Abstract
Drought stress presents a considerable threat to the global crop production. As a dominant source of vegetarian diet, cereals and grain-legumes remain crucial to meeting the growing dietary demands worldwide. Therefore, breeding cultivars of these staple crops with enhanced drought tolerance stands to be one of the most sustainable solutions to enhance food production in changing climate. Given the context, a more focused survey of environment-defined germplasm sets is imperative to comprehend such adaptive traits. In parallel, uncovering the genetic architecture and the molecular networks that collectively contribute towards drought tolerance is urgently required through rationally combining large-scale genomics, proteomics, and metabolomics data. Also, attention needs to be directed to reasonably quantify the epistatic as well as environmental influences, thereby warranting deployment of analyses like metaquantitative trait loci (QTL) that encompass multiple environments and diverse genetic backgrounds. Further, innovative techniques like genomic selection (GS) and genome wide association study (GWAS) would help to capture the quantitative variation underlying drought tolerance. Equally importantly, integration of physiological traits-based techniques with ever-evolving ‘omics’ technologies and the new-generation phenotyping platforms will be of immense importance in advancing our existing knowledge about the genetically-complex and poorly-understood phenomena, such as plant drought response, and a deeper understanding would likely to provide a great impetus to the progress of crop breeding for drought tolerance.
Similar content being viewed by others
Abbreviations
- ABA:
-
abscisic acid
- AM:
-
association mapping
- CAPS:
-
cleaved amplified polymorphic sequence
- DH:
-
double haploid
- EST:
-
expressed sequence tag
- GS:
-
genomic selection
- GWAS:
-
genome wide association study
- GWP:
-
genome wide prediction
- LD:
-
linkage disequilibrium
- MABC:
-
marker-assisted backcrossing
- MARS:
-
marker assisted recurrent selection
- MPSS:
-
massively parallel signature sequencing
- MAS:
-
marker-assisted selection
- NGS:
-
next generation sequencing
- NIL:
-
near isogenic line
- PCR:
-
polymerase chain reaction
- QTLs:
-
quantitative trait loci
- RIL:
-
recombinant inbred line
- RT-PCR:
-
reverse trascriptase PCR
- RWC:
-
relative water content
- SAGE:
-
serial analysis of gene expression
- SSR:
-
simple sequence repeat
- SNP:
-
single nucleotide polymorphism
- WUE:
-
water use efficiency
References
Abdallah, A.A., Ali, A.M., Geiger, H.H., Parzies, H.K.: Markerassisted recurrent selection for increased out crossing in caudatum-race Sorghum. — In: Proceedings of the International Conference on Applied Biotechnology. Pp. 4. Khartoum 2009.
Acuña-Galindo, M.A., Mason, R.E., Subramanian, N.K., Hays, D.B. Meta-analysis of wheat QTL regions associated with adaptation to drought and heat stress. — Crop Sci. 55: 477–492, 2015.
Adam, J.: Transcriptome: connecting the genome to gene function. — Nature Educ. 1: 1, 2008.
Adamski, J.: Genome-wide association studies with metabolomics. — Genome Medicine 4: 34, 2012.
Ahmed, F.E., Suliman, A.S.H.: Effect of water stress applied at different stages of growth on seed yield and water-use efficiency of cowpea. — Agr. Biol. J. N. Amer. 1: 534–540, 2010.
Almeida, G.D., Makumbi, D., Magorokosho, C., Nair, S., Borém, A., Ribaut, J.M., Bänziger, M., Prasanna, B.M., Crossa, J., Babu, R.: QTL mapping in three tropical maize populations reveals a set of constitutive and adaptive genomic regions for drought tolerance. — Theor. appl. Genet. 126: 583–600, 2013.
Almeida, G.D., Nair, S., Borém, A., Cairns, J., Trachsel, S., Ribaut, J.M., Babu, R.: Molecular mapping across three populations reveals a QTL hotspot region on chromosome 3 for secondary traits associated with drought tolerance in tropical maize. — Mol. Breed. 34: 701–715, 2014.
Alvarez, S., Marsh, E.L., Schroeder, S.G., Schachtman, D.P.: Metabolomic and proteomic changes in the xylem sap of maize under drought. — Plant Cell Environ. 31: 325–340, 2008.
Ameen, T.E.: Molecular markers for drought tolerance in bread wheat. — Afr. J. Biotechnol. 12: 3148–3152, 2013.
Anbazhagan, K., Bhatnagar-Mathur, P., Vadez, V., Dumbala, S.R., Kishor, P.B., Sharma, K.K.: DREB1A overexpression in transgenic chickpea alters key traits influencing plant water budget across water regimes. — Plant Cell Rep. 34: 199–210, 2015.
Andersen, J.R., Lübberstedt, T.: Functional markers in plants. — Trends Plant Sci. 8: 554–560, 2003.
Anjum, S.A., Xie, X., Wang, L.C., Saleem, M.F., Man, C., Lei, W.: Morphological, physiological and biochemical responses of plants to drought stress. — Afr. J. agr. Res. 6: 2026–2032, 2011.
Ansong, C., Purvine, S.O., Adkins, J.N., Lipton, M.S., Smith R. D.: Proteogenomics: needs and roles to be filled by proteomics in genome annotation. — Brief. Funct. Genomics Proteomics 7: 50–62, 2008.
Ariel, F.D., Manavella, P.A., Dezar, C.A., Chan, R.L.: The true story of the HD-Zip family. — Trends Plant Sci. 12: 419–426, 2007.
Asfaw, A., Blair, M.W., Struik, P.: Multienvironment quantitative trait loci analysis of photosynthate acquisition, accumulation, and remobilization traits in common bean under drought stress. — Genes Genomes Genet. 5: 579–595, 2012.
Ashikari, M., Matsuoka, M.: Identification, isolation and pyramiding of quantitative trait loci for rice breeding. — Trends Plant Sci. 11: 344–350, 2006.
Ashraf, M.: Inducing drought tolerance in plants: recent advances. — Biotechnol. Adv. 28: 169–183, 2010.
Ashraf, M., Foolad, M.R.: Roles of glycine betaine and proline in improving plant abiotic stress resistance. — Environ. exp. Bot. 59: 206–216, 2007.
Babu, C.R., Nguyen, B.D., Chamarerk, V., Shanmugasundaram, P., Chezhian, P., Juyaprakash, P., Ganesh, S.K., Palchamy, A., Sadasivam, S., Sarkarung, S., Wade, L.J., Nguyen, T.H.: Genetic analysis of drought resistance in rice by molecular markers: association between secondary traits and field performance. — Crop Sci. 43: 1457–1469, 2003.
Baginsky, S., Hennig, L., Zimmermann, P., Gruissem, W.: Gene expression analysis, proteomics, and network discovery. — Plant Physiol. 152: 402–410, 2010.
Barakat, M.N., Wahiba, L.E., Milad, S.I.: Molecular mapping of QTLs for wheat flag leaf senescence under water stress. — Biol. Plant. 57: 79–84, 2013.
