Transcriptome analysis of flowering genes in mango (Mangifera indica L.) in relation to floral malformation

A Correction to this article was published on 22 January 2020

This article has been updated


Flowering is a complicated developmental process of physiological and morphological stages under the control of a number of external signals and internal factors. Floral malformation occurring during flower development stage is serious constraint having crippling effect on mango flowering and production leading to heavy economic losses. In mango there is lack of information about the gene expression profile during flower development. We therefore performed transcriptome analysis of Mangifera indica cultivar Amrapalli, by isolating total RNA from different stages of bud development in healthy and malformed tissues. The next generation sequencing were performed using 2 × 150 PE chemistry on the Illumina NextSeq platform resulting in 20.31, 20.77, 20.32, 27.92 and 18.59 million PE reads in MB-1, MB-2, MB-3, HB-1 and HB-2 stages respectively. Higher differential expressions copy numbers of seven flowering genes (MYB30, TPL, bHLH, FTIP1, CDKC2, CPK33, and ATH1) were observed in both the healthybud and panicle development stages as compared to malformed bud development stages. Among the other differentially expressed pattern of flowering genes in six possible combinations, the highly upregulated genes are UBP12, EFS, AGL8, AGL14, AGL20, AGL24, KIN10, MYB30, SUS2, FTIP1, CCT and LDL2 and down regulated genes were like TIL1, TIC, DCL3, GA20OX3, CCT, AP1, AGL6, AGL8, MYB30, AGL8, GCT and GA3OX1. The data set provides information on transcripts putatively associated with embryonic flower, earlier flowering, flowering time control, terminal flower and mads-box protein in healthy and malformed tissues. Out of the observed differentially expressed genes, the transcript profiles of GA20OX3, AGL24 and LDL2, the key genes regulating floral transition and differentiation, were validated through qRT-PCR. Our study provides a resource for exploring the complex molecular mechanisms in flower development and malformations in mango.

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Change history

  • 22 January 2020

    Correction to: Journal of Plant Biochemistry and Biotechnology







Arabidopsis thaliana Homeobox Gene 1


Basic Helix–Loop–Helix


CO, CO-like and Timing of Cab


Cycling DOF Factor 1


Cyclin-Dependent Kinase


Curly Leaf


Constitutive Photomorphogenic 1


Calcium Dependent Protein Kinase 6


Cryptochrome 2


Cullin 3A


Dicer-Like 3


Differentially expressed genes


Early flowering in short days


Early Flowering 3


Embryonic Flower 2


Fold change


Flowering time control protein FY


Flavin-Binding Kelch Repeat F box Protein


Flowering locus KH domain


FT-Interacting Protein 1


Gibberellin20-Oxidase 3






Grand Central




Gibberellin Insensitive Dwarf1A


GA Insensitive Dwarf 1B


GA Insensitive Dwarf 1C


Healthy bud stage 1


Homeobox Protein 16


Healthy bud stage 2


Histone Mono-Ubiquitination 1


Inositol Requiring 80


Jumonji 14


Kinase 10


Lysine Specific Demethylase Like 1


Late Elongated Hypocotyl




Light-Response BTB 1


Light-Regulated WD 2


Single swollen malformed bud stage 1


Multiple malformed bud stage 2


Multiple malformed panicle development stage 3


Methyl-CPG-Binding Domain 9


Nuclear Factor Y Subunit B1




Phytochrome-Interacting Factor


Phytochrome-Interacting Factor Like


Pseudo-Response Regulator 3


Related to AP2.7


Relative to Early Flowering


Red and Far-Red Insensitive 2


Reveille 2


Set Domain Protein 25


Squamosa Promoter Binding Protein-LIKE 5


Squamosa Promoter Binding Protein-Like 9


Sucrose Synthase 2


Sucrose Synthase 4


SU(VAR)3-9-Related Protein 5


Short Vegetative Phase


Tempranillo 1


Time for Coffee


Tilted 1




Trehalose-6-Phosphate Synthase 1


Ubiquitin Carrier Protein 1


Ubiquitin-Specific Protease 12


UDP-Glucosyl Transferase


Vascular Plant one Zinc Finger Protein 1


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The authors thank Director, ICAR—Indian Agricultural Research Institute, New Delhi for financial support provided for conducting the studies.

Author information




UK, BS performed the experiment and manuscript drafting. PKJ and AY carried out bioinformatics analysis of functional annotation, GO, KEGG pathway analysis, TF’s analysis, DEG’s analysis and approval of final version of manuscript was done by NKS, UK, PKJ, and NT. All authors have read and approved the final manuscript. VR and BS had performed validation using qRT-PCR.

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Correspondence to K. Usha.

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Yadav, A., Jayaswal, P.K., Venkat Raman, K. et al. Transcriptome analysis of flowering genes in mango (Mangifera indica L.) in relation to floral malformation. J. Plant Biochem. Biotechnol. 29, 193–212 (2020).

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  • Differentially expressed genes (DEG’s)
  • Flowering
  • Mango
  • Malformation
  • Transcriptome
  • Metabolic pathways