Molecular
Cloning, Characterization and Expression of SUPPRESSOR of OVEREXPRESSION of CONSTANS 1 (NnSOC1)
and NnSOC1-like in Nelumbo
nucifera
Chen
Dong1*, Fei Du1,
Ye Li2, Ningning Yang1,
Jiaqi Mao1 and Zhongli Hu2
1College of Biological Engineering, Henan University of
Technology, Zhengzhou, Henan 450001, China
2State Key
Laboratory of Hybrid Rice, Lotus Engineering Research Center of Hubei Province,
College of Life Science,
Wuhan University, Wuhan 430072, China
*For correspondence: chen.dong@haut.edu.cn
Received
09 September 2020; Accepted 24 December 2020; Published 25 March 2021
Abstract
For the aim
of unveiling the molecular mechanism of flowering, the MADS-box genes of SUPPRESSOR of OVEREXPRESSION of CONSTANS 1 (NnSOC1) and NnSOC1-like were isolated in Nelumbo nucifera. Seven introns splicing of NnSOC1 and NnSOC1-like strictly followed the GT-AG
rule,
consisting of all the characteristic motifs of SOC1 family. NnSOC1 and NnSOC1-like were widely distributed in reproductive and vegetative tissues of N. nucifera, exhibiting the highest
expression in leaves and the lowest level in embryo. Additionally, both genes
were expressed in the whole flowering stage, with the highest mRNA level
observed in the initiation stage of flowering and the lowest expression in
fruit set. Ectopic expression of NnSOC1
and NnSOC1-like advanced the
flowering time of transgenic Arabidopsis, and decreased the rosetta
leaves production. These results suggested that NnSOC1 and NnSOC1-like
were involved in initiation of flowering, which are likely to serve as
fundamental research for studying molecular mechanism of flowering in aquatic plants. © 2021
Friends Science Publishers
Key words: Flower opening; Gene expression; MADS-box; Nelumbo nucifera;
SOC1
Introduction
Flowering is the floral transformation from vegetative
phase to reproductive stage, which is considered as an imperative agronomic
trait of crops. The floral initiation is critical for harvesting more products,
controlling by combined function of endogenous gene network as well as
environmental factors. Unveiling the molecular mechanism of flowering would be
benefit for breeding in various surroundings. Various signals were integrated
by networks to determine flower transition. Up to date, at least four flowering
pathways including long day, autonomous, vernalization and gibberellin pathways
were reported to regulate floral induction of high plants (Liu et al. 2012). MADS-box genes, encoding a
highly conserved domain known as MADS-box, were considered as the key members
of gene networks controlling the flowering transition and development.
The SUPPRESSOR of
OVEREXPRESSION of CONSTANS 1 (SOC1) was classified as MADS-box type Ⅱ(MIKCC) in
high plants (Lee and Lee 2010), and is considered as a critical integrator for
flowering activation in Arabidopsis. SOC1 integrated various flowering signals
from temperature, photoperiod and hormones. As a key composition of
transcription factors, SOC1 was characterized by the domains of MADS-box (M),
an intervening region (I), a keratin box (K), as well as a C-terminal domain
(C) (Zhong et al. 2012; Li et al.
2020). SOC1 genes from higher plants
including peony, barley, apricot, soybean and Mango have been studied (Papaefthimiou et al.
2012; Zhong et al. 2012; Wang et al.
2015; Wei et al. 2016), which were highly conserved among angiosperms. SOC1 genes were widely distributed in
tissues of leaves, flower and root. Ectopic expression of SOC1 stimulated the early flowering of tobacco, tree peony and Pyrus
bretschneideri (Wang et al. 2015; Yu et al. 2020; Liu et al. 2020). Beside
flowering time, SOC1 also had other biological roles such as regulation of
petal development in Gerbera hybrida (Ruokolainen et al. 2011), and floral organ
senescence in Camellia sinensis (Tan
and Swain 2007).
Lotus (Nelumbo
nucifera L.) belongs to Nelumbonaceae family,
known as a perennial aquatic plant. N. nucifera was famous as imperative ornamental plant as well as
economic crop, having colorful flowers and numbers of petals. N.nucifera
is considered as the species between dicots and monocots (Yang et al. 2014). The flowers, leaves, seeds and buds appear at the reproductive stage of N. nucifera.
Although SOC1 family was relatively conserved, similar expression pattern was
detected in dicots and monocots, their function might be divergent in N. nucifera. Therefore, further studies
are necessary to unveil the functional divergence of SOC1 for the aim of understanding the special mechanism controlling
initiation of flowering in N. nucifera.
