Effects of agricultural production systems and their components on protein profiles of potato tubers

Lehesranta, Satu J.; Koistinen, Kaisa M.; Massat, Nathalie; Davies, Howard V.; Shepherd, Louise V. T.; McNicol, James W.; Cakmak, Ismail; Cooper, Julia; Lück, Lorna; Kärenlampi, Sirpa O.; Leifert, Carlo

doi:10.1002/pmic.200600889

Cited by 83Potato Plant ResearchOrganic Food and AgricultureFood and Agricultural Sciences

Effects of agricultural production systems and their components on protein profiles of potato tubers

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Lehesranta, Satu J., Koistinen, Kaisa M., Massat, Nathalie, Davies, Howard V., Shepherd, Louise V. T., McNicol, James W., Cakmak, Ismail, Cooper, Julia +3 more·2007·PROTEOMICS

DOI 10.1002/pmic.200600889

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Abstract

A range of studies have compared the level of nutritionally relevant compounds in crops from organic and nonorganic farming systems, but there is very limited information on the effect of farming systems and their key components on the protein composition of plants. We addressed this gap by quantifying the effects of different farming systems and key components of such systems on the protein profiles of potato tubers. Tuber samples were produced in the Nafferton factorial systems study, a group of long‐term, replicated factorial field experiments designed to identify and quantify the effect of fertility management methods, crop protection practices and rotational designs used in organic, low input and conventional production systems. Protein profiles were determined by 2‐DE and subsequent protein identification by HPLC‐ESI‐MS/MS. Principal component analysis of 2‐DE data showed that only fertility management practices (organic matter vs. mineral fertiliser based) had a significant effect on protein composition. Quantitative differences were detected in 160 of the 1100 tuber proteins separated by 2‐DE. Proteins identified by MS are involved in protein synthesis and turnover, carbon and energy metabolism and defence responses, suggesting that organic fertilisation leads to an increased stress response in potato tubers.

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The switch from mineral to organic fertilisers results in significant differences in gene and protein expression patterns and, as a result, in secondary metabolite profiles; approximately 10% of proteins have been found to be either up- or down-regulated in response to contrasting fertiliser inputs in potato and wheat.
“Recent studies have shown that the switch from mineral to organic fertilisers results in significant differences in gene and protein expression patterns and, as a result, in secondary metabolite profiles; for example, approximately 10 % of proteins have been found to be either up- or down-regulated in response to contrasting fertiliser inputs in potato and wheat( 10 – 15 ).”
From Higher antioxidant and lower cadmium concentrations and lower incidence of pesticide residues in organically grown crops: a systematic literature review and meta-analyses (2014) · cites this paper as [11]
A switch from pesticide-based conventional to organic crop protection protocols has a significant but more limited effect than fertilisation regimens on gene and protein expression patterns.
“Also, a switch from pesticide-based conventional to organic crop protection protocols has been shown to have a significant, but more limited effect than fertilisation regimens”
From Higher antioxidant and lower cadmium concentrations and lower incidence of pesticide residues in organically grown crops: a systematic literature review and meta-analyses (2014) · cites this paper as [11]
There are statistically significant interactions between fertilisation and crop protection protocols with respect to gene and protein expression patterns.
“there were some statistically significant interactions between fertilisation and crop protection protocols with respect to gene and protein expression pattern”
From Higher antioxidant and lower cadmium concentrations and lower incidence of pesticide residues in organically grown crops: a systematic literature review and meta-analyses (2014) · cites this paper as [11]
Both genetic and environmental/agronomic factors are known to affect the concentrations of N, [nitrate/nitrite], proteins, sugars, antioxidants/(poly)phenolics, Cd and pesticides in crops.
“This is not surprising as both genetic and environmental/agronomic factors are known to affect the concentrations of N, , , proteins, sugars, antioxidants/(poly)phenolics, Cd and pesticides in crops( 7 , 9 – 12 , 20 , 47 – 52 , 62 ).”
From Higher antioxidant and lower cadmium concentrations and lower incidence of pesticide residues in organically grown crops: a systematic literature review and meta-analyses (2014) · cites this paper as [11]

