singh BP, Muthuraj R (2016) Methods of pre-basic seed potato production with special reference to aeroponics-a review. Sci Hortic 204:79–87. https://doi.org/10.1016/j.scienta.2016.03.041

Article  Google Scholar 

Carrera E, Bou J, García-Martínez JL, Prat S (2000) Changes in GA 20-oxidase gene expression strongly affect stem length, tuber induction and tuber yield of potato plants. Plant J 22(3):247–256. https://doi.org/10.1046/j.1365-313x.2000.00736.x

Article  CAS  PubMed  Google Scholar 

Chen Y, Fu M, Li H, Wang L, Liu R, Liu Z (2022) Genome-wide characterization of the UDP-glycosyltransferase gene family reveals their potential roles in leaf senescence in cotton. Int J Biol Macromol 222(Pt B):2648–2660. https://doi.org/10.1016/j.ijbiomac.2022.10.047

Article  CAS  PubMed  Google Scholar 

Cheng M, Yuan H, Wang R et al (2021) Genome-wide identification and analysis of the metallothionein genes in Oryza genus. Int J Mol Sci 22(17):9651. https://doi.org/10.3390/ijms22179651

Article  CAS  PubMed  PubMed Central  Google Scholar 

Gao H, Wang Z, Li S et al (2018) Genome-wide survey of potato MADS-box genes reveals that StMADS1 and StMADS13 are putative downstream targets of tuberigen StSP6A. BMC Genomics 19(1):726. https://doi.org/10.1186/s12864-018-5113-z

Article  CAS  PubMed  PubMed Central  Google Scholar 

Guo J, Sun B, He H, Zhang Y, Tian H, Wang B (2021) Current understanding of bhlh transcription factors in plant abiotic stress tolerance. Int J Mol Sci 22(9):4921. https://doi.org/10.3390/ijms22094921

Article  CAS  PubMed  PubMed Central  Google Scholar 

Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 41:95–98

Howe EA, Sinha R, Schlauch D, Quackenbush J (2011) RNA-Seq analysis in MeV. Bioinformatics 27(22):3209–3210. https://doi.org/10.1093/bioinformatics/btr490

Article  CAS  PubMed  PubMed Central  Google Scholar 

Kolachevskaya OO, Lomin SN, Arkhipov DV, Romanov GA (2019) Auxins in potato: molecular aspects and emerging roles in tuber formation and stress resistance. Plant Cell Rep 38:681–698. https://doi.org/10.1007/s00299-019-02395-0

Article  CAS  PubMed  Google Scholar 

Kondhare KR, Kumar A, Patil NS, Malankar NN, Saha K, Banerjee AK (2021) Development of aerial and belowground tubers in potato is governed by photoperiod and epigenetic mechanism. Plant Physiol 187(3):1071–1086. https://doi.org/10.1093/plphys/kiab409

Article  CAS  PubMed  PubMed Central  Google Scholar 

Kumar S, Stecher G, Tamura K (2016) MEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol. 33(7):1870–1874. https://doi.org/10.1093/molbev/msw054

Article  CAS  PubMed  PubMed Central  Google Scholar 

Lehretz GG, Sonnewald S, Hornyik C, Corral JM, Sonnewald U (2019) Post-transcriptional regulation of FLOWERING LOCUS T modulates heat-dependent source-sink development in potato. Curr Biol 29:1614–1624. https://doi.org/10.1016/j.cub.2019.04.027

Article  CAS  PubMed  Google Scholar 

Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using realtime quantitative PCR and the 2(-Delta Delta C(T)) method. Methods 25:402–408. https://doi.org/10.1006/meth.2001.1262

Article  CAS  PubMed  Google Scholar 

Mahajan AS, Kondhare KR, Rajabhoj MP et al (2016) Regulation, overexpression, and target gene identification of Potato Homeobox 15 (POTH15)—a class-I KNOX gene in potato. J Exp Bot 67(14):4255–4272. https://doi.org/10.1093/jxb/erw205

