# Establishing an efficient way to utilize the drought resistance germplasm population in wheat.

1. IntroductionDrought is probably the most important abiotic stress that limits plant growth [1]. Drought stress is one of the most serious environmental factors that can severely limit the yield and quality of agricultural crops [2]. With global climate change, the lack of water for agronomic purposes will become the major problem for crop production [3]. In agronomical point-of-view, drought stress is a situation in which lack of water exceeds the capacity of plants which leads to the growth prevention. Thus, improving the drought tolerance is a major adaptation strategy for plant production in arid and semiarid regions [4]. In drought prone environments, crop drought resistance is a major factor in the stabilization of crop performance. Drought resistance is now considered by both breeders and molecular biologists as a valid breeding target.

Wheat (Triticum aestivum L.) is one of the most important cereals in the world. Drought stress may reduce all yield components in wheat [5]. Droughtis the majorfactor limiting wheat growth and productivity in many regions of the world, and the changing global climate is making the situation more serious [6,7]. Developing high-yielding wheat cultivars under drought conditions in arid and semiarid regions is an important objective of breeding programs [5]. Although great efforts have been made in wheat drought resistance breeding, the decrease in agricultural productivity induced by drought stress still remains unsolved [8]. One reason is that the numerous germplasm resources were not effectively utilized in wheat breeding programs. However, with continuous collection of germplasm resources, the size of populations has been becoming bigger and bigger, which hindered the evaluation and utilization of the wheat germplasm resources.

Core collections provide an efficient way to evaluate and utilize germplasm resources. A core collection is a representative sample of the whole collection which has minimum repetitiveness and maximum genetic diversity of a plant species [9]. The core collection serves as a working collection to be evaluated and utilized preferentially [10-13]. In this way, it is possible to preserve most of the genes in large germplasm populations using a small sample. Thus, the objectives of this research were (1) to investigate the ideal constructing strategy on wheat core collection based on data of agronomic traits combining drought resistance information and (2) to construct such a wheat core collection for the drought resistance breeding programs.

2. Materials and Methods

2.1. Materials. Wheat varieties were introduced from abroad. The drought resistance level combining four yield traits (plant height, spike length, grain numbers per spike, and 1000grain weight) and four quality traits (crude protein content, lysine content, sedimentation, and hardness) of 1,683 varieties have been investigated. All data were downloaded from "Chinese Crop Germplasm Resources Information System" (http://icgr.caas.net.cn/).

2.2. Core Collection Construction. According to the drought resistance level, all 1,683 wheat varieties were divided into five germplasm groups (high resistant, HR; resistant, R; moderate resistant, MR; susceptible, S; and high susceptible, HS). The distribution of varieties was shown in Figure 1. The procedure for core collection construction was conducted by two steps. First, subcore collections were selected from each germplasm groups. Second, all the sub-core collections were combined together to construct a core collection.

The least distance stepwise sampling (LDSS) method [14] was adopted to construct sub-core collections from germplasm groups. The procedure was as follows. (1) The genetic distances among accessions were calculated, and accessions were classified by hierarchical cluster analysis based on their genetic distance. (2) One accession from a subgroup with the least distance was randomly removed, and another accession of the subgroup was sampled. (3) The genetic distances among the remaining accessions were calculated, and the sampling was repeated in the same way. The stepwise samplings were performed until the percentage of the remaining accessions reached the desired one. This method performs sampling based on the subgroup with the least genetic distance, which can efficiently eliminate redundant accessions and ignore the effect of the cluster methods [15].

2.3. Genetic Distances and Evaluating Parameters. Six commonly used genetic distances (Euclidean distance, Euclid; Standardized Euclidean distance, Seuclid; Mahalanobis distance, Mahal; Manhattan distance, Manhat; Cosine distance, Cosine; and Correlation distance, Correlation) were used to assess genetic distances among accessions. Unweighted pair-group average (UPGMA) method was used for performing hierarchical cluster analysis [15].

