QTL mapping of genome regions controlling manganese uptake in Lentil Seed

G3: Genes, Genomes, Genetics

Volumn 8, Issue 5, 2018, Pages 1409-1416

  Ates, Duygu ^a   Aldemir, Secil ^a   Yagmur, Bulent ^a   Kahraman, Abdullah ^b   Ozkan, Hakan ^c   Vandenberg, Albert ^d   Tanyolac, Muhammed Bahattin ^a  

^a EGE UNIVERSITY   (Turkey)

^b HARRAN UNIVERSITY   (Turkey)

^c CUKUROVA UNIVERSITY   (Turkey)

^d UNIVERSITY OF SASKATCHEWAN   (Canada)

Author keywords

DArT; Genome Report; Manganese lentil; QTL mapping; SNP

Indexed keywords

MANGANESE;

ARTICLE; ATOMIC ABSORPTION SPECTROMETRY; CHROMOSOME NUMBER; GENE FREQUENCY; GENE MAPPING; GENE STRUCTURE; GENETIC LINKAGE; GENETIC VARIATION; GENOTYPE; HERITABILITY; LEGUME; LENTIL; NONHUMAN; PLANT GENOME; QUANTITATIVE TRAIT LOCUS; QUANTITATIVE TRAIT LOCUS MAPPING; RECOMBINANT INBRED STRAIN; SEGREGATION DISTORTION; SINGLE NUCLEOTIDE POLYMORPHISM; SOIL PROPERTY; ANALYSIS OF VARIANCE; CHEMISTRY; CHROMOSOMAL MAPPING; GENETIC CROSS; GENETICS; INBREEDING; METABOLISM; PLANT SEED; SOIL;

ANALYSIS OF VARIANCE; CHROMOSOME MAPPING; CROSSES, GENETIC; GENETIC LINKAGE; GENOME, PLANT; INBREEDING; LENS PLANT; MANGANESE; QUANTITATIVE TRAIT LOCI; SEEDS; SOIL;

EID: 85046637066     PISSN: None     EISSN: 21601836     Source Type: Journal    
DOI: 10.1534/g3.118.200259     Document Type: Article

References (80)

