Atta R, Laurens L, Boucheron-Dubuisson E, Guivarc H A, Carnero E, Giraudat-Pautot V, Rech P, Chriqui D. 2009. Pluripotency of Arabidopsis xylem pericycle underlies shoot regeneration from root and hypocotyl explants grown in vitro. Plant Journal, 4, 626–644.

Avery G S, Burkholder P R, Creighton H B. 1937. Nutrient deficiencies and growth hormone concentration in helianthus and nicotiana. American Journal of Botany, 24, 553–557.

Benkova E, Michniewicz M, Sauer M, Teichmann T, Seifertova D, Jurgens G, Friml J. 2003. Local, efflux-dependent auxin gradients as a common module for plant organ formation. Cell, 5, 591–602.

Bohn-Courseau I. 2010. Auxin: A major regulator of organogenesis. Comptes Rendus Biologies, 333, 290–296.

Che P, Lall S, Howell S H. 2007. Developmental steps in acquiring competence for shoot development in Arabidopsis tissue culture. Planta, 5, 1183–1194.

Chen L, Tong J, Xiao L, Ruan Y, Liu J, Zeng M, Huang H, Wang J W, Xu L. 2016. YUCCA-mediated auxin biogenesis is required for cell fate transition occurring during de novo root organogenesis in Arabidopsis. Journal of Experimental Botany, 14, 4273–4284.

Curtis I S. 2010. Genetic transformation - Agrobacterium. In: Davey M R, Anthony P. eds., Plant Cell Culture: Essential Methods. Wiley-Blackwell. England. pp. 199–215.

Dai X, Liu N, Wang L, Li J, Zheng X, Xiang F, Liu Z. 2020. MYB94 and MYB96 additively inhibit callus formation via directly repressing LBD29 expression in Arabidopsis thaliana. Plant Science, 293, 110323.

Dubrovsky J G, Rost T L, Colon-Carmona A, Doerner P. 2001. Early primordium morphogenesis during lateral root initiation in Arabidopsis thaliana. Planta, 214, 30–36.

Feng Z Q, Li T, Wang X, Sun W J, Zhang T T, You C X, Wang X F. 2022. Identification and characterization of apple MdNLP7 transcription factor in the nitrate response. Plant Science, 316, 111158.

Friml J. 2010. Subcellular trafficking of PIN auxin efflux carriers in auxin transport. European Journal of Cell Biology, 2–3, 231–235.

Friml J, Palme K. 2001. Polar auxin transport: Old concepts and new questions. Plant Molecular Biology, 49, 273–284.

Friml J, Vieten A, Sauer M, Weijers D, Schwarz H, Hamann T, Offringa R, Jurgens G. 2003. Efflux-dependent auxin gradients establish the apical-basal axis of Arabidopsis. Nature, 6963, 147–153.

Gordon S P, Heisler M G, Reddy G V, Ohno C, Das P, Meyerowitz E M. 2007. Pattern formation during de novo assembly of the Arabidopsis shoot meristem. Development, 134, 3539–3548.

Guan P. 2017. Dancing with hormones: A current perspective of nitrate signaling and regulation in Arabidopsis. Frontiers in Plant Science, 8, 1697.

Gutiérrez R A, Lejay L V, Dean A, Chiaromonte F, Shasha D E, Coruzzi G M. 2007. Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis. Genome Biology, 8, R7.

De Klerk G J, Arnholdt-Schmitt B L R, Neumann K H. 1997. Regeneration of roots, shoots and embryos: Physiological, biochemical and molecular aspects. Biologia Plantarum, 39, 53–66.

Konishi M, Yanagisawa S. 2019. The role of protein–protein interactions mediated by the PB1 domain of NLP transcription factors in nitrate-inducible gene expression. BMC Plant Biology, 19, 90.

Krouk G, Lacombe B, Bielach A, Perrine-Walker F, Malinska K, Mounier E, Hoyerova K, Tillard P, Leon S, Ljung K, Zazimalova E, Benkova E, Nacry P, Gojon A. 2010. Nitrate-regulated auxin transport by NRT1.1 defines a mechanism for nutrient sensing in plants. Developmental Cell, 6, 927–937.