Soil Fertility and Biodiversity in Organic Farming
Maeder, P., Fließbach, A., Dubois, D., Gunst, L., Fried, P. M., & Niggli, U. A. (2002) · Science · doi:10.1126/science.1071148 · Cited by 2,946 · see citing works
Role of plant heat-shock proteins and molecular chaperones in the abiotic stress response
Wang, W., Vinocur, B. J., Shoseyov, O., & Altman, A. (2004) · Trends in Plant Science · doi:10.1016/j.tplants.2004.03.006 · Cited by 2,759 · see citing works
Superoxide Dismutase and Stress Tolerance
Bowler, C., MONTAGU, M. V., & Inzé, D. (1992) · Annual Review of Plant Physiology and Plant Molecular Biology · doi:10.1146/annurev.pp.43.060192.000503 · Cited by 2,433 · see citing works
The 26S Proteasome: A Molecular Machine Designed for Controlled Proteolysis
Voges, D., Zwickl, P., & Baumeister, W. P. (1999) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.68.1.1015 · Cited by 1,894 · see citing works
Genome-Wide Reprogramming of Primary and Secondary Metabolism, Protein Synthesis, Cellular Growth Processes, and the Regulatory Infrastructure of Arabidopsis in Response to Nitrogen
Scheible, W., Morcuende, R., Czechowski, T., Fritz, C., Osuna, D., Palacios‐Rojas, N., Schindelasch, D., Thimm, O., Udvardi, M. K., & Stitt, M. (2004) · PLANT PHYSIOLOGY · doi:10.1104/pp.104.047019 · Cited by 1,047 · see citing works
Comparison of the Total Phenolic and Ascorbic Acid Content of Freeze-Dried and Air-Dried Marionberry, Strawberry, and Corn Grown Using Conventional, Organic, and Sustainable Agricultural Practices
Asami, D. K., Hong, Y., Barrett, D. M., & Mitchell, A. E. (2003) · Journal of Agricultural and Food Chemistry · doi:10.1021/jf020635c · Cited by 997 · see citing works
A Comparison of the Nutritional Value, Sensory Qualities, and Food Safety of Organically and Conventionally Produced Foods
Bourn, D. M., & Prescott, J. (2002) · Critical Reviews in Food Science and Nutrition · doi:10.1080/10408690290825439 · Cited by 859 · see citing works
Systemic Acquired Resistance and Induced Systemic Resistance in Conventional Agriculture
Vallad, G. E., & Goodman, R. M. (2004) · Crop Science · doi:10.2135/cropsci2004.1920 · Cited by 825 · see citing works
Organic and synthetic fertility amendments influence soil microbial, physical and chemical properties on organic and conventional farms
Bulluck, L. R., Brosius, M. R., Evanylo, G. K., & Ristaino, J. B. (2002) · Applied Soil Ecology · doi:10.1016/s0929-1393(01)00187-1 · Cited by 695 · see citing works
A Comparison of Organically and Conventionally Grown Foods—Results of a Review of the Relevant Literature
Woese, K., Lange, D., Boess, C., & Bögl, K. (1997) · Journal of the Science of Food and Agriculture · doi:10.1002/(sici)1097-0010(199707)74:3 · Cited by 651 · see citing works
A total system approach to sustainable pest management
Lewis, W. J., van Lenteren, J. C., Phatak, S. C., & Tumlinson, J. H. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.23.12243 · Cited by 622 · see citing works
Nitrate regulation of metabolism and growth
Stitt, M. D. (1999) · Current Opinion in Plant Biology · doi:10.1016/s1369-5266(99)80033-8 · Cited by 588 · see citing works
Regulation of protease inhibitors and plant defense
Koiwa, H., Bressan, R. A., & Hasegawa, P. M. (1997) · Trends in Plant Science · doi:10.1016/s1360-1385(97)90052-2 · Cited by 497 · see citing works
Organic agriculture: does it enhance or reduce the nutritional value of plant foods?
Brandt, K., & Mølgaard, J. P. (2001) · Journal of the Science of Food and Agriculture · doi:10.1002/jsfa.903 · Cited by 456 · see citing works
Carbon and nitrogen sensing and signaling in plants: emerging ‘matrix effects’
Coruzzi, G. M., & Zhou, L. (2001) · Current Opinion in Plant Biology · doi:10.1016/s1369-5266(00)00168-0 · Cited by 453 · see citing works
Genetic engineering of the glyoxalase pathway in tobacco leads to enhanced salinity tolerance
Singla-Pareek, S. L., Reddy, M. K., & Sopory, S. K. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2034667100 · Cited by 406 · see citing works
Organic Food: Buying More Safety or Just Peace of Mind? A Critical Review of the Literature
Magkos, F., Arvaniti, F., & Zampelas, A. (2006) · Critical Reviews in Food Science and Nutrition · doi:10.1080/10408690490911846 · Cited by 370 · see citing works
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Cánovas, F. M., Dumas‐Gaudot, E., Recorbet, G., et al. (2004) · PROTEOMICS · doi:10.1002/pmic.200300602 · Cited by 342 · see citing works
Markers and signals associated with nitrogen assimilation in higher plants
Foyer, C. H., Parry, M. A. J., & Noctor, G. (2002) · Journal of Experimental Botany · doi:10.1093/jxb/erg053 · Cited by 309 · see citing works
Structure and function of plant aspartic proteinases
Simões, I., & Faro, C. (2004) · European Journal of Biochemistry · doi:10.1111/j.1432-1033.2004.04136.x · Cited by 297 · see citing works