1. Acikgoz, N., E. Ilker, and A. Gokcol, 2004 Computer evaluations of biological research. Ege University Press, TOTEM, No: 2, Izmir, Turkey
2. Ahmed, F., N. Prendiville, and A. Narayan, 2016 Micronutrient deficiencies among children and women in Bangladesh: progress and challenges. J. Nutr. Sci. 5: e46. https://doi.org/10.1017/jns.2016.39
3. Aldemir, S., D. Ates, H. Y. Temel, B. Yagmur, A. Alsaleh et al., 2017 QTLs for iron concentration in seeds of the cultivated lentil (Lens culinaris Medic.) via genotyping by sequencing. Turk. J. Agric. For. 41: 243-255. https://doi.org/10.3906/tar-1610-33
4. Ates, D., T. Sever, S. Aldemir, B. Yagmur, H. Y. Temel et al., 2016 Identification QTLs controlling genes for Se uptake in lentil seeds. PLoS One. https://doi.org/10.1371/journal.pone.0149210
5. Beebe, S., A. V. Gonzalez, and J. Rengifo, 2000 Research on trace minerals in the common bean. Food Nutr. Bull. 21(4): 387-391. https://doi.org/ 10.1177/156482650002100408
6. Beitane, I., and G. Krumina-Zemture, 2017 Dietary micronutrient content in pea (Pisum sativum L.) and buckwheat (Fagopyrum esculentum M.) flour, Foodbalt
7. Bingham, F. T., 1949 Soil test for phosphate. Calif. Agric. 3(7): 11-14
8. Black, C. A. (Editor), 1965 Methods of soil analysis, pp. 1372-1376. American Society of Agronomy Inc., Madison, Wisconsin
9. Blancquaert, D., H. De Steur, X. Gellynck, and D. Van Der Straeten, 2014 Present and future of folate biofortification of crop plants. J. Exp. Bot. 65(4): 895-906. https://doi.org/10.1093/jxb/ert483
10. Bouis, H. E., 2003 Micronutrient fortification of plants through plant breeding: can it improve nutrition in man at low cost? Proc. Nutr. Soc. 62(2): 403-411. https://doi.org/10.1079/PNS2003262
11. Bourre, J. M., 2006 Effects of nutrients (in food) on the structure and function of the nervous system: update on dietary requirements for brain. Part 1: Micronutrients. J. Nutr. Health Aging 10(5): 377-385
12. Bouyoucos, G. J., 1955 A recalibration of the hydrometer method for making mechanical analysis of the soils. Agron. J. 4(9): 419-434
13. Carvalho, S. M. P., and M. W. Vasconcelos, 2013 Producing more with less: Strategies and novel technologies for plant-based food biofortification. Food Res. Int. 2013. https://doi.org/10.1016/j.foodres.2012.12.021
14. Cichy, K. A., G. V. Caldas, S. S. Snapp, and M. W. Blair, 2009 QTL analysis of seed iron, zinc, and phosphorus levels in an Andean bean population. Crop Sci. 49(5): 1742-1750. https://doi.org/10.2135/ cropsci2008.10.0605
15. Courtney, M., M. Mcharo, and D. La Bonte, 2008 Heritability estimates for micronutrient composition of sweetpotato storage roots. HortScience 43(5): 1382-1384
16. Davis, C. D., D. M. Ney, and J. L. Greger, 1990 Manganese, iron and lipid interactions in rats. Nutrition 120(5): 507-513
17. Ding, G., M. Yang, Y. Hu, Y. Liao, L. Shi et al., 2010 Quantitative trait loci affecting seed mineral concentrations in Brassica napus grown with contrasting phosphorus supplies. Ann. Bot. 105(7): 1221-1234. https:// doi.org/10.1093/aob/mcq050
18. Erikson, K. M., and M. Aschner, 2003 Manganese neurotoxicity and glutamate-GABA interaction. Neurochem. Int. 43(4-5): 475-480. https://doi. org/10.1016/S0197-0186(03)00037-8
19. Eujayl, I., M. Baum, W. Erskine, E. Pehu, and F. J. Muehlbauer, 1997 Use of RAPD markers for genetic mapping and evaluation of segregation distortion in lentil (Lens culinaris Medik.). Euphytica 96(3): 405-412. https://doi.org/10.1023/A:1003045000568
20. Finkelstein, Y., D. Milatovic, and M. Aschner, 2007 Modulation of cholinergic systems by manganese. Neurotoxicology 28(5): 1003-1014. https://doi.org/10.1016/j.neuro.2007.08.006
21. Ford, R., Rubeena, R. J. Redden, M. Materne, and P. W. J. Taylor, 2007 Lentil. pp. 91-108 in Genome Mapping and Molecular Breeding in Plants, Volume 3: Pulses, Sugar and Tuber Crops. Edited by Kole, C. Springer, Berlin
22. Garcia-Casal, M. N., J. P. Pena-Rosas, and P. Giyose Consultation Working Groups, 2017 Staple crops biofortified with increased vitamins and minerals: Considerations for a public health strategy. Ann. N. Y. Acad. Sci. 1390(1): 3-13. https://doi.org/10.1111/nyas.13293