Bartels, D., Sunkar, R.: Drought and salt tolerance in plants. — Crit. Rev. Plant Sci. 24: 23–58, 2005.
Beltrano, J., Ronco, M.G., Arango, A.C.: Soil drying and rewatering applied at three grain developmental stages affect differentially growth and grain protein deposition in wheat (Triticum aestivum L.). — Braz. J. Plant Physiol. 18: 341–350, 2006.
Bergelson, J., Roux, F.: Towards identifying genes underlying ecologically relevant traits in Arabidopsis thaliana. — Nat. Rev. Genet. 11: 867–879, 2010.
Bernardo, R.: Molecular markers and selection for complex traits in plants: learning from the last 20 years. — Crop Sci. 48: 1649–166, 2008.
Bernardo, R., Charcosset, A.: Usefulness of gene information in marker-assisted recurrent selection: a simulation appraisal. — Crop Sci. 46:614–621, 2006.
Bernier, J., Kumar, A., Venuprasad, R., Spaner, D., Atlin, G.: A large-effect QTL for grain yield under reproductive-stage drought stress in upland rice. — Crop Sci. 47: 507–518, 2007.
Beyene, Y., Semagn, K., Mugo, S., Tarekegne, A., Babu, R., Meisel, B., Sehabiague, P., Makumbi, D., Magorokosho, C., Oikehm S., Gakunga, J., Vargas, M., Olsen, M., Prasanna, B.M., Banziger, M., Crossa, J.: Genetic gains in grain yield through genomic selection in eight bi-parental maize populations under drought stress. — Crop. Sci. 55: 154–163, 2015.
Bohra, A., Sahrawat, K.L., Kumar, S., Joshi, R., Parihar, A.K., Singh, U., Singh, D., Singh, N.P.: Genetics- and genomicsbased interventions for nutritional enhancement of grain legume crops: status and outlook. — J. appl. Genet. 56: 151–161, 2015.
Bohra, A.: Emerging paradigms in genomics-based crop improvement. — Sci. World J. 585467: 17, 2013.
Bohra, A., Jha, U.C., Kavi Kishor, P.B., Pandey, S., Singh, N.P.: Genomics and molecular breeding in lesser explored pulse crops: current trends and future opportunities. — Biotechnol. Adv. 32: 1410–1428, 2014a.
Bohra, A., Pandey, M.K., Jha, U.C., Singh, B., Singh, I.P., Datta, D., Chaturvedi, S.K., Nadarajan, N., Varshney, R. K.: Genomics-assisted breeding in four major pulse crops of developing countries: present status and prospects. — Theor. appl. Genet. 127: 1263–1291, 2014b.
Bolaños, J., Edmeades, G.O.: The importance of the anthesissilking interval in breeding for drought tolerance in tropical maize. — Field Crop. Res. 48: 65–80, 1996.
Boyer, J.S.: Plant productivity and environment. — Science 218: 443–448, 1982.
Bray, E.A., Bailey-Serres, J., Weretilnyk, E.: Responses to abiotic stresses. — In Gruissem, W., Buchannan, B., Jones, R. (ed.): Biochemistry and Molecular Biology of Plants. Pp. 1158–1249. American Society of Plant Physiologists. Rockville 2000.
Cabrera-Bosquet, L., Crossa, J., Von Zitzewitz, J., Dolors Serret, M., Araus, J.L.: High-throughput phenotyping and genomic selection: the frontiers of crop breeding converge. — J. Intergr. Plant Biol. 54: 312–320, 2012.
Castañeda-Saucedo, M.C., Córdova-Téllez, L., Tapia-Campos, E., Delgado-Alvarado, A., González-Hernández, V.A., Santacruz-Varela, A., Loza-Tavera, H., García-de-los-Santos, G., Vargas-Suárez, M.: Dehydrins patterns in common bean exposed to drought and watered conditions. — Rev. Fitotec. Mex. 37: 59–68, 2014.
Charlton, A.J., Donarski, J.A., Harrison, M., Jones, S.A., Godward, J., Oehlschlager, S., Arques, J.L., Ambrose, M., Chinoy, C., Mullineaux, P.M., Domoney, C.: Responses of the pea (Pisum sativum L.) leaf metabolome to drought stress assessed by nuclear magnetic resonance spectroscopy. — Metabolomics 4: 312–327, 2008.
Charmet, G., Robert, N., Perretant, M.R., Gay, G., Sourdille, P., Groos, C., Bernard, S., Bernard M.: Marker assisted recurrent selection for cumulating QTLs for bread-making related traits. — Euphytica 119: 89–93, 2001.
Cheng, H.T., Hua, J., Xue, D.W., Guo, L.B., Zeng, D.L., Zang, G.H., Qian, Q.: Mapping of QTL underlying tolerance to alkali at germination and early seedling stages in rice. — Acta agron. sin. 34: 1719–1727, 2008.
Clarke, J.M.: Effect of leaf rolling on leaf water loss in Triticum spp. — Can. J. Plant. Sci. 66: 885–891, 1986.
Collard, B.C.Y., Mackill, D.J.: Marker-assisted selection: an approach for precision plant breeding in the twenty-first century. — Phil. trans. roy. Soc. B. Biol. Sci. 363: 557–572, 2008.
Collins, N.C., Tardieu, F., Tuberosa, R.: Quantitative trait loci and crop performance under abiotic stress: where do we stand? — Plant Physiol. 147: 469–486, 2008.
Costa Franca, M.G., Pham-Thi, A.T., Pimentel, C., Pereyra Rossiello, R.O., Zuily-Fodil, Y., Laffray, D.: Differences in growth and water relations among Phaseolus vulgaris cultivars in response to induced drought stress. — Environ. exp. Bot. 43: 227–237, 2000.
Courtois, B., Ahmadi, N., Khowaja, F., Price, A., Rami, J.-F., Frouin, J., Hamelin, C., Ruiz, M.: Rice root genetic architecture: meta-analysis from a drought QTL database. — Rice 2: 115–128, 2009.
Courtois, B., Audebert, A., Dardou, A., Roques, S., Herrera, T.G., Droc, G., Frouin, J., Rouan, L., Gozé, E., Kilian, A., Ahmadi, N., Dingkuhn, M.: Genome-wide association mapping of root traits in a japonica rice panel. — PLoS One 8: e78037, 2013.
Cubillos, F.A., Coustham, V., Loudet, O.: Lessons from eQTL mapping studies: non-coding regions and their role behind natural phenotypic variation in plants. — Curr. Opin. Plant Biol. 15: 192–198, 2012.
Degenkolbe, T., Do, P.T., Kopka, J., Zuther, E., Hincha, D.K., Kohl, K.I.: Identification of drought tolerance markers in a diverse population of rice cultivars by expression and metabolite profiling. — PLoS One 8: e63637, 2013.
Du, F., Shi, H., Zhang, X., Xu, X.: Responses of reactive oxygen scavenging enzymes, proline and malondialdehyde to water deficits among six secondary successional seral species in Loess plateau. — PLoS One 9: e98872, 2014.
