Identification of QTLs and Validation of qCd-2 Associated with Grain Cadmium Concentrations in Rice
Received date: 2018-03-25
Accepted date: 2018-07-27
Online published: 2018-10-22
Cadmium (Cd) is one of heavy metals harmful to human health. As rice is the main staple food in Asia and Cd is easily contaminated in rice, the molecular regulation of Cd accumulation should be explored. In this study, a recombinant inbred population derived from Xiang 743/Katy was grown in Cd-polluted fields and used to map the quantitative trait loci (QTLs) for Cd accumulation in rice grains. We identified seven QTLs distributed on chromosomes 2, 3, 6, 7, 8 and 10. These QTLs displayed phenotypic variances of 58.50% and 40.59% in 2014 and 2015, respectively. Two QTLs, qCd-2 and qCd-7, were identified in both the two years. qCd-2 was detected on the interval of RM250-RM207 on chromosome 2, with an LOD of 2.51 and a phenotypic contribution of 13.75% in 2014, and an LOD of 3.35 and a phenotypic contribution of 14.16% in 2015. qCd-7 co-localized with the cloned qCdT7 on chromosome 7 and may represent the correct candidate. The other five QTLs were detected only in one year. To further confirm the effects of qCd-2, a residual heterozygous line designated as RHL945, with a heterozygous interval of RM263-RM207 on chromosome 2, was selected from the recombinant inbred population and used to develop an F2 population consisting of 155 individual plants. By incorporating further simple sequence repeat markers into the segmental linkage map of the target region, qCd-2 was delimited in the interval of RM5404-RM3774, with an LOD value of 4.38 and a phenotypic contribution of 15.52%. These results reflected the genetic regulation of grain Cd in rice and paved the way for the future cloning of qCd-2.
Wenqiang Liu, Xiaowu Pan, Yongchao Li, Yonghong Duan, Jun Min, Sanxiong Liu, Licheng Liu, Xinnian Sheng, Xiaoxiang Li . Identification of QTLs and Validation of qCd-2 Associated with Grain Cadmium Concentrations in Rice[J]. Rice Science, 2019 , 26(1) : 42 -49 . DOI: 10.1016/j.rsci.2018.12.003
| [1] | Abe T, Nonoue Y, Ono N, Omoteno M, Kuramata M, Fukuoka S, Yamamoto T, Yano M, Ishikawa S.2013. Detection of QTLs to reduce cadmium content in rice grains using LAC23/Koshihikari chromosome segment substitution lines.Breeding Sci, 63(3): 284-291. |
| [2] | Arao T, Ae N.2003. Genotypic variations in cadmium levels of rice grains.Soil Sci Plant Nutr, 49(4): 473-479. |
| [3] | Dai W M, Zhang K Q, Wu J R, Wang L, Duan B W, Zheng K L, Cai R, Zhuang J Y.2008. Validating a segment on the short arm of chromosome 6 responsible for genetic variation in the hull silicon content and yield traits of rice.Euphytica, 160(3): 317-324. |
| [4] | Gao L, Chang J D, Chen R J, Li H B, Lu H F, Tao L X, Xiong J.2016. Comparison on cellular mechanisms of iron and cadmium accumulation in rice: Prospects for cultivating Fe-rich but Cd-free rice.Rice, 9: 39. |
| [5] | Grant C A, Clarke J M, Duguid S, Chaney R L.2008. Selection and breeding of plant cultivars to minimize cadmium accumulation.Sci Total Environ, 390: 301-310. |
| [6] | Ishikawa S, Ae N, Yano M.2005. Chromosomal regions with quantitative trait loci controlling cadmium concentration in brown rice (Oryza sativa). New Phytol, 168(2): 345-350. |