Coincidence rate of range (CR) and variable rate of coefficient of variation (VR) [16,17] were adopted to evaluate the representativeness of core collection. Those four parameters were formulated as follows: CR = (1/n) [[summation].sup.n.sub.i=1]([R.sub.C(i)]/[R.sub.I(i)]) x 100, where [R.sub.C(i)] is the range of the ith trait in the core collection; [R.sub.I(i)] is the range of the corresponding trait in the initial collection; n and is total number of traits, VR = (1/n) [[summation].sup.n.sub.i=1]([CV.sub.C(i)]/[CV.sub.I(i)])) x 100, where [CV.sub.C(i)] is the coefficient of variation of the ith trait in the core collection; [CV.sub.I(i)] is the coefficient of variation of the corresponding trait in the initial collection; n is total number of traits.

2.4. Data Analysis. The genetic distances calculation, the LDSS procedures, and the evaluating parameters calculation were performed using computer code programmed by the authors based on MATLAB software (version 6.5) [18].

3. Results

3.1. The Assessment of Subcore Collections Constructed by Different Genetic Distances. Subcore collections were constructed by different genetic distances at the sampling percentage of 10%, 20%, and 30% (Table 1). In any germplasm group, CR and VR of sub-core collections constructed by the genetic distance of Cosine and Correl were much lower than of those constructed by the other four genetic distances at the three sampling percentages (Table 1). In HR group, subcore collections constructed by Manhat had larger CR and VR than those constructed by Euclid, Seuclid, and Mahal at the three sampling percentages (Table 1). In R group, sub-core collections constructed by Euclid had the largest CR at the sampling percentage of 10% and 30%, and those constructed by Manhat had the largest VR at the sampling percentage of 10% and 20% (Table 1). In MR group, sub-core collections constructed by Mahal had the largest CR at the sampling percentage of 20% and 30%, and those constructed by Seuclid had the largest VR at the sampling percentage of 10% and 20%, but similar VR than that constructed by Euclid at the sampling percentage of 30% (Table 1). In S group, sub-core collections constructed by Seuclid had the largest CR at the three sampling percentage, while there was no significant pattern in VR (Table 1). In HS group, sub-core collections constructed by Euclid had the largest CR at the sampling percentage of 20% and 30%, and those constructed by Mahal had the largest VR at the sampling percentage of 10% and 30% (Table 1). Synthesizing the results above, five ideal combinations for sub-core collection were selected: HR-Manhat, ThEuclid, MR-Mahal, S-Seuclid, and HS-Euclid.

3.2. Selection of the Optimal Sampling Percentage. In each germplasm group, sub-core collections were constructed based on the selected genetic distance with the sampling percentage increasing from 5% to 30%. The value of CR of each sub-core collection was calculated. Thus, 26 CRs were calculated in each group. The constructing results of the five groups were summarized in Figure 2. In each group, the CR showed logarithmic changing. The CR increased drastically when the sampling percentage was small. With the sampling percentage increasing, CR increased steady (Figure 2). The rangeability in the group of HR and R was larger than that in the groups of MR, S, and HS (Figure 2).

Each curve of in Figure 2 was treated by curve fitting analysis, and the results were summarized in Table 2. The equations showed logarithmic form, and the coefficient of determination of fitted equations ([R.sup.2]) of each equation was larger than 0.9 (Table 2). Based on the equations, the optimal sampling percentage was calculated by setting the value of CR (%) to 95.00 (Table 2).

3.3. Validation of the Ideal Constructing Strategy. The principal component analysis was adopted to validate sub-core collections constructed by the ideal strategy selected by the present research. Principal component plots of core accessions and reserve accessions in each germplasm group were drown in Figure 3. The total genetic variation percentage of the first two principal components was 71.51% in HR group, 67.67% in R group, 66.90% in MR group, 68.45% in S group, and 71.83% in HS group. At the same sampling percentage, compared to the sub-core collections constructed by complete random selection, the core accessions selected by the present strategy showed more symmetrical distribution in the whole germplasm group, and most extreme accessions were selected (Figure 3).

