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Int. J. Mol. Sci. 2013, 14(8), 16672-16684; doi:10.3390/ijms140816672
Published: 13 August 2013
Abstract: We identified and characterized the primary structure of the Korean oily bitterling Acheilognathus koreensis fast skeletal myosin light chain 2 (Akmlc2f), gene. Encoded by seven exons spanning 3955 bp, the deduced 168-amino acid AkMLC2f polypeptide contained an EF-hand calcium-binding motif and showed strong homology (80%–98%) with the MLC2 proteins of Ictalurus punctatus and other species, including mammals. Akmlc2f mRNA was highly enriched in skeletal muscles, and was detectable in other tissues. The upstream regions of Akmlc2f included a TATA box, one copy of a putative MEF-2 binding site and several putative C/EBPβ binding sites. The functional activity of the promoter region of Akmlc2f was examined using luciferase and red fluorescent protein reporters. The Akmlc2f promoter-driven reporter expressions were detected and increased by the C/EBPβ transcription factor in HEK293T cells. The activity of the promoter of Akmlc2f was also confirmed in the developing zebrafish embryo. Although the detailed mechanism underlying the expression of Akmlc2f remains unknown, these results suggest the muscle-specific expression of Akmlc2f transcript and the functional activation of Akmlc2f promoter by C/EBPβ.
Myosins are ATP-dependent motor proteins that generate force by interacting with actin. They are well known for their role in muscle contraction and in a range of other eukaryotic motility processes including cytokinesis, karyokinesis and cell migration [1,2]. Myosins are classified into two classes: the conventional two-headed myosins and the unconventional single-headed myosins . The two-headed myosins are hexameric proteins consisting of two myosin heavy chains (MHC; 200 kDa) and four myosin light chains (MLC; 20 kDa) (two essential and two regulatory light chains) . Each MHC consists of a structural α-helical rod portion and a globular head. MLCs provide stabilization by wrapping around the α-helical neck region of the MHC in an anti-parallel orientation .
MLCs comprise two sub-families: the essential- or alkali-light chain (MLC-1 or ELC) that can be released from heavy chains by alkali treatment, and the regulatory light chain (MLC-2 or RLC) that is removable by 5,5′-dithio-bis-2-nitrobensoic acid (DTNB) treatment [5,6]. MLC-2 is phosphorylated by Ca2+/calmodulin-dependent myosin light chain kinase (MLCK) activated through the influx of Ca2+ in smooth muscle . This phosphorylation enables the myosin crossbridge to bind to the actin filament, allowing contraction to begin. MLCK is important in the contraction mechanism in muscle; the most important regulator of MLCK activity is [Ca2+]i. In addition to MLCK, various kinase such as protein kinase C (PKC), Rho-kinase (ROCK), and myotonic dystrophy kinase-related Cdc42-binding kinase (MRCK) regulate the function of MLC2 by phosphorylation [8,9].
In fish, mlc2 gene promoters were identified in zebrafish, rainbow trout, gilthead sea bream and marine medaka [10–14]; the activities of the mlc2 promoters were demonstrated using the chloramphenicol acetyltransferase (CAT) reporter gene, LacZ reporter gene, green fluorescence protein (GFP) gene, and red fluorescence protein (RFP) gene. The promoters contained several putative myocyte-specific enhancer factor 2 (MEF-2) and E-box binding sites, which bind myogenic basic helix-loop-helix transcription factors that play key roles in muscle differentiation.
Korean oily bitterling Acheilognathus koreensis is a Korean endemic cyprinid found in freshwater . It is distributed in the rivers flowing into the South Sea or the West Sea towards the south of Geumgang. The laterally flattened spindle-shaped body of the oily bitterling is dark-brown on the dorsal side and light-brown on the ventral side. As part of a recent species preservation effort, genetic studies of Korean oily bitterling have been initiated; Hwang et al. reported the complete mitochondrial genome sequence of A. koreensis . Herein, we report the molecular cloning and characterization of the mlc2f gene of Korean oily bitterling (Akmlc2f) at the genomic DNA and mRNA levels. We analyzed pairwise and multiple alignments of the deduced AkMLC2f polypeptide sequence and other MLC2 homologs. No studies have reported the transcriptional regulation of fish mlc2f genes; therefore, we investigated the transcriptional regulation of the Akmlc2f gene using the luciferase or DsRed reporter assay system. Additionally, we investigated the tissue distribution of Akmlc2f transcript. This study is the first to report the molecular and functional analyses of the Korean oily bitterling mlc2f gene.
