Characterization of BBX family genes and their expression profiles under various stresses in the sweet potato wild ancestor Ipomoea trifida

Hou, Wenqian; Ren, Lei; Zhang, Yang; Sun, Haoyun; Shi, Tianye; Gu, Yulan; Wang, Aiming; Ma, Daifu; Li, Zongyun; Zhang, Lei

doi:10.1016/j.scienta.2021.110374

Cited by 8 publications

(8 citation statements)

References 59 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The validation of the models obtained in this study was also carried out using Ramachandran plot (Supplementary File 1). located in the nucleus (Chu et al, 2016;Cao et al, 2017;Wei et al, 2020;Hou et al, 2021). However, we found that BBX is not only located in the nucleus but also in the cytoplasm in M. albus.…”

Section: Discussionmentioning

confidence: 55%

“…In M. albus , one tandem duplication and six segmental duplications were discovered in the MaBBX genes ( Figure 2 ), implying that the BBX genes have expanded to a vast extent. Previous studies of BBX in pear ( Pyrus communis ), sweet potato ( Ipomoea batatas ), grapevine ( Vitis vinifera ), and tomato ( Solanum lycopersicum ) all reported that they were predominantly located in the nucleus ( Chu et al, 2016 ; Cao et al, 2017 ; Wei et al, 2020 ; Hou et al, 2021 ). However, we found that BBX is not only located in the nucleus but also in the cytoplasm in M. albus .…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Characterization of B-box family genes and their expression profiles under abiotic stresses in the Melilotus albus

et al. 2022

View full text Add to dashboard Cite

B-box (BBX) proteins are one of the zinc-finger transcription factor that plays a critical role in plant development, growth, and multiple stress responses. Although BBX genes have been reported in many model organisms, no comprehensive study has yet been conducted on the BBX genes in Melilotus albus, and the biological functions of this family remain unknown. In this study, a total of 20 BBX (MaBBX) genes were identified in M. albus and were phylogenetically divided into five clades. BBX members within the same clade showed similar conserved domain, suggesting similarity of potential biological function. Analysis of MaBBX conserved motifs showed that every subfamily contained two common motifs. Distribution mapping shows that BBX proteins are nonrandomly localized in eight chromosomes. The synteny showed that most homologous gene pairs of the MaBBX gene family were amplified by segmental replication, which meant segmental replication was the main way for the MaBBX gene family to evolve. Additionally, the cis-element analysis predicted light-responsive, various hormone and stress-related elements in the promoter regions of MaBBXs. Furthermore, the expression levels of all 20 MaBBX genes were detected by qRT-PCR under salt, cold, and dark stresses in M. albus. Moreover, it was observed that 16 genes had higher expression levels after 3 h of salt treatment, 10 genes were significantly upregulated after 3 h of cold treatment, and all genes were up regulated after 3 h of dark treatment, and then appeared to decline. In addition, it was also noticed that MaBBX13 may be an important candidate for improving tolerance to abiotic stress. The prediction of protein tertiary structure showed that the tertiary structures of members of the same subfamily of MaBBX proteins were highly similar. The hypothesis exhibited that most of the MaBBX proteins were predicted to be localized to the nucleus and cytoplasm and was validated by transient expression assays of MaBBX15 in tobacco leaf epidermal cells. This study provides useful information for further investigating and researching the regulatory mechanisms of BBX family genes in response to abiotic stresses in M. albus.

show abstract

Section: Discussionmentioning

confidence: 55%

Section: Discussionmentioning

confidence: 99%

Characterization of B-box family genes and their expression profiles under abiotic stresses in the Melilotus albus

et al. 2022

View full text Add to dashboard Cite

show abstract

“…For instance, the expression level of two group II BBX genes, OsCOL9 and MaCOL1, was significantly increased after the infection of Magnaporthe oryza and Colletotrichum musae, respectively [60]. In Ipomoea trifida, the expression of 14 and 10 ItfBBX genes was significantly upregulated under β-aminobutyric acid (BABA) and benzothiadiazole S-methyl ester (BTHT) treatments, respectively [61]. In the present study, a total of eight, 15, and 15 CsBBX genes displayed significant variations in expression level after PM, DM, and RKN inoculation, respectively (Figure 9).…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Survey and Expression Analysis of B-Box Family Genes in Cucumber Reveal Their Potential Roles in Response to Diverse Abiotic and Biotic Stresses