In this study, NnSOC1
and NnSOC1-like cDNAs in N. nucifera were isolated. Their exon–intron structures, conserved
motifs and phylogenetic analysis were performed. The three-dimensional structures were generated by homology modeling. Additionally, the
expression pattern of both genes was examined during flower opening. Finally,
the function of NnSOC1 and NnSOC1-like were illustrated by
transferring into the wild type Arabidopsis.
Materials and Methods
Plant material
Nelumbo nucifera “var. Taikonglian-36” was planted in Henan University of Technology, China.
The rhizomes of the same size were taken randomly, and planted in pools with 2
rhizomes in each pool in April, 2018. The size of pools was about 10 m×5 m. All
the samples were harvested at reproductive stage in September 2018, and frozen in liquid nitrogen immediately. Seeds of wild-type and transgenic A. thaliana were germinated and grown in the growth chamber under
long-day conditions at 22℃, with 16 h light/8 h
darkness cycles and 60% relative air
humidity.
Isolation and
characteristic of NnSOC1 and NnSOC1-like
To
scan SOC1 in the genome of N. nucifera, the key word “SOC1” was
used to search the Sacred lotus (N.
nucifera) genome database (Ming et al. 2013). The putative proteins were further searched in the
NCBI conserved domain to confirm the presence of conserved domains of SOC1. The primers were used to isolate the complete open
reading frames (ORF) of NnSOC1 and NnSOC1-like respectively (Table 1),
based on their nucleotide sequences (XM_010257287; XM_010274299). The first leaf was collected in vegetative stage and
frozen in liquid nitrogen immediately. Total RNAs from the
first leaf were isolated by RNAprep pure Plant kit
(TIANGEN, China). The first strand cDNA was generated by M-MLV transcriptase
(Promega, USA) by reverse transcription. The reaction mixture was as follow: 3
µL RNA, 2 µL olig(dT)17, 5 µL M-MLV
reaction buffer, 3 µL dNTP, 10 µL nuclease-free water and 2 µL M-MLV
transcriptase. The target products were harvested and sequenced as
described previously (Dong et al. 2015).
Characterization
and exon-intron structures
The Prot Param program was performed to evaluate the putative
molecular weight (MW) and isoelectric point (pI), based on amino acid
compositions of NnSOC1 and NnSOC1-like. Protcomp Version 9.0 software was used to predict the
Sub-cellular location. Protein structures of NnSOC1 and NnSOC1-like were
predicted by SMART online tools. Conserved motifs were indicated using online
MEME program. The exon–intron structures of both genes were analyzed by Gene
Structure Display Server (GSDS).
Similarity and the
homology model of NnSOC1 and NnSOC1-like
Multiple alignment of
the putative amino acid sequences of NnSOC1 and NnSOC1-like with other SOC1 from higher plants was performed
by CLUSTAL W. Phylogenetic analysis was carried out by the Neighor-Joining
method using the software of MEGA version 4 (Tamura et al. 2007). In order to further characterize their
structures, Myocyte-specific enhancer factor 2B (MEF2B) from Homo sapiens (PDB No. 1n6j) was selected
as the highest scoring template for homology model (Han et al. 2003). The homology models of NnSOC1 and NnSOC1-like were
constructed, using phyre2 bath processing (Kelley
et al. 2015).
The expression profile of NnSOC1 and NnSOC1-like
Eight-weeks old lotus was planted in pool, and
the total RNA was isolated from embryo, flower, root, stem and leaves in vegetative stage for investigating their expression
in various tissues.
Moreover, the leaves were collected during the four stages
of flowering with the reported method (Yang et al.
2014). Four stages were: Stage 1, floral buds were
generated underwater; Stage 2, floral buds emerged from water; Stage 3, floral
buds developed into bloom; Stage 4, the flowers were pollinated and seeds were
produced. Real-time PCR was performed for detection
of NnSOC1 and NnSOC1-like. Relative
expression of NnSOC1
and NnSOC1-like was calculated using β-actin as the reference gene (Livak and Schmittgen 2001).
