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Cells
Volume 11
Issue 1
10.3390/cells11010037
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Article

Analyses of Lysin-motif Receptor-like Kinase (LysM-RLK) Gene Family in Allotetraploid Brassica napus L. and Its Progenitor Species: An In Silico Study

by
Amin Abedi
1,†,
Zahra Hajiahmadi
1,†,
Mojtaba Kordrostami
2,*,
Qassim Esmaeel
3 and
Cédric Jacquard
3,*
1
Department of Biotechnology, Faculty of Agricultural Sciences, University of Guilan, Rasht 41635-1314, Iran
2
Nuclear Agriculture Research School, Nuclear Science and Technology Research Institute (NSTRI), Atomic Energy Organization of Iran (AEOI), Karaj 31485-498, Iran
3
Université de Reims Champagne-Ardenne, RIBP EA4707 USC INRAE 1488, SFR Condorcet FR CNRS 3417, 51100 Reims, France
*
Authors to whom correspondence should be addressed.
†
These authors contributed equally to this work.
Academic Editors: Francesco Mercati and Suleyman Allakhverdiev
Cells 2022, 11(1), 37; https://doi.org/10.3390/cells11010037
Received: 2 November 2021 / Revised: 10 December 2021 / Accepted: 20 December 2021 / Published: 23 December 2021
(This article belongs to the Special Issue Omics in Plant Genetics and Breeding)
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Abstract

The LysM receptor-like kinases (LysM-RLKs) play a crucial role in plant symbiosis and response to environmental stresses. Brassica napus, B. rapa, and B. oleracea are utilized as valuable vegetables. Different biotic and abiotic stressors affect these crops, resulting in yield losses. Therefore, genome-wide analysis of the LysM-RLK gene family was conducted. From the genome of the examined species, 33 LysM-RLK have been found. The conserved domains of Brassica LysM-RLKs were divided into three groups: LYK, LYP, and LysMn. In the BrassicaLysM-RLK gene family, only segmental duplication has occurred. The Ka/Ks ratio for the duplicated pair of genes was less than one indicating that the genes’ function had not changed over time. The BrassicaLysM-RLKs contain 70 cis-elements, indicating that they are involved in stress response. 39 miRNA molecules were responsible for the post-transcriptional regulation of 12 Brassica LysM-RLKs. A total of 22 SSR loci were discovered in 16 Brassica LysM-RLKs. According to RNA-seq data, the highest expression in response to biotic stresses was related to BnLYP6. According to the docking simulations, several residues in the active sites of BnLYP6 are in direct contact with the docked chitin and could be useful in future studies to develop pathogen-resistant B. napus. This research reveals comprehensive information that could lead to the identification of potential genes for Brassica species genetic manipulation. View Full-Text
Keywords: bioinformatics; codon usage bias; expression pattern; in silico study; modeling; molecular docking bioinformatics; codon usage bias; expression pattern; in silico study; modeling; molecular docking
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited

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MDPI and ACS Style

Abedi, A.; Hajiahmadi, Z.; Kordrostami, M.; Esmaeel, Q.; Jacquard, C. Analyses of Lysin-motif Receptor-like Kinase (LysM-RLK) Gene Family in Allotetraploid Brassica napus L. and Its Progenitor Species: An In Silico Study. Cells 2022, 11, 37. https://doi.org/10.3390/cells11010037

AMA Style

Abedi A, Hajiahmadi Z, Kordrostami M, Esmaeel Q, Jacquard C. Analyses of Lysin-motif Receptor-like Kinase (LysM-RLK) Gene Family in Allotetraploid Brassica napus L. and Its Progenitor Species: An In Silico Study. Cells. 2022; 11(1):37. https://doi.org/10.3390/cells11010037

Chicago/Turabian Style

Abedi, Amin, Zahra Hajiahmadi, Mojtaba Kordrostami, Qassim Esmaeel, and Cédric Jacquard. 2022. "Analyses of Lysin-motif Receptor-like Kinase (LysM-RLK) Gene Family in Allotetraploid Brassica napus L. and Its Progenitor Species: An In Silico Study" Cells 11, no. 1: 37. https://doi.org/10.3390/cells11010037

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