Dugas, D., Monaco, M., Olsen, A., Klein, R., Kumari, S., Ware, D., Klein, P. E.: Functional annotation of the transcriptome of Sorghum bicolor in response to osmotic stress and abscisic acid. — BMC Genomics 12: 514, 2011.
Dwivedi, S.L., Crouch, J.H., Nigam, S.N., Ferguson, M.E., Paterson, A.H.: Molecular breeding of groundnut for enhanced productivity and food security in the semi-arid tropics: opportunities and challenges. — Adv. Agron. 80: 154–201, 2003.
Eathington, S.R., Crosbie, T.M., Edwards, M.D., Reiter, R.S., Bull, J.K.: Molecular markers in a commercial breeding program. — Crop Sci. 2007(Suppl.): S154, 2007.
Ekanayake, I.J., Datta, S.K., Steponkus, P.L.: Spikelet sterility and flowering response of rice to water stress at anthesis. — Ann. Bot. 63: 257–264, 1989.
Eldakak, M., Milad, S.I.M., Nawar, A.I., Rohila, J.S.: Proteomics: a biotechnology tool for crop improvement. — Front. Plant Sci. 4: 35, 2013.
Elouafi, I., Nachit, M.M.: A genetic linkage map of the durum wheat × Triticum dicoccoides backcross population based on SSRs and AFLP markers, and QTL analysis for milling traits. — Theor. appl. Genet. 108: 401–413, 2004.
Fernie, A.R., Schauer N.: Metabolomics-assisted breeding: a viable option for crop improvement? — Trends Genet. 25: 39–48, 2008.
Ford, K.L., Cassin, A., Bacic, A.: Quantitative proteomic analysis of wheat cultivars with differing drought stress tolerance. — Front. Plant Sci. 2: 44, 2011.
Fridman. E., Zamir, D.: Next-generation education in crop genetics. — Curr. Opin. Plant Biol. 15: 218–223, 2012.
Fujino, K., Sekiguchi, H., Sato, T., Kiuchi, H., Nonoue, Y., Takeuchi, Y., Ando, T., Lin, S.Y., Yano, M.: Mapping of quantitative trait loci controlling low-temperature germinability in rice (Oryza sativa L.). — Theor. appl. Genet. 108: 794–799, 2004.
Fujita, Y., Fujita, M., Satoh, R., Maruyama, K., Parvez, M.M., Seki, M., Hiratsu, K., Ohme-Takagi, M., Shinozaki, K., Yamaguchi-Shinozaki, K.: AREB1 is a transcription activator of novel ABRE-dependent ABA signaling that enhances drought stress tolerance in Arabidopsis. — Plant Cell 17: 3470–3488, 2005.
Ghosh, D., Xu, J.: Abiotic stress responses in plant roots: a proteomics perspective. — Front. Plant Sci. 54: 6, 2014.
Gimeno, J., Eattock, N., Deynze, A.V., Blumwald, E.: Selection and validation of reference genes for gene expression analysis in switchgrass (Panicum Virgatum) using quantitative real-time RT-PCR. — PLoS One 9: e91474, 2014.
Giuliani, S., Sanguineti, M.C., Tuberosa, R., Bellotti, M., Salvi, S., Landi, P.: Root-ABA1, a major constitutive QTL, affects maize root architecture and leaf ABA concentration at different water regimes. — J. exp. Bot. 56: 3061–3070, 2005.
Goddard, M.E., Hayes, B.J.: Genomic selection. — J. Anim. Breed. Genet. 12: 323–330, 2007.
Gomez, S.M., Boopathi, N.M., Kumar, S.S., Ramasubramanian, T., Chengsong, Z., Jeyaprakash, P., Senthil, A., Babu, R.C.: Molecular mapping and location of QTLs for droughtresistance traits in indica rice (Oryza sativa L.) lines adapted to target environments. — Acta Physiol. Plant 32: 355–364, 2010.
Graham, P.H., Vance, C.P.: Legumes: importance and constraints to greater use. — Plant Physiol. 131: 872–877, 2003.
Grenier, C., Chatel, M.H., Ospina, Y., Cao, T., Guimaraes, E.P., Martinez, C.P., Tohme, J., Courtois, B., Ahmadi, N.: Population improvement through recurrent selection in rice. Prospects for maker assisted recurrent selection and genome-wide selection. — In: Plant and Animal Genome. XX Conference. Pp. W011. San Diego 2012.
Guo, P., Baum, M., Varshney, R., Graner, A., Grando, S., Ceccarelli, S.: QTLs for chlorophyll and chlorophyll fluorescence parameters in barley under post-flowering drought. — Euphytica 163: 203–214, 2008.
Guttikonda, S.K., Valliyodan, B., Neelakandan, A.K., Tran, L.S., Kumar, R., Quach, T.N., Voothuluru, P., Gutierrez-Gonzalez, J.J., Aldrich, D.L., Pallardy, S.G., Sharp, R.E., Ho, T.H., Nguyen, H.T.: Overexpression of AtDREB1D transcription factor improves drought tolerance in soybean. — Mol. Biol. Rep. 41: 7995–8008, 2014.
Hao, Z., Li, X., Liu, X., Xie, C., Li, M., Zhang, D., Zhang, S.: Meta-analysis of constitutive and adaptive QTL for drought tolerance in maize. — Euphytica 174: 165–177, 2010.
Harb, A., Krishnan, A., Ambavaram, M.M.R., Pereira, A.: Molecular and physiological analysis of drought stress in Arabidopsis reveals early responses leading to acclimation in plant growth. — Plant Physiol. 154: 1254–1271, 2010.
Hash, C.T., Bhasker, R.A.G., Lindup, S., Sharma, A., Beniwal, C.R., Folkertsma, R.T., Mahalakshmi, V., Zerbini, E., Blümmel, M.: Opportunities for marker-assisted selection (MAS) to improve the feed quality of crop residues in pearl millet and sorghum. — Field Crops Res. 84: 79–88, 2003.
Heffner, E.L., Sorrells, M.E., Jannink, J.L.: Genomic selection for crop improvement. — Crop Sci. 49: 1–12, 2009.
Heslot, N., Jannink, J.L., Sorrells, M.E.: Perspectives for genomic selection applications and research in plants. — Crop Sci. 55: 1–12, 2015.
Hill, C.B., Taylor, J.D., Edwards, J., Mather, D., Bacic, A., Langridge, P., Roessner, U.: Whole-genome mapping of agronomic and metabolic traits to identify novel quantitative trait loci in bread wheat grown in a water-limited environment. — Plant Physiol. 162: 1266–1281, 2013.
Hochberg, U., Degu, A., Toubiana, D., Gendler, T., Nikoloski, Z., Rachmilevitch, S., Fait, A.: Metabolite profiling and network analysis reveal coordinated changes in grapevine water stress response. — BMC Plant Biol. 13: 184, 2013.
Holland, J.B.: Implementation of molecular markers for quantitative traits in breeding programs — challenges and opportunities. New directions for a diverse planet. — In: Proceedings of the 4th International Crop Science Congress. Regional Institute, Gosford 2004 (www.cropscience.org.au/icsc2004).
