Expression and in silico analysis of the pineapple SERK gene homologues during in vitro regeneration and induced Fusarium infection


Research Articles | Published:

Print ISSN : 0970-4078.
Online ISSN : 2229-4473.
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Doi: 10.1007/s42535-022-00350-1
First Page: 571
Last Page: 584
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Keywords: Pineapple, AcSERK homologues, Docking analysis, Fusarium , qRT-PCR


The Somatic Embryogenesis Receptor Kinase (SERK) gene serves a dual purpose in plants. In addition to the induction of somatic embryogenesis, it also triggers a line of host defence against plant pathogens. The AcSERK gene family contains three homologues, viz. AcSERK1, AcSERK2, and AcSERK3 in pineapple [Ananus comosus (L.) Merr.]. We are reporting the in-silico analysis of these homologues to find out their predicted function in pathogen defence. Of the three homologues, AcSERK3 showed a unique extra leucine-rich repeat domain at the N-terminal region. It provides a high inferred function against abiotic stress concerning AcSERK1 and AcSERK2. We have also studied the expression pattern of the gene homologues in pineapple plants in response to the induced infection with Fusarium through qRT-PCR analysis. Fusarium moniliforme var. subglutinans is the causal organism of deadly "Fusariosis" disease in pineapple. The expression of AcSERK3 among all three homologues was most pronounced in the pathogen-infected plants starting from meristem to the leaves of the outer whorl. AcSERK1 was also expressed throughout the outermost leaf to meristem, and it may act as a go-between of pathogen-defense signal pathway. However, the expression of AcSERK2 was limited to the meristem region in both the control and infected plants. Since the expression of AcSERK3 was statistically significant in the infected plant, we conclude that it is the most potent homologue of the AcSERK gene.

                        AcSERK homologues, Docking analysis, 
              , qRT-PCR

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Becraft PW (2002) Receptor kinase signaling in plant development. Ann Rev Cell Dev Biol 18:163–192.

Benkert P, Biasini M, Schwede T (2011) Toward the estimation of the absolute quality of individual protein structure models. Bioinformatics 27(3):343–350.

Bienert S, Waterhouse A, de Beer TA et al (2017) The SWISS-MODEL Repository - new features and functionality. Nucleic Acids Res 45(Database Issue):D313–D319

de Farias Viegas Aquije GM, Zorzal PB, Buss DS, Ventura JA, Fernandes PMB, Fernandes AAR (2010) Cell wall alterations in the leaves of fusariosis-resistant and susceptible pineapple cultivars. Plant Cell Rep 29:1109–1117.

de Vries SC, Booij H, Meyerink P, Huisman G, Wilde HD, Thomas TL, van Kammen A (1988) Acquisition of embryogenic potential in carrot cell-suspension cultures. Planta 176:196–204.

Du X, Li Y, Xia YL et al (2016) Insights into protein-ligand interactions: mechanisms, models, and methods. Int J Mol Sci 17(2):144.

El-Gebali S, Mistry J, Bateman A et al (2019) The Pfam protein families database in 2019. Nucleic Acids Res 47(D1):D427–D432.

Gangopadhyay G, Das S, Mitra SK, Poddar R, Modak BK, Mukherjee KK (2002) Enhanced rate of multiplication and rooting through the use of coir in aseptic liquid culture media. Plant Cell, Tissue Organ Cult 68(3):301–310.

Gangopadhyay G, Bandyopadhyay T, Poddar R, Basu Gangopadhyay S, Mukherjee KK (2005) Encapsulation of pineapple micro shoots in alginate beads for temporary storage. Curr Sci 88(6):972–977

Gangopadhyay G, Roy SK, Basu Gangopadhyay S, Mukherjee KK (2009) Agrobacterium-mediated genetic transformation of pineapple var. Queen using a novel encapsulation-based antibiotic selection technique. Plant Cell, Tissue Organ Cult 97:295–302.

Gao Y, Wang W, Zhang T, Gong Z, Zhao H, Han G-Z (2018) Out of water: the origin and early diversification of plant R-genes. Plant Physiol 177(1):82–89.

Gou X, Yin H, He K et al (2012) Genetic evidence for an indispensable role of somatic embryogenesis receptor kinases in brassinosteroid signaling. PLoS Genet 8(1):e1002452

Grosdidier A, Zoete V, Michielin O (2011) SwissDock, a protein-small molecule docking web service based on EADock DSS. Nucleic Acids Res 39(Web Server issue):W270-277

Hecht V, Vielle-Calzada JP, Hartog MV et al (2001) The Arabidopsis SOMATIC EMBRYOGENESIS RECEPTOR KINASE 1 gene is expressed in developing ovules and embryos and enhances embryogenic competence in culture. Plant Physiol 127(3):803–816.