2. Results and Discussion
2.1. Characteristics of Akmlc2f cDNA, Genomic DNA and Deduced Amino Acid Sequences
The expressed sequence tag (EST) clone, AK-1-2a-O18, contained a 1247-bp insertion that included the open reading frame (ORF) and 3′-untranslated region (UTR), and which showed significant sequence homology to known mlc2f sequences. The 5′-UTR of Korean oily bitterling mlc2f was amplified from the cDNA of muscle tissue using 5′-rapid amplification of cDNA ends (RACE). The full-length Akmlc2f cDNA sequence was 1400-nt in length and contained a 507-nt ORF encoding a 169-aa protein, preceded by a 51-nt 5′UTR, and followed by an 842-nt 3′UTR (GenBank accession no. KF192922, Figure 1).
A database search using the BLASTP software (http://www.ncbi.nlm.nih.gov/Blast.cgi, NCBI, Bethesda, MD, USA) revealed that the deduced amino acid sequence of AkMLC2f contained an EF-hand calcium-binding motif (Figure 1). A key difference between MLC2 and MLC1 is a serine residue in the N-terminus of MLC2, which is absent in MLC1 . MLC2 is phosphorylated by Ca2+/calmodulin-dependent MLCK at the serine residue, allowing myosin ATPase activation by actin and muscle contraction . The potential phosphorylation site at Ser17 of AkMLC2f was predicted using the GPS2.1.2. The theoretical isoelectric point (pI) and molecular weight (MW) of the deduced AkMLC2f were calculated using the ExPASy website, with a predicted pI and MW of 4.65 and 18.8 kDa, respectively.
The Akmlc2f gene was isolated by screening a Korean oily bitterling fosmid library using primers based on the Akmlc2f cDNA sequence. Fosmid clone #17-H18 contained the Akmlc2f gene. The genomic organization of the Akmlc2f gene included seven exons interrupted by six introns (GenBank accession no. KF192924). Exons 1–7 were 54, 96, 76, 105, 79, 49, and 921 nt respectively; introns 1–6 were 740, 1296, 75, 81, 80, and 303 nt, respectively, with a conserved GT/AG splice site at each exon-intron junction (Figure 2). The seven-exon structure of the Akmlc2f gene is conserved in vertebrate orthologs . The genomic region in the Javanese ricefish mlc2f gene contains duplicated and repetitive sequences in introns 1 and 3, respectively ; however, the intron regions of the Akmlc2f gene did not contain such long and complex duplicated or repetitive sequences. Instead, intron 1 of the Akmlc2f gene contained short duplicated sequences (TATAAAAAATGATATTAAATT, 21 bp) beginning 334 bp from the 5′-end of intron 1.
2.2. Pairwise Multiple Alignment of Akmlc2f
Using the BioEdit software, pairwise alignment revealed amino acid identities of 80%–98% in MLC2f of A. koreensis and other species, including fish, birds and mammals (Figure 3). Multiple alignment revealed that MLC2 shared the highly conserved EF hand motif and putative phosphorylation site at the N-terminal serine residue . In the Ca2+ binding domain, fish shared the Ser residue while the remainder shared an Asp residue. These results suggest that AkMLC2f is evolutionarily highly conserved.