Honsdorf, N., March, T.J., Berger, B., Tester, M., Pillen, K.: High-throughput phenotyping to detect drought tolerance QTL in wild barley introgression lines. — PLoS One 9: e97047, 2014.
Hospital, F.: Selection in backcross programmes. — Phil. trans. roy. Soc. Lond. B: Biol. Sci. 360: 1503–1511, 2005.
Hospital, F., Charcosset, A.: Marker-assisted introgression of quantitative trait loci. — Genetics 147: 1469–1485, 1997.
Hossain, Z., Komatsu, S.: Potentiality of soybean proteomics in untying the mechanism of flood and drought stress tolerance. — Proteomes 2: 107–127, 2014.
Huang, X., Han, B.: Natural variations and genome-wide association studies in crop plants. — Annu. Rev. Plant Biol. 65: 531–551, 2014.
Ibrahim, S.E., Schubert, A., Pillen, K., Léon, J.: Comparison of QTLs for drought tolerance traits between two advanced backcross populations of spring wheat. — Int. J. agr. Sci. 2: 216–227, 2012.
Ikeda, T., Ohnishi, S., Senda, M., Miyoshi, T., Ishimoto, M., Kitamura, K., Funatsuki, H.: A novel major quantitative trait locus controlling seed development at low temperature in soybean (Glycine max). — Theor. appl. Genet. 118: 1477–1488, 2009.
Ingvarsson, P.K., Street, N.R.: Association genetics of complex traits in plants. — New Phytol. 189: 909–922, 2011.
Jaganathan, D., Thudi, M., Kale, S., Azam, S., Roorkiwal, M., Gaur, P.M., Kishor, P.B., Nguyen, H., Sutton, T., Varshney, R.K.: Genotyping-by-sequencing based intra-specific genetic map refines a “QTL-hotspot” region for drought tolerance in chickpea. — Mol. Genet. Genomics 290: 559–571, 2015.
Janska, A., Marsi, K.P., Zelenkova, S., Ovesna, J.: Cold stress and acclimation - what is important for metabolic adjustment? — Plant Biol. 12: 395–405, 2010.
Jha, U.C., Chaturvedi, S.K., Bohra, A., Basu, P.S., Khan, M.S., Barh, D.: Abiotic stresses, constraints and improvement strategies in chickpea. — Plant Breed. 133: 163–178, 2014.
Ji, S.L., Jiang, L., Wang, Y.H., Zhang, W.W., Liu, X.L., Liu, S.J., Liu, S.J., Chen, L.M., Zhai, H.Q., Wan, J.M.: Quantitative trait loci mapping and stability for low temperature germination ability of rice. — Plant Breed. 128: 387–392, 2009.
Jiang, S.S., Liang, X.N., Li, X., Wang, S.L., Lv, D.W., Ma, C.Y., Li, X.H., Ma, W.J., Yan, Y.M.: Wheat droughtresponsive grain proteome analysis by linear and nonlinear 2-DE and MALDI-TOF mass spectrometry. — Int. J. mol. Sci. 13: 16065–16083, 2012.
Jonas, E., Koning, D.J.: Does genomic selection have a future in plant breeding? — Trends Biotechnol. 31: 497–504, 2013.
Jones, H.G.: Use of thermography for quantitative studies of spatial and temporal variation of stomatal conductance over leaf surfaces. — Plant Cell Environ. 22: 1043–1055, 1999.
Jones, H.G.: Monitoring plant and soil water status: established and novel methods revisited and their relevance to studies of drought tolerance. — J. exp. Bot. 58: 119–130, 2007.
Jorrín, J.V., Maldonado A.M., Castillejo, M.A.: Plant proteome analysis: A 2006 update. — Proteomics 7: 2947–2962, 2007.
Kadam, S., Singh, K., Shukla, S., Goel, S., Vikram, P., Pawar, V., Gaikwad, K., Chopra, R.K., Singh, N.K.: Genomic associations for drought tolerance on the short arm of wheat chromosome 4B. — Funct. Integr. Genomics 12: 447–464, 2012.
Kakumanu, A., Ambavaram, M.M., Klumas, C., Krishnan, A., Batlang, U., Myers, E., Grene, R., Pereira, A.: Effects of drought on gene expression in maize reproductive and leaf meristem tissue revealed by RNA-seq. — Plant Physiol. 160: 846–867, 2012.
Kathiresana, A., Lafittea, H.R., Chena, J., Mansuetoa, L., Bruskiewicha, B.J.: Gene expression microarrays and their application in drought stress research. — Field Crops Res. 97: 101–110, 2006.
Kearsey, M.J., Farquhar, A.G.L.: QTL analysis in plants: where are we now? — Heredity 80: 137–142, 1998.
Khattab, H.I., Eman, M.A., Eman, M.M., Helal, N.M., Mohamed, M.R.: Effect of selenium and silicon on transcription factors NAC5 and DREB2A involved in drought-responsive gene expression in rice. — Biol. Plant. 58: 265–273, 2014.
Khazaei, H., O’sullivan, D.M., Sillanpää, M.J., Stoddard, F.L.: Use of synteny to identify candidate genes underlying QTL controlling stomatal traits in faba bean (Vicia faba L.). — Theor. appl. Genet. 127: 2371–2385, 2014.
Khazaei, H., Street, K., Bari, A., Mackay, M., Stoddard, F.L.: The FIGS (Focused Identification of Germplasm Strategy) approach identifies traits related to drought adaptation in Vicia faba genetic resources. — PLoS One 8: e63107, 2013.
Kholová, J., Hash, T., Kočová, M., Vadez, V.: Does a terminal drought tolerance QTL contribute to differences in ROS scavenging enzymes and photosynthetic pigments in pearl millet exposed to drought? — Environ. exp. Bot. 71: 99–106, 2011.
Knight, H., Knight, M.R.: Abiotic stress signalling pathways: specificity and cross-talk. — Trends Plant Sci. 6: 262–267, 2001.
Koller, A., Washburn, M.P., Lange, B.M., Andon, N.L., Deciu, C., Haynes, P.A., Hays, L., Schieltz, D., Ulaszek, R., Wei, J., Wolters, D., Yates, J.R.: Proteomic survey of metabolic pathways in rice. — Proc. nat. Acad. Sci. USA 99: 11969–11974, 2002.
Komatsu, S., Mock, H.P., Yang, P., Svensson, B.: Application of proteomics for improving crop protection/artificial regulation. — Front. Plant Sci. 4: 522, 2013.
Kosová, K., Vítámvás, P., Prášil, I.T.: Proteomics of stress responses in wheat and barley - earch for potential protein markers of stress tolerance. — Front. Plant Sci. 5: 711. 2014a.
Kosová, K., Vítámvás, P., Prášil, I.T.: Wheat and barley dehydrins under cold, drought, and salinity - what can LEA-II proteins tell us about plant stress response? — Front. Plant Sci. 5: 343, 2014b.