Table 1: Primers used in the present study
Primer name |
Sequence (5’-3’) |
Experiments |
NnSOC1 CF |
ATGGTGAGGGGGAAGACCCAGATGA |
Isolation NnSOC1 |
NnSOC1 CR |
TCATACTGAGCCATCTCCAACCAAT |
Isolation NnSOC1 |
NnSOC1-like CF |
ATGGTGAGGGGGAAGACGCAGATGA |
Isolation NnSOC1-like |
NnSOC1-like CR |
CTAATAGTCCTGTAATGGGTAGCGT |
Isolation NnSOC1-like |
NnSOC1 F |
TTATTTAGGGAGCAGATTGCAA |
Real-time PCR |
NnSOC1 R |
TTATTCAGGGAGCAGATTGAGG |
Real-time PCR |
NnSOC1-like F |
GCTCTTTCAGGCCTCCCA |
Real-time PCR |
NnSOC1-like R |
GCTCTTTCAGGCCTCCCT |
Real-time PCR |
β-actin F |
TGATCGGAATGGAAGC |
Real-time PCR |
β-actin R |
CAGCAATACCAGGGAAC |
Real-time PCR |
NnSOC1 EF |
ggggacaagtttgtacaaaaaagcaggctATGGTGAGGGGGAAGACCCA |
Ectopic expression of NnSOC1 |
NnSOC1 ER |
ggggaccactttgtacaagaaagctgggtaTACTGAGCCATCTCCAACCAAT |
Ectopic expression of NnSOC1 |
NnSOC1-like EF |
ggggacaagtttgtacaaaaaagcaggctATGGTGAGGGGGAAGACGCA |
Ectopic expression of NnSOC1-like |
NnSOC1-like ER |
ggggaccactttgtacaagaaagctgggtaATAGTCCTGTAATGGGTAGC |
Ectopic expression of NnSOC1-like |
Ectopic expression of NnSOC1 and NnSOC1-like in Arabidopsis
For further exploring the roles of NnSOC1 and NnSOC1-like in
flower opening, both ORF amplified by PCR using gene-specific primers including
attB-sites (Table 1), were inserted into pEarleyGate 101 (Earley et al. 2006) using the Gateway LR
reaction (Invitrogen). The Agrobacterium
tumefaciens GV3101 strain electroporated by recombinant plasmids and was
transformed into wild type Arabidopsis. Transformed Arabidopsis seeds were
selected by spraying a 0.002% (V/V) Basta solution, and T3 homozygote plants
were used for further experiments. The flowering phenotype of transgenic
Arabidopsis was examined.
Statistical analysis
Three independent experiments were performed to ensure reproducibility. Data were expressed as the mean ± SD from three
independent biological replicates. Significance was calculated based on one-way
analysis of variance (ANOVA) by SPSS 22.0 software. Different letters represent significant differences at p
< 0.05.
Results
Identification and
conserved domains of NnSOC1 and NnSOC1-like
The ORF of NnSOC1
and NnSOC1-like was 675 and 654 bp
respectively, consisting of the start codon ATG and stop codon TAG. NnSOC1 mRNA encoded a putative protein
of 224 amino acids, with predicted MW of 25.68 kD and
pI of 9.37. The putative protein of NnSOC1-like was
composed of 217 amino acids with MW of 25.41 kD and pI of 9.28. Both
had the similar structure of the MADS-box family, consisting of highly
conserved MADS-box, variable I-box, relative conserved K-box with the size of 93
amino acid residues and variable C-terminal domain (Fig. 1). The SOC1 motif
(DVETELFIGRP) was highly conserved in the C-terminal of NnSOC1 and NnSOC1-like.
Exon-intron
architectures of NnSOC1 and NnSOC1-like genes
Exon-intron architectures of NnSOC1 and NnSOC1-like genes were almost the same, consisting of 8 exons and 7
introns. Their ORF contained nucleotide
sequences of partial exon 2, exon 3, exon 4, exon 5, exon 6, exon 7 and partial
exon 8. The sizes of exon 3 (79 bp), exon 4 (62 bp), exon 5 (100 bp), exon 6 (42
bp) and exon 7 (42 bp) were the same in NnSOC1
and NnSOC1-like, with little
difference in exon 1 (382 bp for NnSOC1;
329 bp for NnSOC1-like), exon 2 (190
bp for NnSOC1; 252 bp for NnSOC1-like) and exon 8 (423 bp for NnSOC1; 402 bp for NnSOC1-like). The introns splicing of NnSOC1 and NnSOC1-like genes strictly followed the
GT-AG rule (Fig. 2).
The
phylogenetic analysis of NnSOC1 and NnSOC1-like
A phylogenetic tree was constructed
based on the amino acid sequences of high plants, indicating all the SOC1 could
be grouped into dicot and monocot clades (Fig. 3). The SOC1 of Triticum aestivum
(TaSOC1) and Hordeum vulgare (HvSOC1)
from monocot was grouped into one branch,
whereas SOC1 and SOC1-like from higher plants were clustered together. Although NnSOC1 and NnSOC1-like were
grouped into dicot (Fig. 3), they had relatively farther relationship with
other members in dicot. The special motif (motif 10) known as MEHPNQN was
detected in both NnSOC1 and NnSOC1-like (Fig. 3).