23. Garvin, D. F., R. M. Welch, and J. W. Finley, 2006 Historical shifts in the seed mineral micronutrient concentration of US hard red winter wheat germplasm. J. Sci. Food Agric. 86(13): 2213-2220. https://doi.org/ 10.1002/jsfa.2601
24. Giuliano, G., 2017 Provitamin A biofortification of crop plants: a gold rush with many miners. Curr. Opin. Biotechnol. 44: 169-180. https://doi.org/ 10.1016/j.copbio.2017.02.001
25. Graham, R. D., and R. Welch, 1996 Breeding for staple food crops with high micronutrient density, agricultural strategies for micronutrients. Working paper 3. International Food Policy Research Institute, Washington DC, USA
26. Graham, R. D., D. Senadhira, S. Beebe, C. Iglesias, and I. Monasterio, 1999 Breeding for micronutrient density in edible portions of staple food crops: Conventional approaches. Field Crops Res. 60(1-2): 57-80. https://doi.org/10.1016/S0378-4290(98)00133-6
27. Gregorio, G. B., D. Senadhira, H. Htut, and R. D. Graham, 2000 Breeding for trace mineral density in rice. Food Nutr. Bull. 21(4): 382-386. https:// doi.org/10.1177/156482650002100407
28. Grusak, M. A., and D. DellaPenna, 1999 Improving the nutrient composition of plants to enhance human nutrition and health. Annu. Rev. Plant Physiol. Plant Mol. Biol. 50(1): 133-161. https://doi.org/10.1146/annurev. arplant.50.1.133
29. Gupta, D. S., D. Thavarajah, L. J. Ekanayake, C. Johnson, D. Amarakoon et al., 2015 Rice, wheat and maize biofortification, Sustainable Agriculture Reviews, Vol. 16, edited by Lichtfouse, E., and A. Goyal. Springer, Cham. https://doi.org/10.1007/978-3-319-16988-0_6
30. Gupta, M., B. Verma, N. Kumar, R. K. Chahota, R. Rathour et al., 2012 Construction of intersubspecific molecular genetic map of lentil based on ISSR, RAPD and SSR markers. J. Genet. 91(3): 279-287. https:// doi.org/10.1007/s12041-012-0180-4
31. Han, K., H. J. Jeong, H. B. Yang, K. Sung-Min, K. Jin-Kyung et al., 2016 An ultra-high-density bin map facilitates high-throughput QTL mapping of horticultural traits in pepper (Capsicum annuum). DNA Res. 23(2): 81-91. https://doi.org/10.1093/dnares/dsv038
32. Kacar, B., 1972 Chemical Analysis of Plant and Soil: II. Plant Analysis, Ankara University Press, Publication no: 453, Application book no: 155, Ankara, Turkey
33. Kacar, B., and A. Inal, 2008 Plant analyses, Nobel Press, First edition, No: 1241, Natural Applied Sciences No: 63, ISBN 978-605-395-036-3. Ankara, Turkey
34. Kahraman, A., A. Pandey, and M. K. Khan, 2017 Nutritional diversity assessment in chickpea-A prospect for nutrient deprived world. Harran Journal of Agricultural and Food Science 21(3): 357-363
35. Kannus, P., 2000 Structure of the tendon connective tissue. Scand. J. Med. Sci. Sports 10(6): 312-320. https://doi.org/10.1034/j.1600-0838.2000.010006312.x
36. Karaköy, T., H. Erdem, F. S. Baloch, F. Toklu, S. Eker et al., 2012 Diversity of macro-and micronutrients in the seeds of lentil landraces. Sci. World J. 2012: 710412. https://doi.org/10.1100/2012/710412
37. Khadari, B., A. Z. El Aabidine, and C. Grout, 2010 A genetic linkage map of olive based on amplified fragment length polymorphism, inter simple sequence repeat and simple sequence repeat markers. J. Am. Soc. Hortic. Sci. 135(6): 548-555
38. Klein, M. A., and M. A. Grusak, 2009 Identification of nutrient and physical seed trait QTL in the model legume Lotus japonicus. Genome 52(8): 677-691. https://doi.org/10.1139/G09-039
39. Komaki, H., S. Maisawa, K. Sugai, Y. Kobayashi, and T. Hashimoto, 1999 Tremor and seizures associated with chronic manganese intoxication. Brain Dev. 21(2): 122-124. https://doi.org/10.1016/S0387-7604(98)00074-6
40. Li, X., Y. Wei, A. Acharya, Q. Jiang, J. Kang, and E. C. Brummer, 2014 A saturated genetic linkage map of autotetraploid alfalfa (Medicago sativa L.) developed using Genotyping-by-Sequencing is highly syntenous with the Medicago truncatula genome. Genes/Genomes/Genetics 4(10): 1971-1979. https://doi.org/10.1534/g3.114.012245
41. Lindsay, W. L., and W. A. Norvell, 1978 Development of a DTPA soil test for zinc, iron, manganese, and copper. Soil Sci. Soc. Am. J. 42(3): 421-428. https://doi.org/10.2136/sssaj1978.03615995004200030009x