4. Discussion

Core collection has been studied for about twenty years [19, 20]. A valid core collection provides a high-efficient way to assess genetic diversity or to find beneficial genes [21-24]. Most core collection researches focused on finding efficient ways in sub-core collection selection [25-27]. However, there is not a widely accepted strategy for constructing sub-core collection up to now. One common approach for constructing a core collection is splitting the whole germplasm population into several groups, then, selecting representative core accessions from each group to form sub-core collections, and combining all sub-core collections to form the final core collection [16, 28]. The present research divided the whole wheat germplasm population into five groups based on drought resistance level. The results showed that the distribution pattern of accessions was various in different germplasm group, which might lead to different suitable strategy for subcore collection construction. Therefore, different germplasm group required different constructing strategy, and it is needlessly to try to find a widely accepted constructing strategy.

The representativeness is the most important character for a core collection. The VR represents the difference of variance between core collection and the initial collection. The value of VR is affected greatly by the number of accessions in the core collection. In core collection construction based on a valid strategy, with the sampling percentage increasing, the variance decreased and the mean almost keeps unchanging, which led to the decrease of VR. However, at the same sampling percentage, bigger VR means more variation preserved in core collection. The CR shows the extent of preservation of the trait scope in a core collection. The value of CR is not affected greatly by the number of accessions. In the present research, the CR showed sensitivity to the representativeness of a sub-core collection. The CR has been reported to be an important parameter for the evaluation of the representativeness of the core collections [9,29,30]. Based on the above analysis, the ideal genetic distance for different group was determined first by CR, then by VR. Moreover, a genetic distance that could make higher CR at low sampling percentage might be more valid than others.

In the present research, data of eight agronomic traits in 1,683 wheat varieties were downloaded from public database of "Chinese Crop Germplasm Resources Information System." Such a big number of wheat germplasm might not be planted within one area or one year. Therefore, the upper data might not be collected based on the same cultivating standards, which might affect the precision of the final core collection. However, there were more than one agronomic trait used in the present research. Data of eight agronomic traits were used to calculate CR and VR. The two evaluating parameters reflected the mean representativeness of the eight agronomic traits in the core collection, which reduced the error mentioned above. A wheat core collection for the drought resistance breeding programs was constructed by the strategy selected in the present research based on the upper dataset. Table 2 showed the optimal genetic distance and the relative optimal sampling percentage for sub-core collection in each germplasm group. Therefore, the whole core collection was constructed by combining all sub-core collections. The principal component analysis showed that the genetic diversity was well preserved in that core collection. The method for the ideal constructing strategy selection suggested in the present research is also valuable in other crop's core collection construction.

http://dx.doi.org/ 10.1155/2013/489583

Authors' Contribution

Jiancheng Wang and Yajing Guan contributed equally to this work.

Acknowledgments

The research was supported by the Special Fund for AgroScientific Research in the Public Interest of China (no. 201203052), the China Postdoctoral Science Foundation (no. 2012M521184), the Shandong Provincial Natural Science Foundation of China (no. ZR2010CQ016), and the Key Project of Natural Science Foundation of Zhejiang Province of China (no. Z3100150).

References

[1] C. Saint Pierre, J. L. Crossa, D. Bonnett, K. YamaguchiShinozaki, and M. P. Reynolds, "Phenotyping transgenic wheat for drought resistance," Journal of Experimental Botany, vol. 63, no. 5, pp. 1799-1808, 2012.

[2] L. Simova-Stoilova, I. Vaseva, B. Grigorova, K. Demirevska, and U. Feller, "Proteolytic activity and cysteine protease expression in wheat leaves under severe soil drought and recovery," Plant Physiology and Biochemistry, vol. 48, no. 2-3, pp. 200-206,2010.

[3] K. Burling, Z. G. Cerovic, G. Cornic, J. M. Ducruet, G. Noga, and M. Hunsche, "Fluorescence-based sensing of droughtinduced stress in the vegetative phase of four contrasting wheat genotypes," Environmental andExperimental Botany, vol. 89, no. 3, pp. 51-59, 2013.

[4] I. C. Dodd, W R. Whalley, E. S. Ober, and M. A. J. Parry, "Genetic and management approaches to boost UK wheat yields by ameliorating water deficits," Journal of Experimental Botany, vol. 62, no. 15, pp. 5241-5248, 2011.