The
homology model of NnSOC1 and NnSOC1-like
About 41% of residues in NnSOC1 and 42%
of residues in NnSOC1-like were modeled with 100% confidence. Both NnSOC1 and
NnSOC1-like were consisted of two spatially distinct domains, the
αββα structure of the MADS-box (AA 13-71), and the large
helical K-box (Fig. 4). About 59% α-helix was widely detected in the amino
acid sequence of NnSOC1, which were inlaid by 5% β-strand. Moreover,
α-helix in NnSOC1-like was about 57% with 5% β-strand.
Expression
profile of NnSOC1 and NnSOC1-like in various tissues
The expression pattern of two transcripts was studied in
reproductive and vegetative tissues by Real-time PCR. NnSOC1 and NnSOC1-like mRNAs were widely distributed in root, leave, stem, flower and embryo, exhibiting the
similar expression pattern (Fig. 5). The expression of NnSOC1 mRNA in leave (8.46 fold), stem
(7.41 fold), root (5.29 fold) and flower (4.11 fold) was significantly more
than embryo. Additionally, the mRNA level of NnSOC1-like in leave (3.23 fold), stem
(2.91 fold) and root (1.94 fold) was relatively higher than flower and embryo
(Fig. 5). The mRNA level of NnSOC1
was relatively higher than NnSOC1-like,
suggesting NnSOC1 was the major transcript
in the tissues examined.
Fig.
1: Amino acid sequence alignment and
characteristics of NnSOC1 and NnSOC1-like. The highly conserved MADS-box was shaded in grey, and relative
conserved K-box was lined. The highly
conserved SOC1 motif (DVETELFIGRP) was represented by yellow in the
C-terminal of proteins
The expression pattern of
NnSOC1 and NnSOC1-like in flower opening
Real-time PCR indicated that NnSOC1 and NnSOC1-like
mRNAs were decreased in the process of flower opening (Fig. 6). Both
transcripts showed the highest mRNA level in leaves when floral buds were
generated underwater (stage 1). NnSOC1
started to decrease during the stage of floral buds appearing from water, and
it was relatively stable at the stage of developing into bloom (stage 3). Then NnSOC1 mRNA was further decreased into
the lowest mRNA level when the flowers were pollinated and plant yielded fruit
(stage 4). Interestingly, NnSOC1-like exhibited
the similar expression pattern with
NnSOC1. NnSOC1-like mRNA at stage
1was almost the same to stage 2. Then NnSOC1-like
was significantly down-regulated at stage 3, which was further declined to the
lowest level at stage 4. Moreover, NnSOC1
mRNA exhibited higher expression level than NnSOC1-like.
Functional analysis of NnSOC1 and NnSOC1-like in transgenic arabidopsis
Fig.
2: Exons-intron architecture of NnSOC1 and NnSOC1-like genes. The UTR, CDS and introns were labeled. The highly conserved MADS-box,
variable I-box, relative conserved K-box and variable C-terminal domains were
represented
Fig.
3: The conserved motifs and phylogenetic relationship of SOC1
family. Phylogenetic analysis of SOC1 family was
performed by MEGA4 software. The special motif (motif 10) known as MEHPNQN was detected in
both NnSOC1 and NnSOC1-like
To examine the role of NnSOC1 and NnSOC1-like in
regulation of flowering, they were overexpressed in Arabidopsis by the CaMV
35 S promoter. The early flowering phenotype was detected in the transgenic
lines of 35 S::NnSOC1
and 35 S::NnSOC1-like (Fig. 7a). NnSOC1 and NnSOC1-like advanced the flowering time of transgenic lines, with
21 days earlier than wild type (Fig. 7b). However, ectopic expression of NnSOC1 and NnSOC1-like decreased the number of rosette leaves, and more fewer
rosette leaves were detected in 35 S::NnSOC1-like than 35
S::NnSOC1 (Fig. 7b).
Discussion
Considering as one of the most important aquatic crops
widely planted in tropic and subtropic regions, the molecular mechanism of the
floral transition in N. nucifera are
still unveiled. As one of the most important members of MADS-box genes, NnSOC1 and NnSOC1-like were identified and their amino acid sequences were
characterized in this study. MADS-box domain and K-box domain were identified in NnSOC1 and
NnSOC1-like (Fig. 1), which were considered as two characteristic domains of
MADS-box family (Ruokolainen et al. 2011; Ding et al.