Heese A, Hann DR, Gimenez-Ibanez S et al (2007) The receptor-like kinase SERK3/BAK1 is a central regulator of innate immunity in plants. Proc Natl Acad Sci USA 104(29):12217–12222

Henikoff S, Henikoff JG (1992) Amino acid substitution matrices from protein blocks. Proc Natl Acad Sci 89(22):10915–10919.

Hollingsworth A, Karplus P (2010) A fresh look at the Ramachandran plot and the occurrence of standard structures in proteins. Biomol Concepts 1(3–4):271–283

Hu H, Xiong L, Yang Y (2005) Rice SERK1 gene positively regulates somatic embryogenesis of cultured cell and host defense response against fungal infection. Planta 222(1):107–117.

Lee F-C, Ong-Abdullah M, Ooi S-E, Namasivayam P (2018) Cloning and characterization of Somatic Embryogenesis Receptor Kinase I (EgSERK I) and its association with callus initiation in oil palm. In Vitro Cell Develop Biol Plant.

Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Method 25:402–408.

Ma J, He Y, Wu C et al (2012a) Cloning and molecular characterization of a SERK gene transcriptionally induced during somatic embryogenesis in Ananas comosus cv. Shenwan. Plant Mol Biol Rep 30:195–203.

Ma J, He Y, Hu Z et al (2012b) Characterization and expression analysis of AcSERK2, a somatic embryogenesis and stress resistance related gene in pineapple. Gene 500:115–123.

Ma J, He Y, Hu Z et al (2014) Characterization of the third SERK gene in pineapple (Ananas comosus) and analysis of its expression and autophosphorylation activity in vitro. Genet Mol Biol 37(4):530–539.

Ma J, He Y, Hu Z et al (2016) Histological analysis of somatic embryogenesis in pineapple: AcSERK1 and its expression validation under stress conditions. J Plant Biochem Biotechnol 25:49–55.

Marchler-Bauer A, Shennan L, Anderson JB et al (2011) CDD: a conserved domain database for the functional annotation of proteins. Nucleic Acids Res 39(Database issue):D225–D229

Murashige T, Skoog F (1962) A revised medium for rapid growth and bio assays with tobacco tissue cultures. Physiol Plant 15:473–497

Nam KH, Li J (2002) BRI1/BAK1, a receptor kinase pair mediating brassinosteroid signaling. Cell 110(2):203–212.

Pearson WR (2013) Selecting the Right Similarity-Scoring Matrix. Curr Protoc Bioinformatics.

Pérez-Núñez MT, Souza R, Sáenz L et al (2009) Detection of a SERK-like gene in coconut and analysis of its expression during the formation of embryogenic callus and somatic embryos. Plant Cell Rep 28:11–19.

Porras-Murillo R, Andrade-Torres A, Solís-Ramos LY (2018) Expression analysis of two SOMATIC EMBRYOGENESIS RECEPTOR KINASE (SERK) genes during in vitro morphogenesis in Spanish cedar (Cedrela odorata L). 3 Biotech 8:470.

Ventura JA, Cabral JRS, Matos AP et al (2009) ‘Vitoria’: new pineapple cultivar resistant to fusariose. Acta Hortic 882:51–56

Yang J, Yan R, Roy A et al (2015) The I-TASSER Suite: Protein structure and function prediction. Nat Methods 12:7–8

Zipfel C (2008) Pattern-recognition receptors in plant innate immunity. Curr Opin Immunol 20:10–16.



We thank the Director of Bose Institute for providing financial and infrastructural support. The first author (SP) acknowledges the financial assistance in form of research fellowship provided by DST (Department of Science and Technology, India)-INSPIRE division (Innovation in Science Pursuit for Inspired Research). We also acknowledge the technical assistance of Mr. Jadab Ghosh and Mrs. Kaberi Ghosh. GG is also thankful to the Department of Science & Technology and Biotechnology, Government of West Bengal (0496/RND/BIOSCI/Nil/Mar-2021/1/1) for funding a major portion of this work.

Author Information

Pal Soumili
Division of Plant Biology, Bose Institute, Kolkata, India

Gangopadhyay Gaurab
Division of Plant Biology, Bose Institute, Kolkata, India