42. Ma, J. F., A. Higashitani, K. Sato, and K. Takeda, 2004 Genotypic variation in Fe concentration of barley grain. Soil Sci. Plant Nutr. 50(7): 1115-1117. https://doi.org/10.1080/00380768.2004.10408583
43. Mayer, J. E., W. H. Pfeiffer, and P. Beyer, 2008 Biofortified crops to alleviate micronutrient malnutrition. Curr. Opin. Plant Biol. 11(2): 166-170. https://doi.org/10.1016/j.pbi.2008.01.007
44. Monasterio, I., and R. D. Graham, 2000 Breeding for trace minerals in wheat. Food Nutr. Bull. 21(4): 392-396. https://doi.org/10.1177/ 156482650002100409
45. Muehlbauer, F. J., and K. E. McPhee, 2005 Lentil (Lens culinaris Medik.), pp. 219-230 in Genetic Resources, Chromosome Engineering and Crop Improvement, edited by Singh, R. J., and P. P. Jauhar. CRC Press, New York. https://doi.org/10.1201/9780203489284.ch8
46. Nakandalage, N., M. Nicolas, R. M. Norton, N. Hirotsu, P. J. Milham et al., 2016 Improving rice zinc biofortification success rates through genetic and crop management approaches in a changing environment. Front. Plant Sci. 7: 764. https://doi.org/10.3389/ fpls.2016.00764
47. Oikeh, S. O., A. Menkir, B. Maziya Dixon, R. Welch, and R. P. Glahn, 2003 Genotypic differences in concentration and bioavailability of kernel-iron in tropical maize varieties grown under field conditions. J. Plant Nutr. 26(10-11): 2307-2319. https://doi.org/10.1081/PLN-120024283
48. Pinheiro, C., J. P. Baeta, A. M. Pereira, H. Domingues, and C. P. Ricardo, 2010 Diversity of seed mineral composition of Phaseolus vulgaris L. germplasm. J. Food Compos. Anal. 23(4): 319-325. https://doi.org/ 10.1016/j.jfca.2010.01.005
49. Poland, J. A., P. J. Brown, M. E. Sorrells, and J. L. Jannink, 2012 Development of high-density genetic maps for barley and wheat using a novel two-enzyme Genotyping-by-Sequencing approach. PLoS One 7(2): e32253. https://doi.org/10.1371/journal.pone.0032253
50. Podder, R., D. M. DellaValle, R. T. Tyler, R. P. Glahn, E. Tako et al., 2018 Relative bioavailability of iron in Bangladeshi traditional meals prepared with iron-fortified lentil dal. Nutrients 10: 354. https://doi.org/ 10.3390/nu10030354
51. Prasad, B. V. G., S. Mohanta, S. Rahaman, and P. Bareily, 2015 Bio-fortification in horticultural crops. J. Agric. Eng. Food Technol. 2(2): 95-99
52. Pratt, P. F., 1965, pp. 1010-1022 in Methods of Soil Analysis, edited by Black, C. A., American Society of Agronomy Inc., Wisconsin, USA
53. Price, C. T., J. R. Langford, and F. A. Liporace, 2012 Essential nutrients for bone health and a review of their availability in the average north american diet. Open Orthop. J. 6: 143-149. https://doi.org/10.2174/ 1874325001206010143
54. Pu, Z. E., M. Yu, Q. Y. He, G. Chen, J. Wang et al., 2013 Quantitative trait loci associated with micronutrient concentrations in two recombinant inbred wheat lines. J. Integr. Agric. https://doi.org/10.1016/S2095-3119(13)60640-1
55. Qaim, M., A. J. Stein, and J. V. Meenakshi, 2007 Economics of biofortification. Agric. Econ. 37(s1): 119-133. https://doi.org/10.1111/j.1574-0862.2007.00239.x
56. Ramamurthy, R. K., J. Jedlicka, G. L. Graef, and B. Waters, 2014 Identification of new QTLs for seed mineral, cysteine, and methionine concentrations in soybean. [Glycine max (L.) Merr.] Mol. Breed. 34(2): 431-445. https://doi.org/10.1007/s11032-014-0045-z
57. Richards, L. A., 1954 1954 Diagnosis and improvement of saline and alkali soils, United States Department of Agriculture Handbook, USA
58. Rodrigo, S., O. Santamaría, F. J. López-Bellido, and M. J. Poblaciones, 2013 Agronomic selenium biofortification of two-rowed barley under Mediterranean conditions. Plant Soil Environ. 59(3): 115-120. https://doi. org/10.17221/691/2012-PSE
59. Rubeena, R., Ford, and P. W. J. Taylor, 2003 Construction of an intraspecific linkage map of lentil (Lens culinaris ssp. culinaris). Theor. Appl. Genet. 107(5): 910-916. https://doi.org/10.1007/s00122-003-1326-9
60. Sankaran, R. P., T. Huguet, and M. A. Grusak, 2009 Identification of QTL affecting seed mineral concentrations and content in the model legume Medicago truncatula. Theor. Appl. Genet. 119(2): 241-253. https://doi. org/10.1007/s00122-009-1033-2
