A subtractive tomato (Lycopersicon esculentum) root cDNA library enriched in genes up-regulated by changes in plant mineral status was screened with labeled mRNA from roots of both nitrate-induced and mineral nutrient-deficient (Ϫnitrogen [N], Ϫphosphorus, Ϫpotassium [K], Ϫsulfur, Ϫmagnesium, Ϫcalcium, Ϫiron, Ϫzinc, and Ϫcopper) tomato plants. A subset of cDNAs was selected from this library based on mineral nutrient-related changes in expression. Additional cDNAs were selected from a second mineral-deficient tomato root library based on sequence homology to known genes. These selection processes yielded a set of 1,280 mineral nutrition-related cDNAs that were arrayed on nylon membranes for further analysis. These high-density arrays were hybridized with mRNA from tomato plants exposed to nitrate at different time points after N was withheld for 48 h, for plants that were grown on nitrate/ammonium for 5 weeks prior to the withholding of N. One hundred-fifteen genes were found to be up-regulated by nitrate resupply. Among these genes were several previously identified as nitrate responsive, including nitrate transporters, nitrate and nitrite reductase, and metabolic enzymes such as transaldolase, transketolase, malate dehydrogenase, asparagine synthetase, and histidine decarboxylase. We also identified 14 novel nitrate-inducible genes, including: (a) water channels, (b) root phosphate and K ϩ transporters, (c) genes potentially involved in transcriptional regulation, (d) stress response genes, and (e) ribosomal protein genes. In addition, both families of nitrate transporters were also found to be inducible by phosphate, K, and iron deficiencies. The identification of these novel nitrate-inducible genes is providing avenues of research that will yield new insights into the molecular basis of plant N nutrition, as well as possible networking between the regulation of N, phosphorus, and K nutrition.Nitrogen (N) is the essential mineral element required in the greatest amount in plants, comprising 1.5% to 2% of plant dry matter and approximately 16% of total plant protein (Frink et al., 1999). Thus, N availability is a major limiting factor for plant growth and crop production. Plant can utilize a wide range of N species including volatile ammonia (NH 3 ), nitrogen oxides (NO x ), mineral N (NO 3 Ϫ and NH 4 ϩ ), and organic N (amino acids, peptides, etc.; von Wirén et al., 1997). However, in most agricultural soils, nitrate (NO 3 Ϫ ) is the most important source of N (Crawford and Glass, 1998;Hirsch and Sussman, 1999). Because of the high N requirements for crop plants, N fertilization is a major worldwide agricultural investment, with 80 million metric tons of N fertilizers (as nitrate and/or ammonium) applied annually (Frink et al., 1999). There are also negative environmental consequences for the extensive use of N fertilizers in crop production because agricultural crops only retain about two-thirds of the applied N, and the unabsorbed N can subsequently leach into and contaminate water supplies (Frink et al., ...