Kumar N, Caldwell C, Iyer-Pascuzzi A S. 2023. The NIN-LIKE PROTEIN 7 transcription factor modulates auxin pathways to regulate root cap development in Arabidopsis. Journal of Experimental Botany, 74, 3047–3059.

Laskowski M J, Williams M E, Nusbaum H C, Sussex I M. 1995. Formation of lateral root meristems is a two-stage process. Development, 121, 3303–3310.

Lee H W, Kim N Y, Lee D J, Kim J. 2009. LBD18/ASL20 regulates lateral root formation in combination with LBD16/ASL18 downstream of ARF7 and ARF19 in Arabidopsis. Plant Physiolgy, 3, 1377–1389.

Liu J, Sheng L, Xu Y, Li J, Yang Z, Huang H, Xu L. 2014. WOX11 and 12 are involved in the first-step cell fate transition during de novo root organogenesis in Arabidopsis. Plant Cell, 3, 1081–1093.

Liu K H, Liu M, Lin Z, Wang Z F, Chen B, Liu C, Guo A, Konishi M, Yanagisawa S, Wagner G, Sheen J. 2022. NIN-like protein 7 transcription factor is a plant nitrate sensor. Science, 6613, 1419–1425.

Liu K H, Niu Y, Konishi M, Wu Y, Du H, Chung H S, Li L, Boudsocq M, McCormack M, Maekawa S, Ishida T, Zhang C, Shokat K, Yanagisawa S, Sheen J. 2017. Discovery of nitrate–CPK–NLP signalling in central nutrient–growth networks. Nature, 545, 311–316.

Ma W, Li J, Qu B, He X, Zhao X, Li B, Fu X, Tong Y. 2014. Auxin biosynthetic gene TAR2 is involved in low nitrogen-mediated reprogramming of root architecture in Arabidopsis. Plant Journal, 78, 70–79.

Michael M L. 2013. New practical and theoretical approaches to the induction of morphogenesis from plant tumors in vitro using new types of plant growth regulators: towards constructive paradigms in agriculture and medicine. Theoretical Biology Forum, 106, 73–87.

Okushima Y, Fukaki H, Onoda M, Theologis A, Tasaka M. 2007. ARF7 and ARF19 regulate lateral root formation via direct activation of LBD/ASL genes in Arabidopsis. Plant Cell, 19, 118–130.

Overvoorde P, Fukaki H, Beeckman T. 2010. Auxin control of root development. Cold Spring Harbor Perspectives in Biology, 6, a1537.

Pernisova M, Klima P, Horak J, Valkova M, Malbeck J, Soucek P, Reichman P, Hoyerova K, Dubova J, Friml J, Zazimalova E, Hejatko J. 2009. Cytokinins modulate auxin-induced organogenesis in plants via regulation of the auxin efflux. Proceedings of the National Academy of Sciences of the United States of America, 106, 3609–3614.

Petrásek J, Friml J. 2009. Auxin transport routes in plant development. Development, 136, 2675–2688.

Reinert J, Tazawa M, Semenoff S. 1967. Nitrogen compounds as factors of embryogenesis in vitro. Nature, 5121, 1215–1216.

Sangwan R S, Sangwan-Norreel B S, Harada H. 1997. In vitro techniques and plant morphogenesis: fundamental aspects and practical applications. Plant Biotechnology Journal, 14, 93–100.

Sengar R S, Chaudhary R, Tyagi S K. 2010. Present status and scope of floriculture developed through different biological tools. Australian Journal of Agricultural Research, 1, 306–314.

Shahzad A, Parveen S, Sharma S, Shaheen A, Saeed T, Yadav V, Akhtar R, Ahmad Z, Upadhyay A. 2017. Plant Tissue Culture: Applications in Plant Improvement and Conservation. Springer Singapore. pp. 37–72.

Shang B, Xu C, Zhang X, Cao H, Xin W, Hu Y. 2016. Very-long-chain fatty acids restrict regeneration capacity by confining pericycle competence for callus formation in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America, 18, 5101–5106.

Skoog F, Miller C O. 1957. Chemical regulation of growth and organ formation in plant tissues cultured in vitro. Journal of Experimental Biology, 11, 118–130.

Stitt M. 1999. Nitrate regulation of metabolism and growth. Current Opinion in Plant Biology, 2, 178–186.

