Hostname: page-component-586b7cd67f-2brh9 Total loading time: 0 Render date: 2024-11-29T23:31:38.985Z Has data issue: false hasContentIssue false
  • English
  • Français

Swarna × Oryza nivara introgression lines: a resource for seedling vigour traits in rice

Published online by Cambridge University Press:  06 August 2018

Krishnam Raju Addanki ,
Divya Balakrishnan ,
Venkateswara Rao Yadavalli ,
Malathi Surapaneni ,
Sukumar Mesapogu ,
Kavitha Beerelli  and
Sarla Neelamraju
Krishnam Raju Addanki
Affiliation:
ICAR-National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, India
Divya Balakrishnan
Affiliation:
ICAR-National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, India
Venkateswara Rao Yadavalli
Affiliation:
ICAR-National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, India
Malathi Surapaneni
Affiliation:
ICAR-National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, India
Sukumar Mesapogu
Affiliation:
ICAR-National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, India
Kavitha Beerelli
Affiliation:
ICAR-National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, India
Sarla Neelamraju*
Affiliation:
ICAR-National Professor Project, ICAR-Indian Institute of Rice Research, Hyderabad, India
*
*Corresponding author. E-mail: [email protected]
Get access Rights & Permissions [Opens in a new window]

Abstract

Seedling vigour is an important indicator of crop establishment, subsequent crop growth and yield. Initial seedling vigour is most vital in case of water-limited conditions and in environments where the crop is exposed to different stresses at the early growth stage. Wild and weedy species are well known for their vigour and survival in adverse environmental conditions. Seedling vigour traits of backcross introgression lines (BILs) derived from Swarna × Oryza nivara IRGC81848(S) (accession from Uttar Pradesh, India) and IRGC81832 (K) (accession from Bihar, India) were studied in wet (Kharif) and dry (Rabi) seasons. Seedling vigour was estimated in terms of plant height and tiller number at 30 and 60 d after transplanting under field conditions. In both the seasons, 148S showed highest seedling vigour for plant height. The highest number of tillers were produced by 7K in Kharif and 248S in Rabi season. 75S showed the highest percentage increase in tiller number consistently. High yielding BILs 166S, 14S and 148S showed higher seedling vigour indices compared with checks Tulasi and Sahbhagidhan. Seedling vigour was also evaluated using paper roll method and shoot length, root length and dry weight were used to estimate vigour index. Season-wise association studies were conducted to determine the relative contribution of seedling vigour to yield traits. Seedling vigour was significantly correlated with yield traits. Markers RM217 and RM253 on chromosome 6 differentiated lines with high seedling vigour from those with low seedling vigour and have the potential for use in marker-assisted breeding.

Keywords

backcross introgression linesseedling vigour indexSSRsyieldwild
Type
Research Article
Information
Plant Genetic Resources , Volume 17 , Issue 1 , February 2019 , pp. 12 - 23
Copyright
Copyright © NIAB 2018 