Zhu

Xiao

et al. 2022

Agriculture

View full text Add to dashboard Cite

As a class of zinc finger transcription factors, B-box (BBX) proteins play diverse roles in numerous biological processes, and they have been identified in a series of plant species in recent years. However, the roles of BBX genes in regulating cucumber growth regulation and stress response have not yet been established. Here, a total of 22 BBX family genes were identified via an analysis of the latest cucumber genome data, which were classified into five groups (I–V) on the basis of their phylogenetic features and number of B-box domains and CCT domains. The CsBBX genes were unevenly distributed across the seven cucumber chromosomes, and segmental duplication was found to play a significant role in the expansion of the cucumber BBX gene family. Gene structure and motif composition analysis suggested that the evolutionarily close CsBBXs have similar conserved motif composition and gene structure. Most CsBBX genes possessed 1–3 introns, and intron gain rather than intron loss could contribute to the different structures of CsBBX genes across different groups during their evolution. Promoter analysis revealed the presence of 13 kinds of hormone-related and nine kinds of stress-related cis-regulatory elements in the promoter regions of these CsBBX genes. Expression analysis via RNA-seq and qRT-PCR suggested that the CsBBX genes exhibit differential expression in different tissues and in response to various abiotic and biotic stresses. This work constitutes a starting point for further revealing the function of the CsBBX genes and sheds light on the potential molecular mechanism of stress resistance in cucumber.

show abstract

“…Compared with sweetpotato, the diploid I. trifida has much smaller genome size and chromosome number, and the genome structure is also simpler. Therefore, the diploid I. trifida has been used as a model plant species for gene exploring and identification in sweetpotato SR development [ 22 , 23 , 24 , 25 , 26 ]. However, diploid I. trifida reported before had no SR, only one report about SR-like I. trifida [ 46 ], which seriously limited the study on the development of SR in I. trifida .…”

Section: Discussionmentioning

confidence: 99%

“…I. trifida is the putative progenitor of sweetpotato, and is a species complex with diploids to hexaploids [ 19 , 20 , 21 ]. The diploid I. trifida has a relatively simple genome and has gradually become a model for sweetpotato research, especially with respect to SR formation [ 22 , 23 , 24 , 25 , 26 ]. Therefore, research on expansin genes and their roles in SR development of I. trifida could be helpful for an improved understanding of the mechanisms underlying SR development in both I. trifida and sweetpotato.…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Expression Analysis of Expansin Gene Family in the Storage Root Development of Diploid Wild Sweetpotato Ipomoea trifida

Chen

Lang

et al. 2022

Genes

View full text Add to dashboard Cite

Expansins play important roles in root growth and development, but investigation of the expansin gene family has not yet been reported in Ipomoea trifida, and little is known regarding storage root (SR) development. In this work, we identified a total of 37 expansins (ItrEXPs) in our previously reported SR-forming I. trifida cv. Y22 genome, which included 23 ItrEXPAs, 4 ItrEXPBs, 2 ItrEXLAs and 8 ItrEXLBs. The phylogenetic relationship, genome localization, subcellular localization, gene and protein structure, promoter cis-regulating elements, and protein interaction network were systematically analyzed to reveal the possible roles of ItrEXPs in the SR development of I. trifida. The gene expression profiling in Y22 SR development revealed that ItrEXPAs and ItrEXLBs were down-regulated, and ItrEXPBs were up-regulated while ItrEXLAs were not obviously changed during the critical period of SR expansion, and might be beneficial to SR development. Combining the tissue-specific expression in young SR transverse sections of Y22 and sweetpotato tissue, we deduced that ItrEXLB05, ItrEXLB07 and ItrEXLB08 might be the key genes for initial SR formation and enlargement, and ItrEXLA02 might be the key gene for root growth and development. This work provides new insights into the functions of the expansin gene family members in I. trifida, especially for EXLA and EXLB subfamilies genes in SR development.

show abstract

Characterization of BBX family genes and their expression profiles under various stresses in the sweet potato wild ancestor Ipomoea trifida

Cited by 8 publications

References 59 publications

Characterization of B-box family genes and their expression profiles under abiotic stresses in the Melilotus albus

Characterization of B-box family genes and their expression profiles under abiotic stresses in the Melilotus albus

Genome-Wide Survey and Expression Analysis of B-Box Family Genes in Cucumber Reveal Their Potential Roles in Response to Diverse Abiotic and Biotic Stresses

Genome-Wide Identification and Expression Analysis of Expansin Gene Family in the Storage Root Development of Diploid Wild Sweetpotato Ipomoea trifida

Contact Info

Product

Resources

About