2.3. Promoter Activity of Akmlc2f
MEF2 involved in the regulation of muscle development can regulate gene expression by binding the promoter of teleost mlc genes . The GATA motif and serum response factor (SRF) site within the promoter region of the frog mlc gene act synergistically to regulate the mlc2 gene [19,20]. We identified the potential transcriptional binding sites using the TFSEARCH software (http://www.cbrc.jp/research/db/TFSEARCH.html, AIST, Tokyo, Japan). A putative TATA box (TATATAA) and one copy of a putative MEF-2 binding site were found at (−30)~(−24) bp from the putative transcription start site and in the proximal promoter region, respectively (data not shown). Among the various transcription-factor-binding sites, several putative CCAAT-enhancer-binding protein beta (C/EBPβ)-binding sites were identified as indicated in Figure 4. C/EBPβ is a ZIP transcription factor that can bind as a homodimer or heterodimer with C/EBPα and C/EBPγ to certain promoters and enhancers . C/EBPβ is important for the regulation of genes involved in immune and inflammatory responses, and increased C/EBPβ expression in blood leukocytes is positively associated with greater muscle strength in humans . Lyons and co-authors identified c/ebpα, β, γ, δ in zebrafish and suggested that the expression of c/ebps genes serve as analytical markers for developmental processes including myelopoiesis and hepatic development . We performed a promoter assay to assess the Akmlc2f gene with C/EBPβ in HEK293T cells. Compared to the luciferase activity in cells transfected with empty pGL3B vector and C/EBPβ, the activity of the constructs (pGL3B, P355, P851, P1757, and P2657) was 4.5-, 7.8-, 6.5-, 7.4-, and 6.9-fold higher, respectively. The results suggest that the first putative C/EBPβ binding element at (−87)~(−74) bp from the transcription initiation site plays a role in the transactivation of the Akmlc2f gene by C/EBPβ. Vertebrate mlc2 promoters for efficient muscle-specific expression can be relatively short; for example, the mlc2 promoter is 64 bp in chicken and 79 bp in zebrafish [10,11,24]. To visualize the activation of the Akmlc2f promoter, we performed a fluorescence microscopic analysis with the Akmlc-2 promoter (P2657)-driven DsRed2 gene construct in HEK293T cells. The Akmlc2f promoter (P2657)-driven DsRed2 expression by C/EBPβ was detected in the cytoplasm and nucleus (Figure 5). In addition, we performed a fluorescence microscopic analysis with the Akmlc2f promoter (P2657)-driven DsRed2 gene construct in the developing zebrafish embryo. The red fluorescence signal was mainly observed in muscular area of the developing zebrafish embryo at 6 days post hatching (Figure 6). This is in agreement with the expression pattern of mlc2f promoter-driven fluorescent reporters in marine medaka and Javanese Ricefish [13,14].
2.4. Expression of Akmlc2f mRNA
To examine the tissue distribution of Akmlc2f mRNA, quantitative real-time polymerase chain reaction (PCR) was performed on various A. koreensis tissues (Figure 7). Akmlc2f mRNA was highly enriched in skeletal muscles and was detectable in other tissues, albeit weakly. Muscle exhibited the highest expression level; however, Akmlc2f expression was relatively high in the eye and gill. The lowest level of Akmlc2f mRNA was found in intestine (smooth muscle), which was similar to the level in hepatopancreas. The expression patterns of the Akmlc2f transcript are similar to those of marine medaka mlc2f transcripts . In addition to Korean oily bitterling and marine medaka, skeletal muscle-enriched expression of mlc2f has been reported in gilthead sea bream and zebrafish [6,10,25].
3. Materials and Methods
3.1. Isolation and Sequencing of A. koreensis Akmlc2f cDNA
The EST clones were isolated from an A. koreensis cDNA library using a plasmid miniprep kit (Qiagen, Seoul, Korea), and sequenced using T3 reverse primers (Promega, Madison, WI, USA) on an ABI3730xl automatic sequencer (Applied Biosystems, Inc., Foster City, CA, USA). The EST clone AK-1-2a-O18, which carries a 1247-bp insertion, showed significant sequence homology to the known MLC-2 sequences. The 5′-UTR of Akmlc2f was amplified from the cDNA of muscle tissue using 5′-RACE using the SMART RACE cDNA amplification kit (Clontech, Mountain View, CA, USA). Based on a partial sequence, we designed internal primers (Akmlc2f-5R2, 5′-CTC AAG GAA TTC CTT CTT GAT GGT G-3′) and used them in combination with the universal primer supplied with the kit to amplify the 5′-end of the Akmlc2f transcript. Analyses of a potential ORF and comparisons of the Akmlc2f amino acid sequence (or nucleotide sequence) were performed using the ORF finder and BLAST programs (http://www.ncbi.nlm.nih.gov/BLAST/, NCBI, Bethesda, MD, USA). The theoretical pI and MW of the deduced AkMLC2f were computed on the ExPASy website (http://web.expasy.org/compute_pi/, SIB, Lausanne, Switzerland).