| [7] | Ishikawa S, Abe T, Kuramata M, Yamaguchi M, Ando T, Yamamoto T, Yano M.2010. A major quantitative trait locus for increasing cadmium-specific concentration in rice grains is located on the short arm of chromosome 7.J Exp Bot, 61(3): 923-934. |
| [8] | Ishimaru Y, Takahashi R, Bashir K, Shimo H, Senoura T, Sugimoto K, Ono K, Yano M, Ishikawa S, Arao T, Nakanishi H, Nishizawa N K.2012. Characterizing the role of rice NRAMP5 in manganese, iron and cadmium transport.Sci Rep, 2: 286. |
| [9] | Konishi S, Izawa T, Lin S Y, Ebana K, Fukuta Y, Sasaki T, Yano M.2006. An SNP caused loss of seed shattering during rice domestication.Science, 312: 1392-1396. |
| [10] | Lincoln S.1992. Constructing genetic maps with MAPMAKER/ EXP 3.0 Whitehead Institute technical report. |
| [11] | Liu J G, Zhu Q S, Zhang Z J, Xu J K, Yang J C, Ming H W.2005. Variations in cadmium accumulation among rice cultivars and types and the selection of cultivars for reducing cadmium in the diet.J Sci Food Agric, 85(1): 147-153. |
| [12] | Liu W Q, Lu T T, Li Y C, Pan X W, Duan Y H, Min J, Fu X Q, Sheng X N, Xiao J Z, Liu S X, Tan J, Yao Y, Li X X.2015. Mapping of quantitative trait loci for cold tolerance at the early seedling stage in landrace rice Xiang 743.Euphytica, 201(3): 401-409. |
| [13] | Liu W Q, Li X X, Zhou K, Pan X W, Li Y C, Lu T T, Sheng X N.2016. Mapping of QTLs controlling grain shape and populations construction derived from related residual heterozygous lines in rice.J Agric Sci, 8(9): 104-113. |
| [14] | Loudet O, Gaudon V, Trubuil A, Daniel-Vedele F.2005. Quantitative trait loci controlling root growth and architecture inArabidopsis thaliana confirmed by heterogeneous inbred family. Theor Appl Genet, 110(4): 742-753. |
| [15] | McCouch S R, Cho Y G, Yano M, Paul E, Blinstrub M, Morishima H, Kinoshita T.1997. Rice: Report on QTL nomenclature.Gram Newsl, 14: 11-13. |
| [16] | Miyadate H, Adachi S, Hiraizumi A, Tezuka K, Nakazawa N, Kawamoto T, Katou K, Kodama I, Sakurai K, Takahashi H, Satoh-Nagasawa N, Watanabe A, Fujimura T, Akagi H.2011. OsHMA3, a P1B-type of ATPase affects root-to-shoot cadmium translocation in rice by mediating efflux into vacuoles. New Phytol, 189(1): 190-199. |
| [17] | Morishita T, Fumoto N, Yoshizawa T, Kagawa K.1987. Varietal differences in cadmium levels of rice grains of japonica, indica, javanica, and hybrid varieties produced in the same plot of a field. Soil Sci Plant Nutr, 33(4): 629-637. |
| [18] | Nagaoka I, Sasahara H, Tabuchi H, Shigemune A, Matsushita K, Maeda H, Goto A, Fukuoka S, Ando T, Miura K.2017. Quantitative trait loci analysis of blast resistance in Oryza sativa L. ‘Hokuriku 193’. Breeding Sci, 67(2): 159-164. |
| [19] | Peng X X, Bai N N, Wang H H.2018. Isolation and expression profiles of cadmium stress-responsive rice WRKY15 transcription factor gene.Chin J Rice Sci, 32(2): 103-110. (in Chinese with English abstract) |
| [20] | Riesen O, Feller U.2005. Redistribution of nickel, cobalt, manganese, zinc, and cadmium via the phloem in young and maturing wheat.J Plant Nutr, 28(3): 421-430. |
| [21] | Shimo H, Ishimaru Y, An G, Yamakawa T, Nakanishi H, Nishizawa N K.2011. Low cadmium (LCD), a novel gene related to cadmium tolerance and accumulation in rice.J Exp Bot, 62(15): 5727-5733. |