[5] A. Nouri, A. Etminan, J. A. T. da Silva, and R. Mohammadi, "Assessment of yield, yield-related traits and drought tolerance of durum wheat genotypes (Triticum turjidum var. durum Desf.)," Australian Journal of Crop Science, vol. 5, no. 1, pp. 86, 2011.

[6] M. Farooq, M. Irfan, T. Aziz, I. Ahmad, and S. A. Cheema, "Seed priming with ascorbic acid improves drought resistance of wheat," Journal of Agronomy and Crop Science, vol. 199, no. 1, pp. 12-22, 2013.

[7] C. Wendelboe-Nelson and P. C. Morris, "Proteins linked to drought tolerance revealed by DIGE analysis of drought resistant and susceptible barley varieties," Proteomics, vol. 12, no. 22, pp. 3374-3385, 2012.

[8] C. He, W. Zhang, Q. Gao, A. Yang, X. Hu, and J. Zhang, "Enhancement of drought resistance and biomass by increasing the amount of glycine betaine in wheat seedlings," Euphytica, vol. 177, no. 2, pp. 151-167, 2011.

[9] O. H. Frankel and A. H. D. Brown, "Plant genetics resources today: a critical appraisal," in Crop Gentic Resources: Conservation and Evaluation, J. H. W. Holden and J. T Williams, Eds., pp. 249-257, George Allen and Unwin, London, UK,, 1984.

[10] C. Silvar, A. M. Casas, D. Kopahnke et al., "Screening the Spanish Barley Core Collection for disease resistance," Plant Breeding, vol. 129, no. 1, pp. 45-52, 2010.

[11] A. Biabani, L. Carpenter-Boggs, C. J. Coyne, L. Taylor, J. L. Smith, and S. Higgins, "Nitrogen fixation potential in global chickpea mini-core collection," Biology and Fertility of Soils, vol. 47, no. 6, pp. 679-685, 2011.

[12] D. Pino Del Carpio, R. K. Basnet, R. C. H. de Vos, C. Maliepaard, R. Visser, and G. Bonnema, "The patterns of population differentiation in a Brassica rapa core collection," Theoretical and Applied Genetics, vol. 122, no. 6, pp. 1105-1118, 2011.

[13] C. Wang, S. Chen, and S. Yu, "Functional markers developed from multiple loci in GS3 for fine marker-assisted selection of grain length in rice," Theoretical and Applied Genetics, vol. 122, no. 5, pp. 905-913, 2011.

[14] J. C. Wang, J. Hu, H. M. Xu, and S. Zhang, "A strategy on constructing core collections by least distance stepwise sampling," Theoretical and Applied Genetics, vol. 115, no. 1, pp. 1-8, 2007

[15] J. C. Wang, J. Hu, Y. J. Guan, and Y. F. Zhu, "Effect of the scale of quantitative trait data on the representativeness of a cotton germplasm sub-core collection," Journal of Zhejiang University-SCIENCE B, vol. 14, no. 2, pp. 162-170, 2012.

[16] J. C. Wang, J. Hu, X. X. Huang, and S. C. Xu, "Assessment of different genetic distances in constructing cotton core subset by genotypic values.," Journal of Zhejiang University-SCIENCE B, vol. 9, no. 5, pp. 356-362, 2008.

[17 ] Y. J. Mei, J. P. Zhou, H. M. Xu, and S. J. Zhu, "Development of Sea Island cotton (Gossypium barbadense L.) core collection using genotypic values," Australian Journal of Crop Science, vol. 6, no. 4, pp. 673-680, 2012.

[18] The MathWorks Inc., MATLAB Software, The MathWorks Inc., Natick, Mass, USA, 2002.

[19] J. Bordes, C. Ravel, J. P. Jaubertie et al., "Genomic regions associated with the nitrogen limitation response revealed in a global wheat core collection," Theoretical and Applied Genetics, vol. 126, no. 3, pp. 805-822, 2013.

[20] A. Diederichsen, P. M. Kusters, D. Kessler, Z. Bainas, and R. Gugel, "Assembling a core collection from the flax world collection maintained by Plant Gene Resources of Canada," Genetic Resources and Crop Evolution, no. 1, pp. 1-7, 2012.