3.2. Isolation and Sequence Analysis of A. koreensis mlc2f Gene
An A. koreensis fosmid library was screened to isolate the Akmlc2f gene using the fosmid pooling system with PCR primers specific for the Akmlc2f cDNA. PCR-based fosmid library screening was carried out as described previously . The obtained Akmlc2f genomic clone #17-H18 was purified and used to determine the nucleotide sequence and genomic structure.
3.3. Sequence Alignments
Pair-wise and multiple sequence alignments were performed using BioEdit software (http://www.mbio.ncsu.edu/bioedit/bioedit.html, Ibis Biosciences, Carlsbad, CA, USA). The sequences were extracted from GenBank: Ictalurus punctafus (NP_001188138), Danio rerio (NP_571263), Sardinops melanostictus (BAA95140), Epinephelus coioides (ACM41847), Sparus aurata (AAD54229), Dicentrarchus labrax (CBN81401), Salmo salar (NP_001117188), Gadus chalcogrammus (BAB18578), Oryzias latipes (XP_004071230), Decapterus maruadsi (BAB69803), Cypselurus agoo (BAA95134), Thunnus thynnus (BAA95125), Siniperca scherzeri (ACT67908), Gallus gallus (NP_001185673), Mus musculus (NP_058034), Rattus norvegicus (NP_036737), Bos Taurus (NP_001069115), and Homo sapiens (AAA91848).
3.4. Construction of Reporter Plasmids
To examine the functional activity of the Akmlc2f promoter, the DNA fragments, ranging from positions −2657 to +54 bp in the Akmlc2f gene, were generated by PCR using Vent DNA polymerase (New England BioLabs, Beverly, MA, USA). The primers were designed so that the amplified DNA would contain MluI and XhoI restriction sites at its 5′ and 3′ ends, respectively. The primer sequences were: Akmlc2f-2657FM, 5′-GCG ACG CGT CAG TTT TTA GTT TAT TTT AC-3′; Akmlc2f-1757FM, 5′-GTC ACG CGT CAT GTA CTG TAT GTA TAC AT-3′; Akmlc2f-851FM, 5′-GTT ACG CGT AGA AAG GAG GAT AAT TAC GT-3′ Akmlc2f-355FM, 5′-GCT ACG CGT ATT GAT CCA CCA CTA ATC CA-3′ and Akmlc2f-+54RX, 5′-GTT CTC GAG CAT GCT GGG ACG GTG TGA AG 3′. The amplified cDNA fragments were inserted into the MluI and XhoI restriction sites upstream of a luciferase gene in the pGL3-Basic vector (Promega, Madison, WI, USA). To create the fluorescent protein reporter of the Akmlc2f promoter, the DNA fragments ranging from positions −2657 to +54 bp in the Akmlc2f gene, were generated by PCR using Vent DNA polymerase (New England BioLabs, Beverly, MA, USA) and then inserted into the SalI and AgeI restriction sites upstream of a DsRed2 gene in a vector (pDsRed2-1, Clontech, Mountain View, CA, USA). The primer sequences were as follows: Akmlc2f-2657FS, 5′-CGA GTC GAC CAG TTT TTA GTT TAT TTT AC-3′ and Akmlc2f-+54RA, 5′-GAT ACC GGT CAT GCT GGG ACG GTG TGA AG 3′. The constructs were confirmed by sequencing.
3.5. Cell Culture, Transient Transfection and Luciferase Assay
HEK293T cells were maintained in Dulbecco’s Modified Eagle’s medium (Gibco–BRL, Gaithersburg, MD, USA) with 10% heat-inactivated fetal bovine serum (FBS; Gibco–BRL, Gaithersburg, MD, USA) and 1% (v/v) penicillin-streptomycin (PS; Gibco–BRL, Gaithersburg, MD, USA) in a 37 °C incubator. For the luciferase assay, cells were seeded in 24-well culture plates and transfected with each indicated reporter vector (pcDNA3/C/EBPβ and β-galactosidase expression plasmid) using Polyfect transfection reagent (Qiagen, Seoul, Korea). After 24 h of transfection, the cells were lysed in cell culture lysis buffer (Promega, Madison, WI, USA). Luciferase activity was determined using an analytical luminometer (Wallac Victor2 plate reader, Perkin Elmer, Waltham, MA, USA), according to the manufacturer’s instructions (Promega, Madison, WI, USA). The luciferase activity was normalized for transfection efficiency using the corresponding β-galactosidase activity. All assays were performed in at least triplicate. All data are reported as means ± SD.