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

References

Anandan, A, Anumalla, M, Pradhan, SK and Ali, J (2016) Population structure, diversity and trait association analysis in rice (Oryza sativa L.) germplasm for early seedling vigour (ESV) using trait linked SSR markers. PLoS ONE 11: e0152406.Google Scholar
Balasubramanian, V and Hill, JE (2002) Direct seeding of rice in Asia: emerging issues and strategic research needs for the 21st century. In: Pandey, S and International Rice Research Institute (eds) Direct Seeding: Research Strategies and Opportunities. Los Banos, Philippines: IRRI, pp. 15–39.Google Scholar
Barone, A, Matteo, A, Carputo, D and Frusciante, L (2009) High-throughput genomics enhances tomato breeding efficiency. Current Genomics 10: 1–9.Google Scholar
Bewley, JD, Bradford, KJ, Hilhorst, HWM and Nonogaki, H (2013) Seeds: Physiology of Development, Germination and Dormancy. New York: Springer, 392p.Google Scholar
Borjas, AH, Teresa, BDL and Prasanta, KS (2016) Genetic analysis of germinating ability and seedling vigour under cold stress in US weedy rice. Euphytica 208: 251–264.Google Scholar
Brar, DS and Khush, GS (1997) Alien introgression in rice. Plant Molecular Biology 35: 35–47.Google Scholar
Cairns, JE, Namuco, OS, Torres, R, Simborio, FA, Courtois, B, Aquino, GA and Johnson, DE (2009) Investigating early vigour in upland rice (Oryza sativa L.): Part II. Identification of QTLs controlling early vigour under greenhouse and field conditions. Field Crops Research 113: 207–217.Google Scholar
Cruz, RP and Milach, SCK (2004) Cold tolerance at the germination stage of rice: methods of evaluation and characterization of genotypes. Agricultural Sciences 61: 1–8.Google Scholar
Cui, KH, Peng, SB, Xing, YZ, Xu, CG, Yu, SB and Zhang, Q (2002) Molecular dissection of seedling vigour and associated physiological traits in rice. Theoretical and Applied Genetics 105: 745–753.Google Scholar
Divya, B, Subrahmanyam, D, Badri, J, Raju, AK, Rao, YV, Kavitha, B, Sukumar, M, Malathi, S, Revathi, P, Padmavathi, G., Babu, VR and Sarla, N (2016) Genotype × environment interactions of yield traits in backcross introgression lines derived from Oryza sativa cv. Swarna/Oryza nivara. Frontiers in Plant Science 7: 1530.Google Scholar
Doyle, JJ and Doyle, JL (1987) A rapid DNA isolation procedure from small quantities of fresh leaf tissue. Phytochemical Bulletin 19: 11–15.Google Scholar
Eizenga, GC, Prasad, B, Jackson, AK and Jia, MH (2013) Identification of rice sheath blight and blast quantitative trait loci in two different O. sativa/O. nivara advanced backcross populations. Molecular Breeding 31: 889–907.Google Scholar
Eizenga, GC, Neves, PCF, Bryant, RJ, Agrama, HA and Mackill, DJ (2016) Evaluation of a M-202 × Oryza nivara advanced backcross mapping population for seedling vigour, yield components and quality. Euphytica 208: 157–171.Google Scholar
Fujino, K, Sekiguchi, H, Sato, T, Kiuchi, H, Nonoue, Y, Takeuchi, Y, Ando, T, Lin, SY and Yano, M (2004) Mapping of quantitative trait loci controlling low-temperature germinability in rice (Oryza sativa L.). Theoretical and Applied Genetics 108: 794–799.Google Scholar
Gu, D, Zhen, F, Hannaway, DB, Zhu, Y, Liu, L and Cao, W (2017) Quantitative classification of rice (Oryza sativa L.) root length and diameter using image analysis. PloS ONE 12: e0169968.Google Scholar
Guan, Q, Lu, X, Zeng, H, Zhang, Y and Zhu, J (2013) Heat stress induction of miR398 triggers a regulatory loop that is critical for thermotolerance in Arabidopsis. The Plant Journal 74: 840–851.Google Scholar
Gur, A and Zamir, D (2004) Unused natural variation can lift yield barriers in plant breeding. PLoS Biology 2: e245.Google Scholar
Haritha, G, Sudhakar, T, Chandra, D, Ram, T, Divya, B and Sarla, N (2016) Informative ISSR markers help identify genetically distinct accessions of Oryza rufipogon in yield improvement. Rice Science 23: 225–2241.Google Scholar