| [22] | Song X J, Huang W, Shi M, Zhu M Z, Lin H X.2007. A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase.Nat Genet, 39(5): 623-630. |
| [23] | Sun Y L, Liu H M, Xu Q G.2017. Effects of cadmium stress on rice seed germination characteristics.Chin J Rice Sci, 31(4): 425-431. (in Chinese with English abstract) |
| [24] | Takahashi R, Ishimaru Y, Senoura T, Shimo H, Ishikawa S, Arao T, Nakanishi H, Nishizawa N K.2011. The OsNRAMP1 iron transporter is involved in Cd accumulation in rice.J Exp Bot, 62(14): 4843-4850. |
| [25] | Takahashi R, Ishimaru Y, Shimo H, Ogo Y, Senoura T, Nishizawa N K, Nakanishi H.2012. The OsHMA2 transporter is involved in root-to-shoot translocation of Zn and Cd in rice.Plant Cell Environ, 35(11): 1948-1957. |
| [26] | Tezuka K, Miyadate H, Katou K, Kodama I, Matsumoto S, Kawamoto T, Masaki S, Satoh H, Yamaguchi M, Sakurai K, Takahashi H, Satoh-Nagasawa N, Watanabe A, Fujimura T, Akagi H.2010. A single recessive gene controls cadmium translocation in the cadmium hyperaccumulating rice cultivar Cho-Ko-Koku.Theor Appl Genet, 120(6): 1175-1182. |
| [27] | Ueno D, Kono I, Yokosho K, Ando T, Yano M, Ma J F.2009a. A major quantitative trait locus controlling cadmium translocation in rice (Oryza sativa L.). New Phytol, 182(3): 644-653. |
| [28] | Ueno D, Koyama E, Kono I, Ando T, Yano M, Ma J F.2009b. Identification of a novel major quantitative trait locus controlling distribution of Cd between roots and shoots in rice.Plant Cell Physiol, 50(12): 2223-2233. |
| [29] | Uraguchi S, Kamiya T, Sakamoto T, Kasai K, Sato Y, Nagamura Y, Yoshida A, Kyozuka J, Ishikawa S, Fujiwara T.2011. Low- affinity cation transporter (OsLCT1) regulates cadmium transport into rice grains. Proc Natl Acad Sci USA, 108: 20959-20964. |
| [30] | Wang S, Basten C, Zeng Z.2008. Windows QTL Cartographer 2.5 department of statistics . Raleigh, USA:North Carolina State University. 2007. |
| [31] | Xue D W, Chen M C, Zhang G P.2009. Mapping of QTLs associated with cadmium tolerance and accumulation during seedling stage in rice (Oryza sativa L.). Euphytica, 165(3): 587-596. |
| [32] | Yan Y F, Lestari P, Lee K J, Kim M Y, Lee S H, Lee B W.2013. Identification of quantitative trait loci for cadmium accumulation and distribution in rice (Oryza sativa L.). Genome, 56(4): 227-232. |
| [33] | Yao W Y, Sun L, Zhou H, Yang F, Mao D H, Wang J R, Chen L H, Zhang G Y, Dai J P, Xiao G Y, Chen C Y.2015. Additive, dominant parental effects control the inheritance of grain cadmium accumulation in hybrid rice.Mol Breeding, 35(1): 39. |
| [34] | Yang Y J, Chen R J, Fu G F, Xiong J, Tao L X.2016a. Phosphate deprivation decreases cadmium (Cd) uptake but enhances sensitivity to Cd by increasing iron (Fe) uptake and inhibiting phytochelatins synthesis in rice (Oryza sativa). Acta Physiol Plant, 38: 28. |
| [35] | Yang Y J, Xiong J, Chen R J, Fu G F, Chen T T, Tao L X.2016b. Excessive nitrate enhances cadmium (Cd) uptake by up- regulating the expression of OsIRT1 in rice(Oryza sativa). Environ Exp Bot, 122: 141-149. |
| [36] | Zhang X Q, Zhang G P, Guo L B, Wang H Z, Zeng D L, Dong G J, Qian Q, Xue D W.2011. Identification of quantitative trait loci for Cd and Zn concentrations of brown rice grown in Cd- polluted soils.Euphytica, 180(2): 173-179. |
/
| 〈 |
|
〉 |