Cloning and characterization of a gene encoding MIZ1, a domain of unknown function protein and its role in salt and drought stress in rice
Dwindling fresh water resources and climate change poses serious threats to rice production. Roots play crucial role in sensing water gradient and directing growth of the plant towards water through a mechanism called hydrotropism. Since very little information is available on root hydrotropism in major food crops, this study was carried out to clone and characterize an ortholog of Arabidopsis MIZU-KUSSEI1 (MIZ1) from rice. Contrasting rice genotypes for drought and salt tolerance were selected based on phenotyping for root traits. Nagina 22 and CR-262-4 were identified as most tolerant and Pusa Sugandh 5 and Pusa Basmati 1121 were identified as most susceptible varieties for both drought and salt stresses. Allele mining of MIZ1 in these varieties identified a 12 bp Indel but did not show specific allelic association with stress tolerance. Analysis of allelic variation of OsMIZ1 in 3024 rice genotypes of 3K genome lines using Rice SNP-Seek database revealed 49 InDels. Alleles with the 12 bp deletions were significantly prevalent in indica group as compared to that of japonica group. Real-time RT-PCR analysis revealed that OsMIZ1 expression levels were upregulated significantly in tolerant cv. Nagina 22 and CR-262-4 under osmotic stress, while under salt stress, it was significantly upregulated only in CR-262-4 but maintained in Nagina 22 under salt stress. However, in the roots of susceptible genotypes, OsMIZ1 expression decreased under both the stresses. These results highlight the possible involvement of OsMIZ1 in drought and salt stress tolerance in rice. Furthermore, expression studies using publically available resources showed that enhanced expression of OsMIZ1 is regulated in response to disease infections, mineral deficiency, and heavy metal stresses and is also expressed in reproductive tissues in addition to roots. These findings indicate potential involvement of MIZ1 in developmental and stress response processes in rice.
KeywordsDrought Salinity Domain of unknown function 617 Hydrotropism
Authors acknowledge the support of Director, ICAR-National Bureau of Plant Genetic Resources (NBPGR), New Delhi, for carrying out this work.
Conceived and designed the experiments-VK, PP, VC; performed the experiments-VK, SKY, PP; bioinformatics work and data analysis-DPW, VK; manuscript drafting-VK, DPW, AK, VC.
National Agriculture Science Fund (NASF), ICAR, New Delhi, Grant No. Phen 2015/2011-12 financially supported phenotyping and cloning and expression analysis.
Conflict of interest
The authors declare that they have no conflict of interest.
- Akbar M, Gunawardena IE, Ponnamperuma FN (1986) Breeding for soil stresses: In progress in rainfed lowland rice. Institute Rice Research Institute, Manila, pp 263–272Google Scholar
- Deshmukh PS, Sairam RK, Shukla DS (1991) Measurement of ion leakage as a screening technique for drought resistance in wheat genotypes. Indian J Plant Physiol 34:89–91Google Scholar
- Dietrich D, Pang L, Kobayashi A, Fozard JA, Boudolf V, Bhosale R, Antoni R, Nguyen T, Hiratsuka S, Fujii N, Miyazawa Y, Bae TW, Wells DM, Owen MR, Band LR, Dyson RJ, Jensen OE, King JR, Tracy SR, Sturrock CJ, Mooney SJ, Roberts JA, Bhalerao RP, Dinneny JR, Rodriguez PL, Nagatani A, Hosokawa Y, Baskin TI, Pridmore TP, De Veylder L, Takahashi H, Bennett MJ (2017) Root hydrotropism is controlled via a cortex-specific growth mechanism. Nat Plants 3:17057PubMedCrossRefGoogle Scholar
- Iwata S, Miyazawa Y, Fujii N, Takahashi H (2013) MIZ1 regulated hydrotropism functions in the growth and survival of Arabidopsis thaliana under natural conditions. Ann Bot 13:1–12Google Scholar
- Kawahara Y, de la Bastide M, Hamilton JP, Kanamori H, McCombie WR, Ouyang S, Schwartz DC, Tanaka T, Wu J, Zhou S, Childs KL, Davidson RM, Lin H, Quesada-Ocampo L, Vaillancourt B, Sakai H, Lee SS, Kim J, Numa H, Itoh T, Buell CR, Matsumoto T (2013) Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data. Rice 6:4PubMedPubMedCentralCrossRefGoogle Scholar
- Khan SK, Iqbal J, Saeed M (2013) Comparative study of grain yield and biochemical traits of Different rice varieties grown under saline and normal conditions. J Anim Plant Sci 23:575–588Google Scholar
- Mansueto L, Fuentes RR, Chebotarov D, Borja FN, Detras J, Miguel AJ, Palis K, Poliakov A, Dubchak I, Solovyev V, Sackville HR, McNally K, Alexandrov N, Mauleon R (2016) SNP-Seek II: A resource for allele mining and analysis of big genomic data in Oryza sativa. Curr Plant Biol 7-8:16–25CrossRefGoogle Scholar
- Mansueto L, Fuentes RR, Borja FN, Detras J, Abriol-Santos JM, Chebotarov D, Sanciangco M, Palis K, Copetti D, Poliakov A, Dubchak I, Solovyev V, Wing RA, Hamilton RS, Mauleon R, McNally KL, Alexandrov N (2017) Rice SNP-seek database update: new SNPs, indels, and queries. Nucleic Acids Res 45(D1):D1075–D1081PubMedCrossRefGoogle Scholar
- Miyazawa Y, Yamazaki T, Moriwaki T, Takahashi H (2011) Root tropism: its mechanism and possible functions in drought avoidance. Adv Bot Res 57:350–375Google Scholar
- Ober E, Le Bloa M, Rajabi A, Smith C (2005) Genotypic differences in rooting patterns and soil water extraction related to drought tolerance in sugar beet. Comp Biochem Physiol A Mol Integr Physiol 141:S302Google Scholar
- Singh R, Singh Y, Xalaxo S, Verulkar S, Yadav N, Singh S, Singh N, Prasad KSN, Kondayya K, Ramana Rao PV, Girija Rani M, Anuradha T, Suraynarayana Y, Sharma PC, Krishnamurthy SL, Sharma SK, Dwivedi JL, Singh AK, Singh PK, Nilanjay SNK, Kumar R, Chetia SK, Ahmad T, Rai M, Perraju P, Pande A, Singh DN, Mandal NP, Reddy JN, Singh ON, Katara JL, Marandi B, Swain P, Sarkar RK, Singh DP, Mohapatra T, Padmawathi G, Ram T, Kathiresan RM, Paramsivam K, Nadarajan S, Thirumeni S, Nagarajan M, Singh AK, Vikram P, Kumar A, Septiningshih E, Singh US, Ismail AM, Mackill D, Singh NK (2016b) From QTL to variety-harnessing the benefits of QTLs for drought, flood and salt tolerance in mega rice varieties of India through a multi-institutional network. Plant Sci 242:278–287PubMedCrossRefGoogle Scholar
- Singh VK, Singh BD, Kumar A, Maurya S, Krishnan SG, Vinod KK, Singh MP, Ellur RK, Bhowmick PK, Singh AK (2018) Marker-Assisted Introgression of Saltol QTL Enhances Seedling Stage Salt Tolerance in the Rice Variety “Pusa Basmati 1”. Int J Genomics 8319879Google Scholar