Haritha, G, Malathi, S, Divya, B, Swamy, BPM, Mangrauthia, SK and Sarla, N (2018) Oryza nivara Sharma et Shastry. In: Mondal, T and Henry, R (eds) The Wild Oryza Genomes. Compendium of Plant Genomes. Cham: Springer, pp. 207–258. DOI: 10.1007/978-3-319-71997-9_20.Google Scholar
Huang, M, Zhang, R, Chen, J, Cao, F, Jiang, L and Zou, Y (2017) Morphological and physiological traits of seeds and seedlings in two rice cultivars with contrasting early vigour. Plant Production Science 20, 95–101.Google Scholar
IRRI (2013). Standard Evaluation System (SES) for Rice, 5th edn. Philippines: IRRI.Google Scholar
Joshi, SP, Gupta, VS, Aggarwal, RK, Ranjekar, PK and Brar, DS (2000) Genetic diversity and phylogenetic relationship as revealed by inter simple sequence repeat (ISSR) polymorphism in the genus Oryza. Theoretical and Applied Genetics 100: 1311–1320.Google Scholar
Juneja, S, Das, A, Joshi, SV, Sharma, S, Yogesh, VY, Patra, BC, Bharaj, TS, Sidhu, JS and Singh, K (2006) Oryza nivara (Sharma et Shastry) the progenitor of O. sativa (l.) subspecies indica harbors rich genetic diversity as measured by SSR markers. Current Science 91: 1079–1085.Google Scholar
Kaladhar, K, Swamy, BPM, Babu, AP, Reddy, CS and Sarla, N (2008) Mapping quantitative trait loci for yield traits in BC2F2 population derived from Swarna × O. nivara cross. Rice Genetics Newsletter 24: 34–36.Google Scholar
Kanbar, A, Janamatt, M, Sudheer, E, Vinod, MS and Shashidhar, HE (2006) Mapping QTLs underlying seedling vigour traits in rice (Oryza sativa L.). Current Science 90: 1–10.Google Scholar
Kharb, RPS, Lather, BPS and Deswal, DP (1994) Prediction of field emergence through heritability and genetic advance of vigour parameters. Seed Science and Technology 22: 461–466.Google Scholar
Krishnasamy, V and Seshu, DV (1989) Seed germination rate and associated characters in rice. Crop Science 29: 904–908.Google Scholar
Li, CC and Rutger, JN (1980) Inheritance of cool temperature seedling vigour in rice and its relationship with other agronomic characteristics. Crop Science 20: 295–298.Google Scholar
Li, J, Thomson, M and McCouch, SR (2004) Fine mapping of a grain weight Quantitative Trait Locus in the pericentromeric region of rice chromosome 3. Genetics 168: 2187-2195.Google Scholar
Lu, XL, Niu, AL, Cai, HY, Zhao, Y, Liu, JW, Zhu, YG and Zhang, ZH (2007) Genetic dissection of seedling and early vigour in a recombinant inbred line population of rice. Plant Science 172: 212–220.Google Scholar
Mahender, A, Anandan, A and Pradhan, SK (2015) Early seedling vigour, an imperitive trait for direct-seeded rice; an overview on physio-morphological parameters and molecular markers. Planta 241, 1027–1050.Google Scholar
Malathi, S, Divya, B, Sukumar, M, Raju, A K, Rao, YV, Tripura Venkata, VGN and Sarla, N (2017) Identification of major effect QTLs for agronomic traits and CSSLs in rice from Swarna/O nivara derived backcross inbred lines. Frontiers in Plant Science 8: 1027.Google Scholar
Monforte, AJ and Tanksley, SD (2000) Development of a set of near isogenic and backcross recombinant inbred lines containing most of the Lycopersicon hirsutum genome in a L. esculentum genetic background: a tool for gene mapping and gene discovery. Genome 43: 803–813.Google Scholar
Multani, DS, Jena, KK, Brar, DS, Delos Reyes, BG, Angeles, ER and Khush, GS (1994) Development of monosomic alien addition lines and introgression of genes from Oryza australiensis Domin.to cultivated rice O. sativa l. Theoretical and Applied Genetics 88: 102–1109.Google Scholar
Namuco, OS, Cairns, JE and Johnson, DE (2009) Investigating early vigour in upland rice (Oryza sativa L.). Part I. Seedling growth and grain yield in competition with weeds. Field Crops Research 113: 197–206.Google Scholar