[21] Y. X. Zhang, X. R. Zhang, Z. Che, L. H. Wang, W. L. Wei, and D. H. Li, "Genetic diversity assessment of sesame core collection in China by phenotype and molecular markers and extraction of a mini-core collection," BMC Genetics, vol. 13, no. 1, p. 102, 2012.

[22] M. Sharma, A. Rathore, U. N. Mangala et al., "New sources of resistance to Fusarium wilt and sterility mosaic disease in a mini-core collection of pigeonpea germplasm," European Journal of Plant Pathology, vol. 133, no. 3, pp. 707-714, 2012.

[23] G. Saeidi, M. Rickauer, and L. Gentzbittel, "Tolerance for cadmium pollution in a core-collection of the model legume, Medicago truncatula L. at seedling stage," Australian Journal of Crop Science, vol. 6, no. 4, pp. 641-648, 2012.

[24] P. E. McClean, J. Terpstra, M. McConnell, C. White, R. Lee, and 5. Mamidi, "Population structure and genetic differentiation among the USDA common bean (Phaseolus vulgaris L.) core collection," Genetic Resources and Crop Evolution, pp. 1-17, 2011.

[25] R. R. Coimbra, G. V. Miranda, C. D. Cruz, D. J. H. Silva, and R. A. Vilela, "Development of a Brazilian maize core collection," Genetics and Molecular Biology, vol. 32, no. 3,pp. 538-545, 2009.

[26] E. S. Rao, P. Kadirvel, R. C. Symonds, S. Geethanjali, and A. W. Ebert, "Using SSR markers to map genetic diversity and population structure of Solanum pimpinellifolium for development of a core collection," Plant Genetic Resources, vol. I, no. 1, pp. 1-11, 2011.

[27] P. A. Reeves, L. W. Panella, and C. M. Richards, "Retention of agronomically important variation in germplasm core collections: implications for allele mining," Theoretical and Applied Genetics, vol. 124, no. 6, pp. 1155-1171, 2012.

[28] C. M. Diez, A. Imperato, L. Rallo, D. Barranco, and I. Trujillo, "Worldwide core collection of olive cultivars based on simple sequence repeat and morphological markers," Crop Science, vol. 52, no. 1, pp. 211-221, 2012.

[29] J. Hu, J. Zhu, and H. M. Xu, "Methods of constructing core collections by stepwise clustering with three sampling strategies based on the genotypic values of crops," Theoretical and Applied Genetics, vol. 101, no. 1-2, pp. 264-268, 2000.

[30] M. F. Oliveira, R. L. Nelson, I. O. Geraldi, C. D. Cruz, and J. F. F. de Toledo, "Establishing a soybean germplasm core collection," Field Crops Research, vol. 119, no. 2-3, pp. 277-289, 2010.

Jiancheng Wang, (1,2) Yajing Guan, (1) Yang Wang, (1) Liwei Zhu, (1) Qitian Wang, (1) Qijuan Hu, (1) and Jin Hu (1)

(1) Seed Science Center, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China

(2) Shandong Crop Germplasm Center, Shandong Academy of Agricultural Sciences, Jinan 250100, China