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Carbonaro, M., Mattera, M., Nicoli, S. F., Bergamo, P., & Cappelloni, M. (2002) · Journal of Agricultural and Food Chemistry · doi:10.1021/jf0202584 · Cited by 249 · see citing works
Comparison of Tuber Proteomes of Potato Varieties, Landraces, and Genetically Modified Lines
Lehesranta, S. J., Davies, H. V., Shepherd, L. V. T., Nunan, N., McNicol, J., Auriola, S. O. K., Koistinen, K. M., Suomalainen, S., Kokko, H. I., & Kärenlampi, S. O. (2005) · PLANT PHYSIOLOGY · doi:10.1104/pp.105.060152 · Cited by 213 · see citing works
Self-citation
Phytochemical phenolics in organically grown vegetables
Young, J. E., Zhao, X., Carey, E. E., Welti, R., Yang, S., & Wang, W. (2005) · Molecular Nutrition & Food Research · doi:10.1002/mnfr.200500080 · Cited by 212 · see citing works
Expression Profiles of 10,422 Genes at Early Stage of Low Nitrogen Stress in Rice Assayed using a cDNA Microarray
Lian, X., Wang, S., Zhang, J., Feng, Q., Zhang, L., Fan, D., Li, X., Yuan, D., Han, B., & Zhang, Q. (2006) · Plant Molecular Biology · doi:10.1007/s11103-005-5441-7 · Cited by 190 · see citing works
Metabolite Profiling of Wheat Grains (Triticum aestivumL.) from Organic and Conventional Agriculture
Zörb, C., Langenkämper, G., Betsche, T., et al. (2006) · Journal of Agricultural and Food Chemistry · doi:10.1021/jf0615451 · Cited by 116 · see citing works
Proteomic analysis of the potato tuber life cycle
Lehesranta, S. J., Davies, H. V., Shepherd, L. V. T., Koistinen, K. M., Massat, N. J., Nunan, N., McNicol, J. W., & Kärenlampi, S. O. (2006) · PROTEOMICS · doi:10.1002/pmic.200600383 · Cited by 86 · see citing works
Self-citation
Identification of patatin as a novel allergen for children with positive skin prick test responses to raw potato
Seppälä, U., Alenius, H. T., Turjanmaa, K., Reunala, T. L., Palosuo, T., & Kalkkinen, N. (1999) · Journal of Allergy and Clinical Immunology · doi:10.1016/s0091-6749(99)70541-5 · Cited by 85 · see citing works
Comparison of the Anthocyanin Composition during Ripening of Syrah Grapes Grown Using Organic or Conventional Agricultural Practices
Vian, M. A., Tomao, V., Coulomb, P. O., Lacombe, J., & Dangles, O. (2006) · Journal of Agricultural and Food Chemistry · doi:10.1021/jf0531609 · Cited by 79 · see citing works
Characterization of a sulfurtransferase from Arabidopsis thaliana
Papenbrock, J., & Schmidt, A. (2000) · European Journal of Biochemistry · doi:10.1046/j.1432-1327.2000.00980.x · Cited by 78 · see citing works
Characterization of expression, and cloning, of -D-xylosidase and -L-arabinofuranosidase in developing and ripening tomato (Lycopersicon esculentum Mill.) fruit
Itai, A. (2003) · Journal of Experimental Botany · doi:10.1093/jxb/erg291 · Cited by 78 · see citing works
β-Cyanoalanine synthase and cysteine synthase from potato: molecular cloning, biochemical characterization, and spatial and hormonal regulation
Maruyama, A., Saito, K., & Ishizawa, K. (2001) · Plant Molecular Biology · doi:10.1023/a:1011629703784 · Cited by 74 · see citing works
Comparison of two-dimensional electrophoresis patterns of heat shock protein Hsp27 species in normal and cardiomyopathic hearts
Scheler, C., Li, X., Salnikow, J., Dunn, M. J., & Jungblut, P. R. (1999) · Electrophoresis · doi:10.1002/(sici)1522-2683(19991201)20:18 · Cited by 72 · see citing works
Birch PR‐10c is induced by factors causing oxidative stress but appears not to confer tolerance to these agents
Koistinen, K. M., Hassinen, V. H., Gynther, P. A. M., et al. (2002) · New Phytologist · doi:10.1046/j.1469-8137.2002.00481.x · Cited by 72 · see citing works
Self-citation
Isolation and Characterization of Patatin Isoforms
Pots, A. M., Gruppen, H., Hessing, M., et al. (1999) · Journal of Agricultural and Food Chemistry · doi:10.1021/jf981180n · Cited by 64 · see citing works
Evaluation of patatin as a major cross-reactive allergen in latex-induced potato allergy
Schmidt, M. H. H., Raulf, M., & Posch, A. (2002) · Annals of Allergy Asthma & Immunology · doi:10.1016/s1081-1206(10)62110-2 · Cited by 58 · see citing works
Identification of four novel potato (Solanum tuberosum) allergens belonging to the family of soybean trypsin inhibitors
Seppälä, U., Majamaa, H., Turjanmaa, K., et al. (2001) · Allergy · doi:10.1034/j.1398-9995.2001.00058.x · Cited by 52 · see citing works
Organic food claims cannot be substantiated through testing of samples intercepted in the marketplace: a horticulturalist's opinion
Harker, F. R. (2003) · Food Quality and Preference · doi:10.1016/s0950-3293(03)00035-1 · Cited by 46 · see citing works
Finck, A.: Dünger und Düngung – Grundlagen, Anleitung zur Düngung der Kulturpflanzen, Verlag Chemie, 1979, XIV, 442 Seiten mit 33 Abbildungen und 83 Tabellen, Kunststoffeinband, DM 58,–
Bussler, W. (1980) · Zeitschrift für Pflanzenernährung und Bodenkunde · doi:10.1002/jpln.19801430217 · Cited by 5 · see citing works

