Genome-wide identification and expression profile of YABBY genes in Averrhoa carambola

Abstract

Background Members of the plant-specific YABBY gene family are thought to play an important role in the development of leaf, flower, and fruit. The YABBY genes have been characterized and regarded as vital contributors to fruit development in Arabidopsis thaliana and tomato, in contrast to that in the important tropical economic fruit star fruit (Averrhoa carambola), even though its genome is available. Methods In the present study, a total of eight YABBY family genes (named from AcYABBY1 to AcYABBY8) were identified from the genome of star fruit, and their phylogenetic relationships, functional domains and motif compositions, physicochemical properties, chromosome locations, gene structures, protomer elements, collinear analysis, selective pressure, and expression profiles were further analyzed. Results Eight AcYABBY genes (AcYABBYs) were clustered into five clades and were distributed on five chromosomes, and all of them had undergone negative selection. Tandem and fragment duplications rather than WGD contributed to YABBY gene number in the star fruit. Expression profiles of AcYABBYs from different organs and developmental stages of fleshy fruit indicated that AcYABBY4 may play a specific role in regulating fruit size. These results emphasize the need for further studies on the functions of AcYABBYs in fruit development.

Identification and expression analysis of YABBY family genes in Platycodon grandiflorus

“… 52 The homologous genes, AcYABBY5 and AcYABBY6 , related to FIL in carambola have no specific expression regions. 53 In tomatoes, the FAS gene is similar to the YABBY2 and is crucial to the size and shape of the fruit. 54 Similar to FAS , the expression of the YABBY2 -like gene in reproductive organs of carambola was noted to be higher than that in the vegetative organs.…”

“…Glands and glandular hair 55 are important organs for plant secondary metabolite production; they can synthesize, secrete, and store secondary metabolites. Transcription factors 53 can regulate the secondary metabolism of plants.…”

Identification, Molecular Characteristics, and Evolution of YABBY Gene Family in Melastoma dodecandrum

“…It is important to infer changes in gene functions and developmental modules to accurately understand the evolutionary history [ 3 , 4 , 28 , 29 ]. The results of phylogeny analysis showed that all YABBY genes in A. thaliana , P. granatum , J. curcas , and E. grandis could be divided into five clades (FIL, INO, CRC, YABBY2, and YABBY5).…”

“…YABBY is a family of TFs belonging to the zinc finger protein superfamily [ 2 ]. YABBY genes play crucial roles in the formation of lateral organs during plant growth and development [ 3 , 4 , 5 , 6 ]. The YABBY family contains two typical domains, the YABBY domain in the C-terminus and the C2C2 zinc finger domain in the N-terminus [ 2 , 7 ].…”

Genome-wide identification of YABBY genes in three Cymbidium species and expression patterns in C. ensifolium (Orchidaceae)

“…The genome-wide YABBY gene family has been identified in Averrhoa carambola (star fruit), Cucumis sativus (cucumber), Lycopersicon esculentum (tomato), Oryza sativa (rice), Triticum aestivum (wheat) and Vitis vinifera (grape) ( Toriba et al., 2007 ; Han et al., 2015 ; Zhang et al., 2019 ; Hao et al., 2022 ; Li et al., 2022 ; Yin et al., 2022 ). In monocot plants, YABBY genes show functional divergence and are crucial for vegetative and reproductive development.…”