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J. Biosci. Agric. Res. | Volume 26, Issue 02, 2177-2191 | https://doi.org/10.18801/jbar.260220.267
​Article type: Research article | Received: 19.10.2020; Revised: 07.12.2020; First published online: 10 December 2020.

Phenylalanine ammonia-lyase gene family (PAL): Genome wide characterization and transcriptional expression in jute (Corchorus olitorius)

Md. Sabbir Hossain 1, Rasel Ahmed 1, Md. Wali Ullah 1, Ummay Honi 1, Md. Zablul Tareq 1, Mohammad Saiful Alam Sarker 1, Borhan Ahmed 1,2 and Md. Shahidul Islam 1,2
1 Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka, Bangladesh.
2 Bangladesh Jute Research Institute, Dhaka, Bangladesh.

✉  Corresponding author: sabbirbge@gmail.com  (Hossain, M.S.).

Abstract
Jute is one of the important ligno-cellulose bast fiber crops next to cotton. High lignin content in jute fiber makes hindrances during spinning in the textile industry. Phenylalanine ammonia-lyase (PAL), encoded by multigene family, is the first enzyme in the phenylpropanoid pathway which involved in biosynthesis of different secondary metabolites including lignin. A total of 4 PAL genes were identified in jute (Corchorus. olitorius) genome which was being distributed in two chromosomes and clustered into three subfamilies based on phylogenetic analysis. Like PAL genes in other species, CoPALs had similar molecular properties and structure organizations. Expression analysis revealed that CoPAL1 and CoPAl2 were differentially expressed in various jute tissues. Among them, CoPAL1 was predominately expressed in stem tissues suggesting its involvement in lignin accumulation in fiber and can act as a potential target for reducing lignin in jute. Our study provides useful information for future functional characterization of PAL genes in jute.
 
Key Words: Jute, PAL gene, Genome wide analysis, Gene structure and Gene expression

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MLA
Hossain, M. S. et al. “Phenylalanine ammonia-lyase gene family (PAL): Genome wide characterization and transcriptional expression in jute (Corchorus olitorius)”. Journal of Bioscience and Agriculture Research, 26(02), (2020): 2185-2191.
 
 
APA
Hosain, M. S., Ahmed, R., Ullah, M. W., Honi, U., Tareq, M. Z., Sarker, M. S. A., Ahmed, B. and Islam, M. S. (2020). Phenylalanine ammonia-lyase gene family (PAL): Genome wide characterization and transcriptional expression in jute (Corchorus olitorius). Journal of Bioscience and Agriculture Research, 26(02), 2185-2191.
Chicago
Hosain, M. S., Ahmed, R., Ullah, M. W., Honi, U., Tareq, M. Z., Sarker, M. S. A., Ahmed, B. and Islam, M. S. “Phenylalanine ammonia-lyase gene family (PAL): Genome wide characterization and transcriptional expression in jute (Corchorus olitorius)”. Journal of Bioscience and Agriculture Research, 26(02), (2020): 2185-2191.
 
Harvard
Hosain, M. S., Ahmed, R., Ullah, M. W., Honi, U., Tareq, M. Z., Sarker, M. S. A., Ahmed, B. and Islam, M. S. 2020. Phenylalanine ammonia-lyase gene family (PAL): Genome wide characterization and transcriptional expression in jute (Corchorus olitorius). Journal of Bioscience and Agriculture Research, 26(02), pp. 2185-2191.
 
Vancouver                                                                                 
Hosain, MS, Ahmed, R, Ullah, MW, Honi, U, Tareq, MZ, Sarker, MSA, Ahmed, B and Islam, MS. Phenylalanine ammonia-lyase gene family (PAL): Genome wide characterization and transcriptional expression in jute (Corchorus olitorius). Journal of Bioscience and Agriculture Research, 2020 December 26(02): 2185-2191.