Correspondence should be addressed to Jin Hu; jhu@zju.edu.cn

Received 8 March 2013; Accepted 10 April 2013

Academic Editors: J. Huang and Z. Wang

TABLE 1: The values of CR and VR of different subcore collection constructed by six genetic distances at the sampling percentage of 10%, 20%, and 30%. Genetic distance Parameter DRL SP Euclid Seuclid Mahal (a) (b) 10% 76.17 87.16 80.48 HR 20% 89.55 91.96 88.77 30% 95.78 94.17 93.76 10% 91.51 81.60 84.16 R 20% 95.98 86.40 92.55 30% 98.93 96.11 93.64 10% 94.20 92.61 94.58 CR (%) MR 20% 97.41 96.27 98.00 30% 98.37 97.35 99.31 10% 96.46 96.91 96.05 S 20% 97.81 99.58 98.92 30% 98.04 99.58 99.35 10% 95.33 93.92 95.88 HS 20% 98.65 96.43 97.30 30% 99.20 9782 97.82 10% 122.67 12761 124.51 HR 20% 122.60 120.78 119.30 30% 117.73 119.07 113.57 10% 129.66 118.85 118.24 R 20% 119.06 115.52 117.51 30% 112.89 114.32 113.78 10% 128.26 128.60 126.81 VR (%) MR 20% 119.56 122.15 120.58 30% 116.79 116.78 113.45 10% 130.14 129.53 126.03 S 20% 120.64 120.67 119.72 30% 115.44 115.40 115.53 10% 125.25 128.97 133.16 HS 20% 122.00 122.77 122.13 30% 117.09 116.11 117.42 Genetic distance Parameter DRL SP Manhat Cosine Correl (a) (b) 10% 82.36 51.34 52.54 HR 20% 91.98 71.08 70.14 30% 97.59 77.57 80.69 10% 89.24 60.62 59.34 R 20% 96.09 73.60 65.00 30% 96.88 81.25 72.20 10% 95.37 58.36 70.18 CR (%) MR 20% 97.10 66.23 78.06 30% 97.11 75.63 86.26 10% 95.24 69.75 65.32 S 20% 99.46 75.42 72.74 30% 99.49 82.47 77.19 10% 93.88 61.97 63.68 HS 20% 96.81 80.81 73.24 30% 99.20 82.20 82.80 10% 131.10 85.27 79.12 HR 20% 125.19 92.14 90.12 30% 122.80 91.74 91.82 10% 132.61 90.21 82.94 R 20% 120.73 88.99 82.92 30% 113.18 90.82 88.82 10% 128.51 80.95 90.70 VR (%) MR 20% 120.39 85.01 92.93 30% 115.29 89.06 92.51 10% 127.10 90.40 85.16 S 20% 121.22 88.94 88.29 30% 114.36 92.36 90.24 10% 124.54 89.94 90.06 HS 20% 120.35 92.00 91.91 30% 115.94 87.68 93.25 (a) DRL: drought resistance level (HR: high resistant; R: resistant; MR: moderate resistant; S: susceptible; and HS: high susceptible). (b) SP: sampling percentage. TABLE 2: The logarithmic equations on the CR's value responded to the sampling percentage in five combinations of subcore collection construction. The optimal sampling percentage was calculated by the equation when the value of CR (%) was set to 95.00. Combination Equation (b) [R.sup.2] Optimal sampling (a) (c) percentage (%) HR-Manhat y = 12.19ln(x) + 58.41 0.9732 20.12 R-Euclid y = 6.52ln(x) + 78.17 0.9616 13.21 MR-Mahal y = 2.67ln(x) + 90.16 0.9451 6.13 S-Seuclid y = 2.80ln(x) + 91.16 0.9392 3.94 HS-Euclid y = 2.47ln(x) + 91.14 0.9498 4.77 (a) HR-Manhat: high resistant group combining Manhattan distance; R-Euclid: resistant group combining Euclidean distance; MR-Mahal: moderate resistant group combining Mahalanobis distance; S-Seuclid: susceptible group combining Standardized Euclidean distance; and HS-Euclid: high susceptible group combining Euclidean distance. (b) x: the sampling percentage (%); y: the value of CR (%). (c) [R.sup.2]: coefficient of determination of fitted equations. FIGURE 1: The distribution of 1,683 wheat varieties: HR: high resistant; R: resistant; MR: moderate resistant; R: susceptible; HS: high susceptible. Drought resistance level HR 75 R 189 MR 479 S 514 HS 426 Note: Table made from bar graph.

Printer friendly Cite/link Email Feedback | |

Title Annotation: | Research Article |
---|---|

Author: | Wang, Jiancheng; Guan, Yajing; Wang, Yang; Zhu, Liwei; Wang, Qitian; Hu, Qijuan; Hu, Jin |

Publication: | The Scientific World Journal |

Article Type: | Report |

Date: | Jan 1, 2013 |

Words: | 4009 |

Previous Article: | Antioxidant potential and oil composition of Callistemon viminalis leaves. |

Next Article: | Dynamics of space particles and spacecrafts passing by the atmosphere of the Earth. |

Topics: |