2013; Zheng et al. 2020). Therefore, NnSOC1 and NnSOC1-like were
classified as the members of MADS-box family (Ding et al. 2013). Three
amino acid residues (Arg24, Glu34 and Gly112)
in NnSOC1 and NnSOC1-like were the same with SOC1 from Arabidopsis, and
substitution of these residues in Arabidopsis could affect early flowering time
(Lee et al. 2008).
Fig.
4: The three-dimensional
structures of MADS-box domains of
the NnSOC1 (a) and NnSOC1-like (b)
Fig.
5: The
expression of NnSOC1 and NnSOC1-like in various tissues.
Real-time PCR was performed to test the mRNA level of NnSOC1 and NnSOC1-like in
embryo, leaves, flower, stem and root
Data
were expressed as the mean ± SD from three independent biological replicates.
Significance was calculated based on one-way ANOVA analysis by SPSS 22.0 software. Different letters represent significant differences at p < 0.05
Fig.
6: Expression pattern of NnSOC1 and NnSOC1-like during the four stages of flowering. The total RNAs
were extracted from leave during the life cycle of flower (a). And NnSOC1 and NnSOC1-like mRNAs were examined by Real-time PCR (b)
The exons-intron
architecture of NnSOC1 and NnSOC1-like genes was almost the same, following the GT-AG rule (Fig. 2).
Moreover, SOC1 and SOC1-like in high plants were analyzed by
Neighbor-Joining method, which indicated that NnSOC1 and NnSOC1-like had more
homology with SOC1 and SOC1-like of dicot (Fig. 3). It suggested that SOC1 of
higher plants might have come from the same ancestor before evolving
independently in dicots and monocots (Wei et
al. 2016).
The
SOC1 genes were expressed in distinct tissues, showing
various roles in dicot plants (Borner et al. 2000). Our results indicated both
NnSOC1 and NnSOC1-like were widely expressed in reproductive and vegetative
tissues (Fig. 5), while more expression of both genes was found in leave than
flower. This was consistent with the study in Arabidopsis, O. sativa, H. vulgare and
T. aestivum
(Komiya et al. 2009; Papaefthimiou et al.
2012). The SOC1 was mainly considered as the integrator of multiple flower
signals. NnSOC1 and NnSOC1-like mRNAs were decreased in the
process of flower opening. The highest expression was detected in the leaves of
floral initiation, and the least mRNA level was found at fruit set (Fig. 6).
The down-regulation of SOC1 during
flower opening was also reported in Mango (Wei et al. 2016).
Fig. 7:
Ectopic expression of NnSOC1 and NnSOC1-like. The phenotype of NnSOC1 and NnSOC1-like transgenic lines (a). Days to flowering and the counts
of rosette leaves for 35S::NnSOC1 and 35S::NnSOC1-like
transgenic lines (b)
Data were calculated from three independent experiments, using
different letters represented significant difference (p<0.05)
Overexpression of NnSOC1 and NnSOC1-like significantly promoted early flowering (Fig. 7). This
suggested that the role of flowering activator for SOC1 was almost conserved in
the high plants (Ding et al. 2013;
Wang et al. 2015). Moreover, the
abnormal leaves were observed in 35S::NnSOC1 and 35S::NnSOC1-like
transgenic Arabidopsis, which were also detected in transgenic Arabidopsis by
overexpression of SOC1 genes in mango
(Wei et al. 2016), Phyllostachys violascens
(Liu et al. 2016) and Davidia involucrate (Li et al. 2020).
Although how MADS-box genes regulate floral initiation remains to be
elucidated, nonetheless the results provide valuable information for unveil the
molecular mechanism of NnSOC1 and NnSOC1-like for regulation the
initiation of flower opening.
Conclusion
Results suggest that NnSOC1 and NnSOC1-like
were involved in initiation of flowering in N.
nucifera. This provides a foundation for breed of this
species for horticultural purpose to regulate flowering time in aquatic
plants.
Acknowledgments
This work was supported by National Nature
Science Foundation of China (no. 31601366), Science and Technology
Planning Project of Henan Province, China (no. 192102110120), and Natural
Science Foundation of Henan Province (202300410114).
Author Contributions
Chen Dong designed the experiments and wrote the manucript. Fei Du and Ye Li performed Real-time PCR. Ningning Yang isolated SOC1 gene. Jiaqi Mao expressed SOC1
and SOC1-like in Arabidopsis. Zhongli Hu revised the manuscript. All authors
have read and approved the final manuscript.
Conflict of Interest
There is no conflict of interest among the authors and the institutions
where the research has been conducted
Data Availability Declaration
All data related to this article are in the custody of corresponding
author and will be available on request
Ethics Approval
Not applicable
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