References:

1. Cao, Y. and Li X. (2019). Integrative Analysis of the Core Fruit Lignification Toolbox in Pear Reveals Targets for Fruit Quality Bioengineering. Biomolecules, 9 (9), 504. https://doi.org/10.3390/biom9090504
2. Carocha, V., Soler, M., Hefer, C., Cassan-Wang, H., Fevereiro, P., Myburg, A. A., Paiva, J. A. and Grima-Pettenati, J. (2015). Genome-wide analysis of the lignin toolbox of Eucalyptus grandis. The New phytologist, 206(4), 1297-1313. https://doi.org/10.1111/nph.13313
3. Dong, C-j., Cao, N., Zhang, Z-g and Shang, Q-m. (2016). Phenylalanine ammonia-lyase gene families in cucurbit species: Structure, evolution, and expression. Journal of Integrative Agriculture, 15(6), 1239-1255. https://doi.org/10.1016/S2095-3119(16)61329-1
4. Fraser, C. M. and Chapple, C. (2011). The phenylpropanoid pathway in Arabidopsis. The arabidopsis book, 9, e0152. https://doi.org/10.1199/tab.0152
5. Hossain, M. S., Ahmed, B., Ullah, M. W., Aktar, N., Haque. M. S. and Islam, M. S. (2020). Genome-wide identification of fasciclin-like arabinogalactan proteins in jute and their expression pattern during fiber formation. Molecular biology reports, https://doi.org/10.1007/s11033-020-05858-w
   
6. Hossain, M. S., Ahmed, R., Haque, M. S., Alam, M. M. and Islam, M. S. (2019). Identification and validation of reference genes for real-time quantitative RT-PCR analysis in jute. BMC Molecular Biology, 20(1), 13. https://doi.org/10.1186/s12867-019-0130-2
   
7. Islam, M. S., Saito, J. A., Emdad, E. M., Ahmed, B., Islam, M. M., Halim, A., Hossen, Q. M., Hossain, M. Z., Ahmed, R., Hossain, M. S., Kabir, S. M., Khan, M. S., Khan, M. M., Hasan, R., Aktar, N., Honi, U., Islam, R., Rashid, M. M. and Wan, X. (2017). Comparative genomics of two jute species and insight into fibre biogenesis. Nature Plants, 3, 16223. https://doi.org/10.1038/nplants.2016.223
   
8. Kumar, S., Stecher, G., Li, M., Knyaz, C. and Tamura, K. (2018). MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Molecular biology and evolution, 35(6), 1547-1549. https://doi.org/10.1093/molbev/msy096
   
9. Rawal, H. C., Singh, N. K. and Sharma, T. R. (2013). Conservation, Divergence, and Genome-Wide Distribution of PAL and POX A Gene Families in Plants. International journal of genomics, 2013, 1-10. https://doi.org/10.1155/2013/678969
   
10. Trapnell, C., Roberts. A., Goff, L., Pertea, G., Kim, D., Kelley, D. R., Pimentel, H., Salzberg, S. L., Rinn, J. L and Pachter, L. (2012). Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nature protocols, 7 (3), 562-578. https://doi.org/10.1038/nprot.2012.016
    
11. Yan, F., Li, H. and Zhao, P. (2019). Genome-Wide Identification and Transcriptional Expression of the PAL Gene Family in Common Walnut (Juglans Regia L.). Genes, 10(1), 46. https://doi.org/10.3390/genes10010046
    
12. Yang, Z., Wu, Y., Dai, Z., Chen, X., Wangb, H., Yang, S., Xie, D., Tang, Q., Cheng, C., Xu, Y., Deng, C., Liu, C., Chen, J. and Su, J. (2020). Comprehensive transcriptome analysis and tissue-specific profiling of gene expression in jute (Corchorus olitorius L.). Industrial Crops and Products, 146, 112101. https://doi.org/10.1016/j.indcrop.2020.112101.
    
13. Yoon, J., Choi, H. and An, G. (2015). Roles of lignin biosynthesis and regulatory genes in plant development. Journal of integrative plant biology, 57(11), 902-912
    

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