Niroula, RK and Bimb, HP (2009) Overview of wheat × maize system of crosses for dihaploid induction in wheat. World Applied Science 7: 1037–1045.Google Scholar
Prasanth, VV, Babu, MS, Basava, RK, Tripura Venkata, VGN, Mangrauthia, SK, Voleti, SR and Neelamraju, S (2017) Trait and marker associations in Oryza nivara and O. rufipogon derived rice lines under two different heat stress conditions. Frontiers in Plant Science 8: 1819.Google Scholar
Quarrie, SA, Strojanovic, J and Pekic, S (1999) Improving drought resistance in small grained cereals: a case study, progress and prospects. Plant Growth Regulators 29: 1–21.Google Scholar
Rangel, PHN, de Morais, OP, Brondani, C, Rangel, PN and Brondani, RPV (2006) Selection of rice genotypes with greater seedling vigour under controlled conditions. Crop Breeding and Applied Biotechnology 6: 65–72.Google Scholar
Rebolledo, MC, Dingkuhn, M, Courtois, B, Gibon, Y, Clément-Vidal, A, Cruz, DF, Duitama, J, Lorieux, M and Luquet, D (2015) Phenotypic and genetic dissection of component traits for early vigour in rice using plant growth modelling, sugar content analyses and association mapping. Journal of Experimental Botany 66: 5555–5566.Google Scholar
Redona, ED and Mackill, DJ (1996a) Genetic variation for seedling vigour traits in rice. Crop Science 36: 285–290.Google Scholar
Redona, ED and Mackill, DJ (1996b) Mapping quantitative trait loci for seedling vigour in rice using RFLPs. Theoretical and Applied Genetics 92: 395–402.Google Scholar
Regan, KL, Siddique, KHM, Turner, NC and Whan, BR (1992) Potential for increasing early vigour and total biomass in spring wheat. II. Characteristics associated with early vigour. Australian Journal of Agricultural Research 43: 541–553.Google Scholar
Sarla, N, Bobba, S and Siddiq, EA (2003) ISSR and SSR markers based on AG and GA repeats delineate geographically diverse Oryza nivara accessions and reveal rare alleles. Current Science 84: 683–690.Google Scholar
Sasahara, T, Ikarashi, H and Kambayashi, M (1986) Genetic variations in embryo and endosperm weights, seedling growth parameters and á-amylase activity of the germinated grains in rice (Oryza sativa L.). Japanese Journal of Breeding 36: 248–261.Google Scholar
Sharifi, P (2010) Evaluation on sixty-eight rice germplasms in cold tolerance at germination stage. Rice Science 17: 77–81.Google Scholar
Singh, UM, Yadav, S, Dixit, S, Ramayya, PJ, Devi, MN, Raman, KA and Kumar, A (2017) QTL hotspots for early vigour and related traits under dry direct-seeded system in rice (Oryza sativa L.). Frontiers in Plant Science 8: 286.Google Scholar
Subudhi, PK, Leon, TD, Singh, PK, Parco, A, Cohn, MA and Sasaki, T (2015) A chromosome segment substitution library of weedy rice for genetic dissection of complex agronomic and domestication traits. PLoS ONE 10: e0130650.Google Scholar
Sun, Q, Wang, JH and Sun, BQ (2007) Advances on seed vigour physiological and genetic mechanisms. Agricultural Science in China 6: 1060–1066.Google Scholar
Swamy, BPM and Sarla, N (2008) Yield-enhancing quantitative trait loci (QTLs) from wild species. Biotechnology Advances 26: 106–120.Google Scholar
Swamy, BPM, Kaladhar, K, Ramesha, MS, Viraktamath, BC and Sarla, N (2011) Molecular mapping of QTLs for yield and related traits in Oryza sativa cv Swarna × O. nivara (IRGC81848) backcross population. Rice Science 18, 178–186.Google Scholar
Swamy, BPM, Kaladhar, K, Reddy, AG, Viraktamath, BC and Sarla, N (2014) Mapping and introgression of QTL for yield and related traits in two backcross populations derived from Oryza sativa cv. Swarna and two accessions of O. nivara. Journal of Genetics 93: 643–653.Google Scholar
Tan, LB, Liu, FX, Xue, W, Wang, GJ, Ye, S, Zhu, ZF, Fu, YC, Wang, XK and Sun, CQ (2007) Development of Oryza rufipogon and O. sativa introgression lines and assessment for yield-related quantitative trait loci. Journal of Integrative Plant Biology 49: 871–8884.Google Scholar