Su Y H, Zhang X S. 2009. Auxin gradients trigger de novo formation of stem cells during somatic embryogenesis. Plant Signaling & Behavior, 7, 574–576.

Sugimoto K, Jiao Y L, Meyerowitz E M. 2010. Arabidopsis regeneration from multiple tissues occurs via a root development pathway. Developmental Cell, 18, 463–471.

Suo J, Zhou C, Zeng Z, Li X, Bian H, Wang J, Zhu M, Han N. 2021. Identification of regulatory factors promoting embryogenic callus formation in barley through transcriptome analysis. BMC Plant Biology, 21, 145.

Tao Y, Ferrer J L, Ljung K, Pojer F, Hong F X, Long J A, Li L, Moreno J E, Bowman M E, Ivans L J, Cheng Y F, Lim J, Zhao Y D, Ballaré C L, Sandberg G, Noel J P, Chory J. 2008. Rapid synthesis of auxin via a new tryptophan-dependent pathway is required for shade avoidance in plants. Cell, 133, 164–176.

Thorpe T A. 2007. History of plant tissue culture. Molecular Biotechnology, 2, 169–180.

Tian Q Y, Sun P, Zhang W H. 2009. Ethylene is involved in nitrate-dependent root growth and branching in Arabidopsis thaliana. New Phytologist, 184, 918–931.

Tsugeki R, Ditengou F A, Sumi Y, Teale W, Palme K, Okada K. 2010. No vein mediates auxin-dependent specification and patterning in the Arabidopsis embryo, shoot, and root. Plant Cell, 21, 3133–3151.

Valvekens D, Van Montagu M, Van Lijsebettens M. 1988. Agrobacterium tumefaciens-mediated transformation of Arabidopsis thaliana root explants by using kanamycin selection. Proceedings of the National Academy of Sciences of the United States of America, 15, 5536–5540.

Wang Y Y, Hsu P K, Tsay Y F. 2012. Uptake, allocation and signaling of nitrate. Trends in Plant Science, 8, 458–467.

Yadav S R, Bishopp A, Helariutta Y. 2010. Plant development: Early events in lateral root initiation. Current Biology, 19, 843–845.

Yildiz M. 2012. The prerequisite of the success in plant tissue culture: High frequency shoot regeneration. In: Leva A, Rinaldi L M R, eds., Recent Advances in Plant in vitro Culture. IntechOpen Limited, London, UK. pp. 63–90.

Yu L H, Wu J, Tang H, Yuan Y, Wang S M, Wang Y P, Zhu Q S, Li S G, Xiang C B. 2016. Overexpression of Arabidopsis NLP7 improves plant growth under both nitrogen-limiting and sufficient conditions by enhancing nitrogen and carbon assimilation. Scientific Reports, 6, 27795.

Yuan B, Liao X, Zheng X, Wu L, Zhao H. 2005. Metabolism and role of indoleacetic acid in plant cells. Biological Bulletin, 40, 21–23.

Zhai N, Xu L. 2021. Pluripotency acquisition in the middle cell layer of callus is required for organ regeneration. Nature Plants, 11, 1453–1460.

Zhang H, Jennings A, Barlowm P W, Forde B G. 1999. Dual pathways for regulation of root branching by nitrate. Proceedings of the National Academy of Sciences of the United States of America, 11, 6529–6534.

Zhang J, Nodzynski T, Pencik A, Rolcik J, Friml J. 2010. PIN phosphorylation is sufficient to mediate PIN polarity and direct auxin transport. Proceedings of the National Academy of Sciences of the United States of America, 2, 918–922.

Zhang T T, Kang H, Fu L L, Sun W J, Gao W S, You C X, Hao Y J. 2021. Nin-like protein 7 promotes nitrate-mediated lateral root development by activating transcription of tryptophan aminotransferase related 2. Plant Science, 303, 110771.

Zhao Q, Ren Y R, Wang Q J, Wang X F, You C X, Hao Y J. 2016. Ubiquitination related MdBT scaffold proteins target a bHLH transcription factor for iron homeostasis. Plant Physiology, 172, 1973–1988.

Zhao Y, Christensen S K, Fankhauser C, Cashman J R, Cohen J D, Weigel D, Chory J. 2001. A role for flavin monooxygenase-like enzymes in auxin biosynthesis. Science, 5502, 306–309.