Lakshmanan, M., Zhang, Z., Mohanty, B., Kwon, J.Y., Choi, H.Y., Nam, H.J., Kim, D.L., Lee, D.Y.: Elucidating rice cell metabolism under flooding and drought stresses using fluxbased modeling and analysis. — Plant Physiol. 162: 2140–2150, 2013.
Landi, P., Sanguineti, M.C., Salvi, S., Giuliani, S., Bellotti, M., Maccaferri, M., Conti, S., Tuberosa, R.: Validation and characterization of a major QTL affecting leaf ABA concentration in maize. — Mol. Breed. 15: 291–303, 2005.
Lawlor, D.W., Cornic, G.: Photosynthetic carbon assimilation and associated metabolism in relation to water deficits in higher plants. — Plant Cell Environ. 25: 275–294, 2002.
Lazacano-Ferrat, I., Lovat, C.J.: Relationship between relative water content, nitrogen pools, and growth of Phaseolus vulgaris L. and P. acutifoolius A. Gray during water deficit. — Crop Sci. 39: 467–475, 1999.
Li, X., Han, Y., Teng, W., Zhang, S., Yu, K., Poysa, V., Anderson, T., Ding, J., Li, W.: Pyramided QTL underlying tolerance to Phytophthora root rot in mega-environment from soybean cultivar ‘Conrad’ and ‘Hefeng 25’. — Theor. appl. Genet. 121: 651–658, 2010.
Lisec, J., Römisch-Margl, L., Nikoloski, Z., Piepho, H.P., Giavalisco, P., Selbig, J., Gierl, A., Willmitzer, L.: Corn hybrids display lower metabolite variability and complex metabolite inheritance patterns. — Plant J. 68: 326–336, 2011.
Mackay, I., Powell, W.: Methods for linkage disequilibrium mapping in crops. — Trends Plant Sci. 12: 57–63, 2007.
Mackill, D.J., Nguyen, H.T., Zhan, J.: Use of molecular markers in plant improvement programs for rainfed lowland rice. — Field Crops Res. 64: 177–185, 1999.
Mackill, D.J., Ni, J.: Molecular mapping and marker assisted selection for major-gene traits in rice. — In Khush, G.S., Brar, D.S., Hardy, B. (ed.): Rice Genetics. Vol. IV. Pp. 137–151. International Rice Research Institute, Los Baños 2001.
Majewski, J., Pastinen, T.: The study of eQTL variations by RNA-seq: from SNPs to phenotypes. — Trends Genet. 27: 72–79, 2011.
Maksup, S., Roytraku, S., Supaibulwatana, K.: Proteome and transcriptional responses in three contrasting indica rice (Oryza sativa L. ssp. indica) under water stress. — In: CU-MUSC Graduate Forum in Plant Biotechnology 2012.
Malone, J.H., Oliver, B.: Microarrays, deep sequencing and the true measure of the transcriptome. — BMC Biol. 9: 34, 2011.
Mano, Y., Takeda, K.: Mapping quantitative trait loci for salt tolerance at germination and the seedling stage in barley (Hordeum vulgare L). — Euphytica 94: 263–272, 1997.
Mardani, Z., Rabiei, B., Sabouri, H., Sabouri, A.: Mapping of QTLs for germination characteristics under non-stress and drought stress in rice. — Rice Sci. 20: 391–399, 2013.
McCouch, S.R., Doerge, R.W.: QTL mapping in rice. — Trends Genet. 11: 482–487, 1995.
Meuwissen, T.H.E., Hayes, B.J., Goddard, M.E.: Prediction of total genetic value using genome-wide dense marker maps. — Genetics 157: 1819–1829, 2001.
Minh-Thu, P.T., Hwang, D.J., Jeon, J.S., Nahm, B.H., Kim, Y.K.: Transcriptome analysis of leaf and root of rice seedling to acute dehydration. — Rice 6: 38, 2013.
Mir, R.R., Zaman-Allah, M., Sreenivasulu, N., Trethowan, R., Varshney, R.K.: Integrated genomics, physiology and breeding approaches for improving drought tolerance in crops. — Theor. appl. Genet. 125: 625–645, 2012.
Mishra, A.K., Singh, V.P.: A review of drought concepts. — J. Hydrol. 391: 202–216, 2010.
Mitchell-Olds, T.: Complex-trait analysis in plants. — Genome Biol. 11: 113, 2010.
Mohan, M., Nair, S., Bhagwat, A., Krishna, T.G., Yano, M., Bhatia, C.R., Sasaki, T.: Genome mapping, molecular markers and marker-assisted selection in crop plants. — Mol. Breed. 3: 87–103, 1997.
Mohler, V., Singrun, C.: General considerations: markerassisted selection. — In: Lörz, H., Wenzel, G. (ed.): Molecular Marker Systems in Plant Breeding and Crop Improvement (Biotechnology in Agriculture and Forestry. Vol. 55). Pp. 305–317. Springer-Verlag, Berlin - Heidelberg 2004.
Muchero, W., Ehlers, J.D., Close, T.J., Roberts, P.A.: Mapping QTL for drought stress-induced premature senescence and maturity in cowpea [Vigna unguiculata (L.) Walp.]. — Theor. appl. Genet. 118: 849–863, 2009.
Nakaya, A., Isobe, S.N.: Will genomic selection be a practical method for plant breeding? — Ann. Bot. 110: 1303–1316, 2012.
Neves-Borges, A.C., Guimarães-Dias, F., Cruz, F., Mesquita, R.O., Nepomuceno, A.L., Romano, E., Loureiro, M.E., Grossi-de-Sá, M.F., Ferreira, M.A.: Expression pattern of drought stress marker genes in soybean roots under two water deficit systems. — Genet. mol. Biol. 35: 212–221, 2012.
Oh, S.J., Kim, Y.S., Kwon, C., Park, H.K., Jeong, J.S., Kim, J.K.: Overexpression of the transcription factor AP37 in rice improves grain yield under drought conditions. — Plant Physiol. 150: 1368–1379, 2009.
Oh, S.J., Song, S.I., Kim, Y.S., Jang, H.J., Kim, S.Y., Kim, M., Kim, Y.K., Nahm, B.H., Kim, J.K.: Arabidopsis CBF3/DREB1A and ABF3 in transgenic rice increased tolerance to abiotic stress without stunting growth. — Plant Physiol. 138: 341–351, 2005.
O’Toole, J.C.: Molecular approaches for the genetic improvement of cereals for stable production in water limited environments. — In: Ribaut, J.M., Poland, D. (ed.): A Strategic Planning Workshop. CIMMYT, El Batan 1999.
Padmalatha, K.V., Dhandapani, G., Kanakachari, M., Kumar, S., Dass, A., Patil, D.P., Rajamani, V., Kumar, K., Pathak, R., Rawat, B., Leelavathi, S., Reddy, P.S., Jain, N., Powar, K.N., Hiremath, V., Katageri, I.S., Reddy, M.K., Solanke, A.U., Reddy, V.S., Kumar P.A.: Genome-wide transcriptomic analysis of cotton under drought stress reveals significant down-regulation of genes and pathways involved in fibre elongation and up-regulation of defense responsive genes. — Plant mol. Biol. 78: 223–246, 2012.