Article  CAS  PubMed  PubMed Central  Google Scholar 

Moriya Y, Itoh M, Okuda S, Yoshizawa AC, Kanehisa M (2007) KAAS: an automatic genome annotation and pathway reconstruction server. Nucleic Acids Res. 35(Web Server issue):W182–W185. https://doi.org/10.1093/nar/gkm321

Article  PubMed  PubMed Central  Google Scholar 

Morris WL, Hancock RD, Ducreux LJM, Morris JA, Usman M, Verrall SR et al (2014) Day length dependent restructuring of the leaf transcriptome and metabolome in potato genotypes with contrasting tuberization phenotypes. Plant Cell Environ 37:1351–1363. https://doi.org/10.1111/pce.12238

Article  CAS  PubMed  Google Scholar 

Murashige T, Skoog F (1962) A revised medium for rapid growth and bioassays with tobacco tissue culture. Physiol Plant 15:473–497

Article  CAS  Google Scholar 

Oliveros JC (2007–2015) Venny, an interactive tool for comparing lists with Venn’s diagrams. https://bioinfogp.cnb.csic.es/tools/venny/index.html. Accessed 20 June 2023

Plantenga FDM, Bergonzi S, Abelenda JA, Bachem CWB, Visser RGF, Heuvelink E, Marcelis LFM (2019) The tuberization signal StSP6A represses flower bud development in potato. J Exp Bot 70(3):937–948. https://doi.org/10.1093/jxb/ery420

Article  CAS  PubMed  Google Scholar 

Potato Genome Sequencing Consortium (2011) Genome sequence and analysis of the tuber crop potato. Nature 475:189–195. https://doi.org/10.1038/nature10158

Article  CAS  Google Scholar 

Sun W, Ma Z, Chen H, Liu M (2019) MYB gene family in potato (Solanum tuberosum L.): genome-wide identification of hormone-responsive reveals their potential functions in growth and development. Int J Mol Sci 20:4847. https://doi.org/10.3390/ijms20194847

Article  CAS  PubMed  PubMed Central  Google Scholar 

Tiwari JK (2023) Potato improvement in the post-genomics era. CRC Press, New York, p 336

Google Scholar 

Tiwari JK, Buckseth T, Zinta R, Saraswati A, Singh RK, Rawat S, Dua VK, Chakrabarti SK (2020) Transcriptome analysis of potato shoots, roots and stolons under nitrogen stress. Sci Rep 10:1152. https://doi.org/10.1038/s41598-020-58167-4

Article  CAS  PubMed  PubMed Central  Google Scholar 

Tiwari JK, Buckseth T, Singh RK, Zinta R, Thakur K, Bhardwaj V, Dua VK, Kumar M (2022) Aeroponic evaluation identifies variation in Indian potato varieties for root morphology, nitrogen use efficiency parameters and yield traits. J Plant Nutr 45(17):2696–2709. https://doi.org/10.1080/01904167.2022.2046080

Article  CAS  Google Scholar 

Trapnell C, Pachter L, Salzberg SL (2009) TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25(9):1105–1111. https://doi.org/10.1093/bioinformatics/btp120

Article  CAS  PubMed  PubMed Central  Google Scholar 

Trapnell C, Hendrickson DG, Sauvageau M, Goff L, Rinn JL, Pachter L (2013) Differential analysis of gene regulation at transcript resolution with RNA-seq. Nature Biotechnol 31(1):46–53. https://doi.org/10.1038/nbt.2450

Article  CAS  Google Scholar 

Wang Q, Guo C, Li Z et al (2021) Identification and analysis of bZIP family genes in potato and their potential roles in stress responses. Front Plant Sci 12:637343. https://doi.org/10.3389/fpls.2021.637343

Article  PubMed  PubMed Central  Google Scholar 

Ye J, Fang L, Zheng H, Zhang Y, Chen J, Zhang Z, Wang J, Li S, Li R, Bolund L, Wang J (2006) WEGO: a web tool for plotting GO annotations. Nucleic Acids Res. 34(Web Server issue):W293–W297. https://doi.org/10.1093/nar/gkl031

Article  CAS  PubMed  PubMed Central  Google Scholar