The R2R3-MYB gene family in banana (Musa acuminata): Genome-wide identification, classification and expression patterns

Abstract

The R2R3-MYB genes comprise one of the largest transcription factor gene families in plants, playing regulatory roles in plant-specific developmental processes, defense responses and metabolite accumulation. To date MYB family genes have not yet been comprehensively identified in the major staple fruit crop banana. In this study, we present a comprehensive, genome-wide analysis of the MYB genes from Musa acuminata DH-Pahang (A genome). A total of 285 R2R3-MYB genes as well as genes encoding three other classes of MYB proteins containing multiple MYB repeats were identified and characterised with respect to structure and chromosomal organisation. Organ-and development-specific expression patterns were determined from RNA-Seq data. For 280 M. acuminata MYB genes for which expression was found in at least one of the analysed samples, a variety of expression patterns were detected. The M. acuminata R2R3-MYB genes were functionally categorised, leading to the identification of seven clades containing only M. acuminata R2R3-MYBs. The encoded proteins may have specialised functions that were acquired or expanded in Musa during genome evolution. This functional classification and expression analysis of the MYB gene family in banana establishes a solid foundation for future comprehensive functional analysis of MaMYBs and can be utilized in banana improvement programmes.

Characterization of the Liriodendron Chinense MYB Gene Family and Its Role in Abiotic Stress Response

“…In general, R2R3-MYB domains have, on average, approximately 108 amino acids between each MYB protein ( Liu et al, 2020 ; Pucker et al, 2020 ). Outside the DNA-binding domain, however, the length and the composition of amino acids vary greatly.…”

Functional characterisation of banana (Musaspp.) 2-oxoglutarate-dependent dioxygenases involved in flavonoid biosynthesis

“…Our expression study that was based on published RNA-Seq data (Pucker et al, 2020a), revealed highest MusaF3H1 transcript abundance in early developmental stages of pulp and intermediate stages of peel development, while highest MusaF3H2 expression was found in adult leaves (Table 1). This is, at first glance, in contrast to the quantitative real-time PCR (qRT-PCR)-derived expression data presented by Pandey et al (2016), reporting high transcript levels of MusaF3H1 and MusaF3H2 in young leaves and bract.…”

Transcriptome sequence reveals candidate genes involving in the post-harvest hardening of trifoliate yamDioscorea dumetorum

“…The final pathway analyses were mostly based on the tool Mercator4 and Mapman4 [35]. In addition, differential expressed MYB genes were functional annotated based on several datasets Arabidopsis thaliana MYBs [36], Beta vulgaris MYBs [37], Musa acuminata MYBs [38], Croton tiglium MYBs [39], Dioscorea rotundata MYBs and Dioscorea dumetorum MYBs via KIPEs (https://github.com/bpucker/KIPEs). GO term assignment and enrichment were performed using Blast2GO [40] via OmicsBox with cutoff 55, Go weight 5, e-value 1.e-6, HSP-hit coverage cutoff 80 and hit filter 500.…”

“…The final pathway analyses were mostly based on the tool Mercator4 and Mapman4 [35]. In addition, differential expressed MYB genes were functional annotated based on several datasets Arabidopsis thaliana MYBs [36], Beta vulgaris MYBs [37], Musa acuminata MYBs [38], Croton tiglium MYBs [39], Dioscorea rotundata MYBs and Dioscorea dumetorum…”