Pantuwan, G., Fukai, S., Cooper, M., Rajatasereekul, S., O’Toole, J.C.: Yield response of rice (Oryza sativa L) genotypes to different types of drought under rainfed lowlands. Part1. Grain yield and yield components. — Field Crops Res. 73: 153–168, 2002.
Pavli, O.I., Vlachos, C.E., Kalloniati, C., Flemetakis, E., Skaracis, G.N.: Metabolite profiling reveals the effect of drought on sorghum (Sorghum bicolor L. Moench) metabolism. — Plant Omics J. 6: 371–376, 2013.
Postel, S.: Redesigning irrigated agriculture. — In: Brown, L.R., Flavin, C., French, H. (ed.): State of the World, 2000. Pp. 39–58. W.W. Norton and Co, New York 1999.
Prudhomme, C., Giuntoli, I., Robinson, E.L., Clark, D.B., Arnell, N.W., Dankers, R., Fekete, B.M., Franssen, W., Gerten, D., Gosling, S.N., Hagemann, S., Hannah, D.M., Kim, H., Masaki, Y., Satoh, Y., Stacke, T., Wada, Y., Wisser, D.: Hydrological droughts in the 21st century: hotspots and uncertainties from a global multimodel ensemble experiment. — Proc. nat. Acad. Sci. USA 111: 3262–3267, 2014.
Rafalski, J.A.: Association genetics in crop improvement. — Curr. Opin. Plant Biol. 13: 174–180, 2010.
Ramu, P., Kassahun, B., Senthilvel, S., Ashok Kumar, C., Jayashree, B., Folkertsma, R.T., Ananda Reddy L., Kuruvinashetti, M.S., Haussmann, B.I.G., Hash, C.T.: Exploiting rice-sorghum synteny for targeted development of EST-SSRs to enrich the sorghum genetic linkage map. — Theor. appl. Genet. 119: 1193–1204, 2009.
Ravi, K., Vadez, V., Isobe, S., Mir, R.R., Guo, Y., Nigam, S.N., Gowda, M.V.C., Radhakrishnan, T., Bertioli, D.J., Knapp, S.J., Varshney, R.K.: Identification of several small maineffect QTLs and a large number of epistatic QTLs for drought tolerance in groundnut (Arachis hypogaea L.). — Theor. appl. Genet. 122: 1119–1132, 2011.
Reddy, S.K., Liua, S., Rudda, J.C., Xuea, Q., Paytonb, P., Finlaysonc, S.A., Mahanb, J., Akhunovad, A., Holaluc, S.V., Lue, N.: Physiology and transcriptomics of waterdeficit stress responses in wheat cultivars TAM 111 and TAM 112. — J. Plant Physiol. 171: 1289–1298, 2014.
Rehman, A., Malhotra, R., Bett, K., Tar’an, B., Bueckert, R., Warkentin, T.: Mapping QTL associated with traits affecting grain yield in chickpea (Cicer arietinum L.) under terminal drought stress. — Crop Sci. 51: 450–463, 2011.
Ribaut, J.M., Ragot, M.: Marker-assisted selection to improve drought adaptation in maize: the backcross approach, perspectives, limitations, and alternatives. — J. exp. Bot. 58: 351–360, 2007.
Richardson, K.L., Vales, M.I., Kling, J.G., Mundt, C.C., Hayes, P.M.: Pyramiding and dissecting disease resistance QTL to barley stripe rust. — Theor. appl. Genet. 113: 485–495, 2006.
Rollins, J.A., Habte, E., Templer, S.E., Colby, T., Schmidt, J., Von Korff, M.: Leaf proteome alterations in the context of physiological and morphological responses to drought and heat stress in barley (Hordeum vulgare L.). — J. exp. Bot. 64: 3201–3212, 2013.
Sakhi, S., Shehzad, T., Rehman, S., Okuno, K.: Mapping the QTLs underlying drought stress at developmental stage of sorghum (Sorghum bicolor (L.) Moench) by association analysis. — Euphytica 193: 433–450, 2013.
Salekdeh, G.H., Siopongco, J., Wade, L.J., Ghareyazie, B., Bennett, J.: A proteomic approach to analysing drought- and salt-responsiveness in rice. — Field Crops Res. 76: 199–219, 2002.
Sanchez, D.H., Schwabe, F., Erban, A., Udvardi, M.K., Kopka, J.: Comparative metabolomics of drought acclimation in model and forage legumes. — Plant Cell Environ. 35: 136–149, 2012.
Sasaki, K., Kazama, Y., Chae, Y., Sato, T.: Confirmation of novel quantitative trait loci for seed dormancy at different ripening stages in rice. — Rice Sci. 20: 207–212, 2013.
Seiler, C., Harshavardhan, V.T., Rajesh, K., Reddy, P.S., Strickert, M., Rolletschek, H., Scholz, U., Wobus, U., Sreenivasulu, N.: ABA biosynthesis and degradation contributing to ABA homeostasis during barley seed development under control and terminal drought-stress conditions. — J. exp. Bot. 62: 2615–2632, 2011.
Semagn, K., Beyene, Y., Babu, R., Nair, S., Gowda, M., Das, B., Tarekegne, A., Mugo, S., Mahuku, G., Worku, M., Warburton, M.L., Olsen, M., Prasanna, B.M.: QTL mapping and molecular breeding for developing stress resilient maize for sub-Saharan Africa. — Crop Sci. 5: 1–11, 2015.
Semagn, K., Beyene, Y., Warburton, M., Tarekegne, A., Mugo, S., Meisel, B., Sehabiague, P. Prasanna, B.M.: Metaanalyses of QTL for grain yield and anthesis silking interval in 18 maize populations evaluated under water-stressed and well-watered environments. — BMC Genomics 14: 313, 2013.
Serraj, R., Hash, C.T., Rizvi, S.M., Sharma, A., Yadav, R.S., Bidinger, F.R.: Recent advances in marker-assisted selection for drought tolerance in pearl millet. — Plant Prod. Sci. 8: 334–337, 2005.
Shao, H., Chu, L., Shao, M., Jaleel, C.A., Hong-mei, M.: Higher plant antioxidants and redox signaling under environmental stresses. — C.R. Biol. 331: 433–441, 2008.
Shen, L., Courtois, B., McNally, K.L., Robin, S., Li, Z.: Evaluation of near-isogenic lines of rice introgressed with QTLs for root depth through marker-aided selection. — Theor. appl. Genet. 103: 427–437, 2001.
Shiriga, K., Sharma, R., Kumar, K., Yadav, S.K., Hossain, F., Thirunavukkarasu, N.: Genome-wide identification and expression pattern of drought-responsive members of the NAC family in maize. — Meta Gene 2: 407–417, 2014.
Shu, Y.J., Yu, D.S., Wang, D., Bai, X., Zhu, Y.M., Guo, C.H.: Genomic selection of seed weight based on low-density SCAR markers in soybean. — Genet. mol. Res. 12: 2178–2188, 2013.
