Molecular Analysis of Cold Responsive (COR) Genes in Selected Sugarcane and Saccharum spontaneum L.

Shafee Ur Rehman, Khushi Muhammad, Hassan Sher, Youxiong Que, Rahmat Ali, Shahid Ali, Ishtiaq Hassan, Murad Ali Rahat

Abstract


Background: Sugarcane (Saccharum derived) is an important commercially harvested crop in all parts of the world including tropical and subtropical areas. Saccharum hybrid is the tall perennial true grasses with sweet stalk rich in sucrose and it is the main source of sugar.

Methods: Initially, 23 genes differentially expressed during cold stress in other Andropogoneae tribe members were retrieved from NCBI GenBank and were investigated in the genome of selected sugarcane and Saccharum spontaneum L. Samples. Their presence in our samples was analyzed and confirmed through PCR and Agarose Gel Electrophoresis (AGE).

Results: Most of these (COR) genes (21/23) were confirmed in cold tolerant cultivars namely, SPSG-394, CP-851491 and Saccharum spontaneum L. while the least number of genes was observed in cold sensitive cultivar namely, CP-77400. Moreover 10 cold responsive genes, namely CBF1, CBF2, CBF3, COR 6.6, COR 78, COR 47, WCOR 80, WCOR14, C17 and 85KDA were sent for sequencing. Nucleotide sequences analysis of selected genes revealed the homology to stress responsive protein. Furthermore, during a conserved domain search, three conserved domains had been detected, namely gypsy transposon, zinc binding for reverse transcriptase and pepsin like aspartate proteases.

Conclusion: The analysis of cold responsive genes in sugarcane could help breeders to select cold tolerant sugarcane cultivars through PCR amplification.

Keywords:  NCBI; Sugarcane; COR genes; Conserved domain       


Full Text:

PDF

References


Rehman US, Muhammad K, Que Y, Rehman AU, Novaes E, Khan S. Presence of seventeen genes potentially involved in cold tolerance in sugarcane and Saccharum spontaneum genotypes. International Journal of Biosciences, (2019); 14(1): 346- 355.

Vilela MDM, Del Bem LE, Van Sluys MA, de Setta N, Kitajima JP, Cruz GMQ, Sforça DA, de Souza AP, Ferreira PCG, Grativol C and Cardoso-Silva CB. Analysis of three sugarcane homo/homeologous regions suggests independent polyploidization events of Saccharum officinarum and Saccharum spontaneum. Genome Biology and Evolution, (2017); 9(2): 266-278,

Moore PH 1987. Breeding for stress resistance. In: Heinz DJ, Sugarcane Improvement through Breeding ed., Elsevier, Amsterdam. pp 503-542.

Du YC, Nose A, Wasano K. Thermal characteristics of C4 photosynthetic enzymes from leaves of three sugarcane species differing in cold sensitivity. Plant Cell Physiology, (1999); 40(3): 298-304, 19998.

Que Y, Su Y, Guo J, Wu Q, Xu L. A global view of transcriptome dynamics during Sporisorium scitamineum challenge in sugarcane by RNA-Seq. PLoS One, (2017); 9(8): e106476.

Tai PYP and Lentini RS 1998. Freeze damage of Florida sugarcane, University of Florida Cooperative Extension Service, Institute of Food and Agricultural

Sciences, EDIS.

Gilmour SJ, Sebolt AM, Salazar MP, Everard JD and Thomashow MF. Overexpression of the Arabidopsis CBF3transcriptional activator mimics multiple biochemical changes associated with cold acclimation. Plant physiology, (2000); 124(4): 1854-1865.

Artus NN, Uemura M, Steponkus PL, Gilmour SJ, Lin C and Thomashow MF. Constitutive expression of the cold-regulated Arabidopsis thaliana COR15a gene affects both chloroplast and protoplast freezing tolerance. Proceedings of National Academy of Science, (1996); 93(23): 13404-13409.

Monroy AF, Castonguay Y, Laberge S, Sarhan F, Vezina LP and Dhindsa RS. A new cold-induced alfalfa gene is associated with enhanced hardening at subzero temperature. Plant Physiology, (1993); 102(3): 873-879.

Thomashow MF. Plant cold acclimation: freezing tolerance genes and regulatory mechanism. Annual Review of Plant Biology, (1999); 50: 571–59916.

Houde M, Dhindsa RS, Sarhan F 1992. A molecular marker to select for freezing tolerance in Gramineae. Mol. Gen. Genet. 234(1): 43-48.

Rehman SU, Que Y, Khan S, Novaes E, Inamullah and Muhammad K. Molecular Study Of CBF And WCOR14 Genes In Selected Sugarcane Cultivars and Its Wild Relative Saccharum spontaneum L. Journal of Animal and Plant Sciences, (2020); 30(4): 913-922

Yamaguchi-Shinozaki K, Shinozaki K. A novel cis-acting element in an Arabidopsis gene is involved in responsiveness to drought, low temperature or high-salt stress. Plant Cell, (1994); 6: 251.264.

Liu Q, Kasuga M, Sakuma Y, Abe H, Miura S, Yamaguchi-Shinozaki K, Shinozaki K. Two transcription factors, DREB1 and DREB2, with an EREBP/AP2 DNA binding domain separate two cellular signal transduction pathways in drought-and low-temperature-responsive gene expression, respectively, in Arabidopsis. The Plant Cell, (1998); 10(8): 1391-1406.

Medina J, Bargues M, Terol J, Pérez-Alonso M, Salinas J. The Arabidopsis CBF gene family is composed of three genes encoding AP2 domain-containing proteins whose expression is regulated by low temperature but not by abscisic acid or dehydration. Plant physiology, (1998); 119(2): 463-470.

Miura K, Furumoto T. Cold signaling and cold response in plants. International Journal of Molecular Sciences, (2013); 14(3): 5312-5337.


Refbacks

  • There are currently no refbacks.