Genome-wide identification and expression analysis of fibrillin (FBN) gene family in tomato (Solanum lycopersicum L.)

Abstract

Background Fibrillin (FBN) proteins are widely distributed in the photosynthetic organs. The members of FBN gene family play important roles in plant growth and development, and response to hormone and stresses. Tomato is a vegetable crop with significantly economic value and model plant commonly used in research. However, the FBN family has not been systematical studied in tomato. Methods In this study, 14 FBN genes were identified in tomato genome by Pfam and Hmmer 3.0 software. ExPASy, MEGA 6.0, MEME, GSDS, TBtools, PlantCARE and so on were used for physical and chemical properties analysis, phylogenetic analysis, gene structure and conserved motifs analysis, collinearity analysis and cis-acting element analysis of FBN family genes in tomato. Expression characteristics of SlFBNs in different tissues, fruit shape near isogenic lines (NILs), Pst DC3000 and ABA treatments were analyzed based on transcriptome data and quantitative Real-time qPCR (qRT-PCR) analysis. Results The SlFBN family was divided into 11 subgroups. There were 8 FBN homologous gene pairs between tomato and Arabidopsis. All the members of SlFBN family contained PAP conserved domain, but their gene structure and conserved motifs showed apparent differences. The cis-acting elements of light and hormone (especially ethylene, methyl jasmonate (MeJA) and abscisic acid (ABA)) were widely distributed in the SlFBN promoter regions. The expression analysis found that most of SlFBNs were predominantly expressed in leaves of Heinz and S. pimpinellifolium LA1589, and showed higher expressions in mature or senescent leaves than in young leaves. Expression analysis of different tissues and fruit shape NILs indicated SlFBN1, SlFBN2b and SlFBN7a might play important roles during tomato fruit differentiation. All of the SlFBNs responded to Pst DC3000 and ABA treatments. The results of this study contribute to exploring the functions and molecular mechanisms of SlFBNs in leaf development, fruit differentiation, stress and hormone responses.

Arabidopsis FIBRILLIN6 regulates carotenoid biosynthesis by directly promoting phytoene synthase activity

“…Similar to the up-regulation of PSY and FBN6 genes during Arabidopsis deetiolation (Fig. 4A), the burst in carotenoid synthesis that takes place during tomato fruit ripening is also associated with increased expression of genes encoding the corresponding PSY and FBN6 homologues (Barja et al, 2021; Sun et al, 2022). This observation suggests that FBN6-dependent promotion of PSY activity and carotenoid biosynthesis might not be restricted to chloroplasts but also occur in chromoplasts.…”

Functional and evolutionary comparative analysis of the DIR gene family in Nicotiana tabacum L. and Solanum tuberosum L.

“…Dirigent genes ( DIRs ) encode proteins that act as crucial regulators of plant lignin biosynthesis and play essential roles in plant growth, development, as well as biotic and abiotic stress response [ 1 ]. The DIR protein was initially identified by Davin et al (1997) in Forsythia suspensa , the DIR protein plays a crucial role in directing stereoselective bimolecular phenoxy radical coupling.…”

Genome-Wide Characterization and Sequence Polymorphism Analyses of Glycine max Fibrillin (FBN) Revealed Its Role in Response to Drought Condition

“…Gene function determines the extent to which a gene is expressed in various tissues and at various times during development. Several research works have reported the effects of abiotic stress on FBNs , and it is evident that they are regulated by a wide range of biological and environmental factors [ 10 , 11 , 12 , 25 ]. The expression of cis -regulatory elements in downstream genes is regulated by transcription factors, which play a role in a wide range of biological activities [ 25 ].…”

“…The FBN protein family is composed of 12 sub-families. These sub-families have been identified in a wide range of organisms, i.e., from algae to higher plants, including wheat, Arabidopsis, tomato, and rice [ 10 , 11 ]. In wheat, besides being expressed in different tissues and developmental stages, TaFBNs are also expressed in response to biotic (stripe rust) and abiotic (drought, cold and heat) stresses [ 10 ].…”