Silvente, S., Sobolev, A.P., Lara, M.: Metabolite adjustments in drought tolerant and sensitive soybean genotypes in response to water stress. — PLoS One 7: e38554, 2012.
Siopongco, J.D.L.C., Yamauchi, A., Salekdeh, H., Bennett, J., Wade, L. J.: Growth and water use response of doubled haploid rice lines to drought and rewatering during the vegetative stage. — Plant Prod. Sci. 9: 141–151, 2006.
Song, Z.-Z., Yang, S.-Y., Zuo, J., Su, Y.-H.: Over-expression of ApKUP3 enhances potassium nutrition and drought tolerance in transgenic rice. — Biol. Plant. 58: 649–658, 2014.
Srividhya, A., Vemireddy, L.R., Sridhar, S., Jayaprada, M., Ramanarao, P.V., Hariprasad, A.S., Reddy, H.K., Anuradha, G., Siddiq, E.: Molecular mapping of QTLs for yield and its components under two water supply conditions in rice (Oryza sativa L.). — J. Crop Sci. Biotechnol. 14: 45–56, 2011.
Steele, K.A., Price, A.H., Shashidhar, H.E., Witcombe, R.: Marker-assisted selection to introgress rice QTLs controlling root traits into an Indian upland rice variety. — Theor. appl. Genet. 112: 208–215, 2006.
Swamy, B.P.M., Vikram, P., Dixit, S., Ahmed, H., Kumar, A.: Meta-analysis of grain yield QTL identified during agricultural drought in grasses showed consensus. — BMC Genomics 12: 319, 2011.
Tai, F.J., Yuan, Z.L., Wu, X.L., Zhao, P.F., Hu, X.L., Wang, W.: Identification of membrane proteins in maize leaves, altered in expression under drought stress through polyethylene glycol treatment. — Plant Omics J. 4: 250–256, 2011.
Tanksley, S.D.: Molecular markers in plant breeding. — Plant mol. Biol. Rep. 1: 1–3, 1983.
Taramino, G., Tarchini, R., Ferrario, S., Lee, M., Pe’, M.E.: Characterization and mapping of simple sequence repeats (SSRs) in Sorghum bicolour. — Theor. Appl. Genet. 95: 66–72, 1997.
Teng, S.H., Zeng, D.L., Qian, Q., Kunihifo, Y., Huang, D.N., Zhu, L.H.: QTL analysis of rice low temperature germinability. — Chin. Sci. Bull. 46: 1081–1083, 2001.
Thudi, M., Gaur, P.M., Krishnamurthy, L., Mir, R.R., Kudapa, H., Fikre, A., Kimurto, P., Tripathi, S., Soren, K.R., Mulwa, R., Bharadwaj, C., Datta, S., Chaturvedi, S.K., Varshney, R.K.: Genomics-assisted breeding for drought tolerance in chickpea. — Funct. Plant Biol. 41: 1178–1190, 2013.
Thudi, M., Upadhyaya, H.D., Rathore, A., Gaur, P.M., Krishnamurthy, L., Roorkiwal, M., Nayak, S.N., Chaturvedi, S.K., Basu, P.S., Gangarao, N.V., Fikre, A., Kimurto, P., Sharma, P.C., Sheshashayee, M.S., Tobita, S., Kashiwagi, J., Ito, O., Killian, A., Varshney, R.K.: Genetic dissection of drought and heat tolerance in chickpea through genome-wide and candidate gene-based association mapping approaches. — PLoS One 9: e96758, 2014.
Toenniessen, G.H., O’Toole, J.C., De, V.J.: Advances in plant biotechnology and its adoption in developing countries. — Curr. Opin. Plant Biol. 6: 191–198, 2003.
Townley-Smith, T.F., Hurd, E.A.: Testing and selecting for drought resistance in wheat. — In: Mussell, H., Staples, R.C. (ed.): Stress Physiology in Crop Plants. Pp. 447–464. John Wiley and Sons, New York 1979.
Tyagi, S., Raghvendra, Singh U., Kalra, T., Munja, K.: Applications of metabolomics - a systematic study of the unique chemical fingerprints: an overview. — Int. J. Pharm. Sci. Rev. Res. 3: 83–86, 2010.
Uga, Y., Okuno, K., Yano, M.: Dro1, a major QTL involved in deep rooting of rice under upland field conditions. — J. exp. Bot. 62: 2485–2494, 2011.
Uga Y., Yamamoto, E., Kanno, N., Kawai, S., Mizubayashi, T., Fukuoka, S.: A major QTL controlling deep rooting on rice chromosome 4. — Sci. Rep. 3: 3040, 2013.
Varshney, R.K., Gaur, P.M., Chamarthi, S.K., Krishnamurthy, L., Tripathi, S., Kashiwagi, J., Samineni, S., Singh, V.K., Thudi, M., Jaganathan, D.: Fast-track introgression of “QTL-hotspot” for root traits and other drought tolerance traits in JG 11, an elite and leading variety of chickpea. — Plant Genome 6: 3, 2013a.
Varshney, R.K., Hiremath, P.J., Lekha, P., Kashiwagi, J., Balaji, J., Deokar, A.A., Vadez, V., Xiao, Y., Srinivasan, R., Gaur, P.M., Siddique, K.H.M., Town, C.D., Hoisington, D.A.: A comprehensive resource of drought- and salinity-responsive ESTs for gene discovery and marker development in chickpea (Cicer arietinum L.). — BMC Genomics 10: 523, 2009.
Varshney, R.K., Murali Mohan, S., Gaur, P.M. Gangarao, N.V., Pandey, M.K., Bohra, A., Sawargaonkar, S.L., Chitikineni, A., Kimurto, P.K., Janila, P., Saxena, K.B., Fikre, A., Sharma, M., Rathore, A., Pratap, A., Tripathi, S., Datta, S., Chaturvedi, S.K., Mallikarjuna, N., Anuradha, G., Babbar, A., Choudhary, A.K., Mhase, M.B., Bharadwaj, Ch., Mannur, D.M., Harer, P.N., Guo, B., Liang, X., Nadarajan, N., Gowda, C.L.: Achievements and prospects of genomicsassisted breeding in three legume crops of the semi-arid tropics. — Biotechnol. Adv. 31: 1120–1134, 2013b.
Varshney, R.K., Paulo, M.J., Grando, S., Van Eeuwijk, F.A., Keizer, L.C.P., Guo, P., Ceccarelli, S., Kilian, A., Baum, M., Graner, A.: Genome wide association analyses for drought tolerance related traits in barley (Hordeum vulgare L.). — Field Crops Res. 126: 171–180, 2012.
Varshney, R.K., Sigmund, R., Börner, A., Korzun, V., Stein, N., Sorrells, M.E., Langridge, P., Graner, A.: Interspecific transferability and comparative mapping of barley EST-SSR markers in wheat, rye and rice. — Plant Sci. 168: 195–202, 2005.