Tanksley, SD and McCouch, SR (1997) Seed banks and molecular maps: unlocking genetic potential from the wild. Science 277: 1063–1066.Google Scholar
Thalapati, S, Guttikonda, H, Nannapaneni, ND, Babu, AP, Reddy, CS, Swamy, BPM, Batchu, AK, Basava, RK, Viraktamath, BC and Sarla, N (2014) Heterosis and combining ability in rice as influenced by introgressions from wild species Oryza rufipogon including qyld 2.1 sub-QTL into the restorer line KMR3. Euphytica 202: 81–95.Google Scholar
Tian, F, Li, DJ, Fu, Q, Zhu, ZF, Fu, YC, Wang, XK and Sun, CQ (2006a) Construction of introgression lines carrying wild rice (Oryza rufipogon Griff.) segments in cultivated rice (O. sativa l.) background and characterization of introgressed segments associated with yield-related traits. Theoretical and Applied Genetics 112: 570–5580.Google Scholar
Tian, F, Zhu, ZF, Zhang, BS, Tan, LB, Fu, YC, Wang, XK and Sun, CQ (2006b) Fine mapping of a quantitative trait locus for grain number per panicle from wild rice (Oryza rufipogon Griff.). Theoretical and Applied Genetics 113: 619–6629.Google Scholar
Wang, L, Wang, YJ and Porter, R (2002) Structures and physicochemical properties of six wild rice starches. Journal of Agriculture and Food Chemistry 50: 2695–2699.Google Scholar
Wang, ZF, Wang, JF, Bao, YM, Wang, FH and Zhang, HS (2010) Quantitative trait loci analysis for rice seed vigour during the germination stage. Journal of Zhejiang University, Science B 11: 958–964.Google Scholar
Wickneswari, R, Bhuiyan, MAR, Kalluvettankuzhy, KS, Lim, LS, Thomson, MJ, Md. Kairudin, NMK and Abdullah, MZ (2012) Identification and validation of quantitative trait loci for agronomic traits in advanced backcross breeding lines derived from Oryza rufipogon × Oryza sativa cultivar MR219. Plant Molecular Biology Reporter 30: 929–939.Google Scholar
Williams, JF and Peterson, ML (1973) Relations between α-amylase activity and growth of rice seedlings. Crop Science 13: 612–615.Google Scholar
Xu, CG, Li, XQ, Xue, Y, Huang, YW, Gao, J and Xing, YZ (2004) Comparison of quantitative trait loci controlling seedling vigour characteristics at two seedling stages in rice recombinant inbred lines. Theoretical and Applied Genetics 109: 640–647.Google Scholar
Yamane, K, Garcia, R, Imayoshi, K, Mabesa-Telosa, RC, Banayo, NPM, Vergara, G, Yamauchi, A, Sta. Cruz, P and Kato, Y, 2018. Seed vigour contributes to yield improvement in dry direct-seeded rainfed lowland rice. Annals of Applied Biology 172: 100–110.Google Scholar
Yamauchi, M and Winn, T (1996) Rice seed vigour and seedling establishment in anaerobic soil. Crop Science 36: 680–686.Google Scholar
Yamauchi, M, Aguilar, AM, Vaughan, DA and Seshu, DV (1993) Rice germplasm suitable for direct sowing under flooded soil surface. Euphytica 67: 177–184.Google Scholar
Zhang, ZH, Su, L, Li, W, Chen, W and Zhu, YG (2005a) A major QTL conferring cold tolerance at the early seedling stage using recombinant inbred lines of rice (Oryza sativa L.). Plant Science 168: 527–534.Google Scholar
Zhang, ZH, Yu, SB, Yu, T, Huang, Z and Zhu, YG (2005b) Mapping quantitative trait loci (QTLs) for seedling-vigour using recombinant inbred lines of rice (Oryza sativa L.). Field Crops Research 91: 161–170.Google Scholar
Zhao, D, Atlin, GN, Bastiaans, L and Spiertz, JL (2006) Developing selection protocols for weed competitiveness in aerobic rice. Field Crops Research 97: 272–285.Google Scholar
Zhou, L, Wang, JK, Yi, Q, Wang, YZ, Zhu, YG and Zhang, ZH (2007) Quantitative trait loci for seedling vigour in rice under field conditions. Field Crops Research 100: 294–301.Google Scholar
Zhou, X and Stephens, M (2012) Genome-wide efficient mixed model analysis for association studies. Nature Genetics 44: 821–824.Google Scholar
Supplementary material: File

Addanki et al. supplementary material

Tables S1-S4 and Figure S1

Download Addanki et al. supplementary material(File)
File 1.5 MB