Abstract
BackgroundMoso bamboo, the fastest growing plant on earth, is an important source for income in large areas of Asia, mainly cultivated in China. Lateral organ boundaries domain (LBD) proteins, a family of transcription factors unique to plants, are involved in multiple transcriptional regulatory pathways and play important roles in lateral organ development, pathogen response, secondary growth, and hormone response. The LBD gene family has not previously been characterized in moso bamboo (Phyllostachys edulis).ResultsIn this study, we identified 55 members of the LBD gene family from moso bamboo and found that they were distributed non-uniformly across its 18 chromosomes. Phylogenetic analysis showed that the moso bamboo LBD genes could be divided into two classes. LBDs from the same class share relatively conserved gene structures and sequences encoding similar amino acids. A large number of hormone response–associated cis-regulatory elements were identified in the LBD upstream promoter sequences. Synteny analysis indicated that LBDs in the moso bamboo genome showed greater collinearity with those of O. sativa (rice) and Zea mays (maize) than with those of Arabidopsis and Capsicum annuum (pepper). Numerous segmental duplicates were found in the moso bamboo LBD gene family. Gene expression profiles in four tissues showed that the LBD genes had different spatial expression patterns. qRT–PCR assays with the Short Time-series Expression Miner (STEM) temporal expression analysis demonstrated that six genes (PeLBD20, PeLBD29, PeLBD46, PeLBD10, PeLBD38, and PeLBD06) were consistently up-regulated during the rapid growth and development of bamboo shoots. In addition, 248 candidate target genes that function in a variety of pathways were identified based on consensus LBD binding motifs.ConclusionsIn the current study, we identified 55 members of the moso bamboo transcription factor LBD and characterized for the first time. Based on the short-time sequence expression software and RNA-seq data, the PeLBD gene expression was analyzed. We also investigated the functional annotation of all PeLBDs, including PPI network, GO, and KEGG enrichment based on String database. These results provide a theoretical basis and candidate genes for studying the molecular breeding mechanism of rapid growth of moso bamboo.
Highlights
Moso bamboo, the fastest growing plant on earth, is an important source for income in large areas of Asia, mainly cultivated in China
Proteins encoded by the 55 Lateral organ boundaries domain (LBD) genes contained 95 (PeLBD13) to 493 (PeLBD20) amino acids, and their molecular weights (MWs) ranged from 10.25 (PeLBD13) to 52.67 kDa (PeLBD20)
We identified a total of 55 PeLBD genes, which can be classified into two classes and seven subclasses
Summary
The fastest growing plant on earth, is an important source for income in large areas of Asia, mainly cultivated in China. Moso bamboo (Phyllostachys edulis) is a non-timber forestry species from the subfamily Bambusoideae (Poaceae) that is native to Asia [1] It has a wide distribution, a high economic value, and a broad range of industrial uses, and it plays an important role in soil and water conservation and climate regulation because of its propensity for fast growth [2]. Class I proteins contain both the conserved CX2CX6CX3C zinc finger-like motif and the leucine zipper module. A variable C-terminal region occurs immediately after the leucine-like zipper module of the conserved LOB structural domain This region can regulate the expression of downstream genes and is associated with nuclear targeting [12]. The LOB structural domain and the variable C terminus together form the expression structure of LBD genes [13]
Sign-in/Register to view highlights & summary Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