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Authors: Lehesranta, S. J., Koistinen, K. M., Massat, N., Davies, H. V., Shepherd, L. V. T., McNicol, J. W., Cakmak, I., Cooper, J., Lück, L., Kärenlampi, S. O., & Leifert, C.
Affiliations: University of Helsinki (FI)
University of Eastern Finland (FI)
Biomathematics and Statistics Scotland (GB)
Newcastle University (GB)
ORCID: Koistinen, Kaisa M.
Massat, Nathalie
Shepherd, Louise V. T.
Cooper, Julia
Leifert, Carlo
Venue: PROTEOMICS
Publisher: Wiley
Published: 2007-02
Volume: 7
Issue: 4
Pages: 597-604
ISSN: 1615-9853 (ISSN-L)
1615-9861
DOI: 10.1002/pmic.200600889
OpenAlex: W2000028940
Cited by: 83
References: 38
Citations by year: 2026: 1 · 2025: 1 · 2024: 2 · 2023: 4 · 2022: 2 · 2021: 3 · 2020: 3 · 2019: 3 · 2018: 4 · 2017: 5 · 2016: 5 · 2015: 3 · 2014: 5 · 2013: 3 · 2012: 8
FWCI: 14.06
Type: journal article
Language: en
Open access: green
doi.org
Licence: onlinelibrary.wiley.com/termsAndConditions#vor (vor, 18 d)
Locations: PROTEOMICS (publishedVersion)
PubMed (publishedVersion)
Organic Eprints (International Centre for Research in Organic Food Systems, and Research Institute of Organic Agriculture) (acceptedVersion)
Sabanci University (acceptedVersion)
Newcastle University ePrints (Newcastle Univesity)
Topics: Life Sciences › Agricultural and Biological Sciences › Food Science › Potato Plant Research
Life Sciences › Agricultural and Biological Sciences › Plant Science › Organic Food and Agriculture
Life Sciences › Agricultural and Biological Sciences › Food Science › Food and Agricultural Sciences
Keywords: potato tubers, organic farming, conventional farming, low-input agriculture, fertility management, organic fertilizer, mineral fertilizers, crop protection practices, crop rotation, stress response, plant defense proteins, energy metabolism proteins, protein synthesis
MeSH terms: Agriculture, Nitrogen, Phosphorus, Plant Proteins, Potassium, Solanum tuberosum, Electrophoresis, Gel, Two-Dimensional, Crops, Agricultural, Proteome, Spectrometry, Mass, Electrospray Ionization, Plant Tubers, Tandem Mass Spectrometry

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Effects of agricultural production systems and their components on protein profiles of potato tubers

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