Varshney, R.K., Thudi, M., Nayak, S.N., Gaur, P.M., Kashiwagi, J., Krishnamurthy, L., Jaganathan, D., Koppolu, J., Bohra, A., Tripathi, S., Rathore, A., Jukanti, A.K., Jayalakshmi, V., Vemula, A., Singh, S.J., Yasin, M., Sheshshayee, M.S., Viswanatha, K.P.: Genetic dissection of drought tolerance in chickpea (Cicer arietinum L.). — Theor. appl. Genet. 127: 445–462, 2014.
Vikram, P., Mallikarjuna Swamy, B.P., Dixit, S., Helal, U.A., Cruz, M.T.S., Singh, A.K., Kumar, A.: qDTY1.1, a major QTL for rice grain yield under reproductive-stage drought stress with a consistent effect in multiple elite genetic backgrounds. — BMC Genetics 12: 89, 2011.
Wang, P., Xing, Y., Li, Z., Yu, S.: Improving rice yield and quality by QTL pyramiding. — Mol. Breed. 29: 903–913, 2012.
Wang, Y., Zhang, Q., Zheng, T., Cui, Y., Zhang, W., Xu, J., Li, Z.: Drought-tolerance QTLs commonly detected in two sets of reciprocal introgression lines in rice. — Crop Pasture Sci. 65: 171–184, 2014.
Wang, Z.F., Wang, J.F., Bao, Y.M., Wu, Y.Y., Zhang, H.S.: Quantitative trait loci controlling rice seed germination under salt stress. — Euphytica 178: 297–307, 2011.
Welcker, C., Boussuge, B., Bencivenni, C., Ribaut, J.M., Tardieu, F.: Are source and sink strengths genetically linked in maize plants subjected to water deficit? A QTL study of the responses of leaf growth and of anthesis-silking interval to water deficit. — J. exp. Bot. 58: 339–349, 2007.
Wen, W., Li, D., Li, X., Gao, Y., Li, W., Li, H., Liu, J., Liu, H., Chen, W., Luo, J., Yan, J.: Metabolome-based genomewide association study of maize kernel leads to novel biochemical insights. — Nat. Commun. 5: 3438, 2014.
Wentzell, A.M., Rowe, H.C., Hansen, B.G., Ticconi, C., Halkier, B.A., Kliebenstein, D.J.: Linking metabolic QTLs with network and cis eQTLs controlling biosynthetic pathways. — PLoS Genet. 3: e162, 2007.
Wójcik-Jagla, M., Rapacz, M., Tyrka, M., Kościelniak, J., Crissy, K., Żmuda, K.: Comparative QTL analysis of early short-time drought tolerance on Polish fodder and malting spring barleys. — Theor. appl. Genet. 126: 3021–3034, 2013.
Wu, J., Wang, L., Li, L., Wang, S.: De novo assembly of the common bean transcriptome using short reads for the discovery of drought-responsive genes. — PLoS One 9: e109262, 2014.
Xiong, J.H., Fu, B.Y., Xu, H.X., Li, Y.S.: Proteomic analysis of PEG-simulated drought stress responsive proteins of rice leaves using a pyramiding rice line at the seedling stage. — Bot. Stud. 51: 137–145, 2010.
Xiong, L., Wang, R.G., Mao, G., Koczan, J.M.: Identification of drought tolerance determinants by genetic analysis of root response to drought stress and abscisic acid. — Plant Physiol. 142: 1065–1074, 2006.
Xu, J., Yuan, Y., Xu, Y., Zhang, G., Guo, X., Wu, F., Wang, Q., Rong, T., Pan, G., Cao, M., Tang, Q., Gao, S., Liu, Y., Wang, J., Lan, H., Lu, Y.: Identification of candidate genes for drought tolerance by whole-genome resequencing in maize. — BMC Plant Biol. 14: 83, 2014.
Xu. Y., Crouch, J.H.: Marker-Assisted Selection in Plant Breeding: From Publications to Practice. — Crop Sci. 48: 391–407, 2008.
Yang, W., Wang, M., Yue, A., Wu, J., Li, S., Li, G., Du, W.: QTLs and epistasis for drought-tolerant physiological index in soybean (Glycine max L.) across different environments. — Caryologia 67: 72–78, 2014.
Ye, J., Wang, S., Zhang, F., Xie, D., Yao, Y.: Proteomic analysis of leaves of different wheat genotypes subjected to PEG 6000 stress and rewatering. — Plant Omics J. 6: 286–294, 2013.
Yonemaru, J., Ando, T., Mizubayashi, T., Kasuga, S., Matsumoto, T., Yano, M.: Development of genome-wide simple sequence repeat markers using whole-genome shotgun sequences of Ssrghum (Sorghum bicolor (L.) Moench). — DNA Res. 16: 187–193, 2009.
Young, N.D., Tanksley, S.D.: Restriction fragment length polymorphism maps and the concept of graphical genotypes. — Theor. appl. Genet. 77: 95–101, 1989.
Yu, J.M., Buckler, E.S.: Genetic association mapping and genome organization of maize. — Curr. Opin. Biotechnol. 17: 155–160, 2006.
Zargar, S.M., Nazir, M., Cho, K., Kim, D.W., Jones, O.A.H., Sarkar, A., Agrawal, S.B., Shibato, J., Kubo, A., Jwa, N.S., Agrawal, G.K., Rakwal, R.: Impact of climatic changes on crop agriculture: OMICS for sustainability and next generation crops. — In: Noureddine, B. (ed): Sustainable Agriculture and New Bio-Technologies. Pp. 453–477. Taylor and Francis, CRC Press, London 2010.
Zhang, X., Pérez-Rodríguez, P., Semagn, K., Beyene, Y., Babu, R., López-Cruz, M.A., San Vicente, F., Olsen, M., Buckler, E., Jannink, J.L., Prasanna, B.M., Crossa, J.: Genomic prediction in biparental tropical maize populations in waterstressed and well-watered environments using low-density and GBS SNPs. — Heredity 114: 291–299, 2015.
Zhao, Y., Gowda, M., Lium, W., Würschum, T., Maurer, H.P., Longin, F.H., Ranc, N., Reif, J.C. Accuracy of genomic selection in European maize elite breeding populations. — Theor. appl. Genet. 124: 769–776, 2012.
Ziyomo, C., Bernardo, R.: Drought tolerance in maize: indirect selection through secondary traits versus genome wide selection. — Crop Sci. 53: 1269–1275, 2012.
Author information
Authors and Affiliations
Corresponding authors
Additional information
Acknowledgment: AB acknowledges support from the Indian Council of Agricultural Research (ICAR), New Delhi, India. The first two authors contributed equally to this paper.
Electronic supplementary material
Rights and permissions
About this article
Cite this article
Singh, B., Bohra, A., Mishra, S. et al. Embracing new-generation ‘omics’ tools to improve drought tolerance in cereal and food-legume crops. Biol Plant 59, 413–428 (2015). https://doi.org/10.1007/s10535-015-0515-0
Received:
Revised:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s10535-015-0515-0