61. Santos, E. E., D. C. Lauria, and C. L. Porto da Silveira, 2004 Assessment of daily intake of trace elements due to consumption of foodstuffs by adult inhabitants of Rio de Janeiro city. Sci. Total Environ. 327(1-3): 67-69. https://doi.org/10.1016/j.scitotenv.2004.01.016
62. Sarker, A., W. Erskine, M. S. Hassan, M. A. Afzal, and A. N. M. M. Murshed, 1999 Registration of 'Barimasur-4' lentil. Crop Sci. 39(3): 876. https:// doi.org/10.2135/cropsci1999.0011183X003900030054x
63. Schlicting, E., and H. P. Blume, 1966, p. 94 in Bodenkundliches practicum, edited by Parey, V. P., Hamburg 209
64. Sharma, P., P. Aggarwal, and A. Kaur, 2017 Biofortification: A new approach to eradicate hidden hunger. Food Rev. Int. 33(1): 1-21. https:// doi.org/10.1080/87559129.2015.1137309
65. Sharpe, A. G., L. Ramsay, L. A. Sanderson, M. Fedoruk, W. E. Clarke et al., 2013 Ancient orphan crop joins modern era: Gene-based SNP discovery and mapping in lentil. BMC Genomics 14(1): 192. https://doi.org/ 10.1186/1471-2164-14-192
66. Soldin, O. P., and M. Aschner, 2007 Effects of manganese on thyroid hormone homeostasis: Potential links. Neurotoxicology 28(5): 951-956. https://doi.org/10.1016/j.neuro.2007.05.003
67. Takeda, A., 2003 Manganese action in brain function. Brain Res. Brain Res. Rev. 41(1): 79-87. https://doi.org/10.1016/S0165-0173(02)00234-5
68. Tanyolac, B., S. Ozatay, A. Kahraman, and F. Muehlbauer, 2010 Linkage mapping of lentil (Lens culinaris L.) genome using recombinant inbred lines revealed by AFLP, ISSR, RAPD and some morphologic markers. J. Agric. Biotechnol. Sustain. Dev. 2(1): 1-6
69. Tullu, A., B. Tar'an, T. Warkentin, and A. Vandenberg, 2008 Construction of an intraspecific linkage map and QTL analysis for earliness and plant height in lentil. Crop Sci. 48(6): 2254-2264. https://doi.org/10.2135/ cropsci2007.11.0628
70. Van den Berghe, G., 2004 How does blood glucose control with insulin save lives in intensive care? J. Clin. Invest. 114(9): 1187-1195. https://doi.org/ 10.1172/JCI23506
71. Van Ooijen, J. W., 2009 MapQTL 6, Software for the mapping of quantitative trait loci in experimental populations of diploid species, Kyazma BV, Wageningen, Netherlands
72. Van Ooijen, J. W., and R. E. Voorrips, 2004 JoinMap 4.0, software for the calculation of genetic linkage maps in experimental populations, Plant Research International, Wageningen, Netherlands
73. Vandenberg, A., S. Banniza, T. D. Warkentin, S. Ife, B. Barlow et al., 2006 CDC Redberry lentil. Can. J. Plant Sci. 86(2): 497-498. https://doi. org/10.4141/P05-071
74. Willems, G., H. Fre'rot, J. Gennen, P. Salis, P. Saumitou-Lapradeand et al., 2010 Quantitative trait loci analysis of mineral element concentrations in an Arabidopsis halleri x Arabidopsis lyrata petraea F2 progeny grown on cadmium-contaminated soil. New Phytol. 187(2): 368-379. https:// doi.org/10.1111/j.1469-8137.2010.03294.x
75. Witte, K. K. A., A. L. Clark, and J. G. F. Cleland, 2001 Chronic heart failure and micronutrients. J. Am. Coll. Cardiol. 37(7): 1765-1774. https://doi. org/10.1016/S0735-1097(01)01227-X
76. Wu, J., Y. X. Yuan, X. W. Zhang, J. Zhao, X. Song et al., 2008 Mapping QTLs for mineral accumulation and shoot dry biomass under different Zn nutritional conditions in chinese cabbage (Brassica rapa L. ssp. pekinensis). Plant Soil 310(1-2): 25-40. https://doi.org/10.1007/s11104-008-9625-1
77. Xu, Y., S. Porntadavity, and D. K. St. Clair, 2002 Transcriptional regulation of the human manganese superoxide dismutase gene: The role of specificity protein 1 (Sp1) and activating protein-2. (AP-2). Biochem. J. 362(2): 401-412. https://doi.org/10.1042/ bj3620401
78. Yu, Y. H., Y. F. Shao, J. Liu, Y. Y. Fan, C. X. Sun et al., 2015 Mapping of quantitative trait loci for contents of macro-and microelements in milled rice (Oryza sativa L.). J. Agric. Food Chem. 63(35): 7813-7818. https:// doi.org/10.1021/acs.jafc.5b02882
79. Zhu, C. F., S. Naqvi, S. Gomez-Galera, A. M. Pelacho, T. Capell et al., 2007 Transgenic strategies for the nutritional enhancement of plants. Trends Plant Sci. 12(12): 548-555. https://doi.org/10.1016/j. tplants.2007.09.007
80. Zou, T., N. Xu, G. Hu, J. Pang, and H. Xu, 2014 Biofortification of soybean sprouts with zinc and bioaccessibility of zinc in the sprouts. J. Sci. Food Agric. 94(14): 3053-3060. https://doi.org/10.1002/jsfa.6658