3.6. Confocal Microscopy
HEK293T cells were seeded on glass coverslips in a 12-well plate and transiently transfected with 400 ng of pcDNA3/C/EBPβ or empty vector with 400 ng of pDsRed2-1/Akmlc2f P2657 using Polyfect transfection reagent (Qiagen, Seoul, Korea). At 24 h after transfection, the cells were fixed with 4% paraformaldehyde in PBS (pH 7.4), mounted using VECTASHIELD® with DAPI (Vector Labs, Burlingame, CA, USA), and viewed using an LSM700 confocal laser scanning microscope (Carl Zeiss, Oberkochen, Germany). The promoter activity of pDsRed2-1/Akmlc2f P2657 with C/EBPβ or empty vector in the cells was demonstrated by direct fluorescence; stacks of optical sections were acquired by sequential acquisition and analyzed using the LSM software (ZEN 2009, Carl Zeiss, Oberkochen, Germany).
3.7. Microinjection into Zebrafish Embryo
Adult fish were maintained at 28.5 °C with a 14 h light/10 h dark cycle as described in Westerfield . The fluorescent protein reporter of the Akmlc2f promoter, pDsRed2-1/Akmlc2f P2657 was digested with the restriction endonuclease ApaLI (New England BioLabs, Beverly, MA, USA). The DNA solution at concentrations of 25 μg/mL was injected into the one-cell stage embryos using an air-pressure microinjector (PicoPump, WPI, Sarasota, FL, USA) as described previously . The estimated amount of DNA delivered to each embryo was 20 pg on average. Digital images of embryos were captured using a macro zoom fluorescence microscope (MVX10, Olympus, Tokyo, Japan).
3.8. Fish and Tissue Samples
A. koreensis specimens were collected from the Deokchun River, Sangcheong-gun, Gyungnam, Korea. The fish were maintained at the National Fisheries Research and Development Institute (NFRDI) in Busan, Korea. The adults were maintained in 40-L glass aquaria at a density of approximately 20 fish per aquarium. The water was renewed every other day and the temperature in the rearing tanks was maintained at 18 ± 1 °C. The room was maintained on a 12:12-h light-dark cycle. Adults were fed TetraBits (Tetra, Melle, Germany) and frozen bloodworms (Advanced Hatchery Technology, Salt Lake City, UT, USA) twice a day. For RNA extraction, tissues were removed from three fish, immediately frozen in liquid nitrogen, and stored at −80 °C before use.
3.9. Quantitative Real-Time PCR
Total RNA was prepared from tissues using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) according to the manufacturer’s instructions, treated with DNase I (New England BioLabs, Beverly, MA, USA) and quantitatively determined; 1-μg samples were used for reverse transcription (RT). First-strand cDNA was synthesized using an Advantage RT-for-PCR kit (BD Sciences, San Jose, CA, USA). Quantitative real-time PCR was performed using Fast SYBR Green Master Mix (Applied Biosystems, Inc., Foster City, CA, USA) and the following forward and reverse primers: Akmlc2f, Akmlc2f-RT-F (5′-GCT TCA GTC TTC ACT TCT TGA GCT T-3′) and Akmlc2f-RT-R (5′-CCT CCT GCC CTC CTC TTA GC-3′). Following an initial 10-min Taq activation step at 95 °C, real-time PCR was performed for 40 cycles using the following conditions: 95 °C for 10 s, 60 °C for 15 s. Fluorescence readings were performed using SDS 7500 (Applied Biosystems, Inc., Foster City, CA, USA), and analyzed by the melt curve to check the specificity of the PCR product.
3.10. Statistical Analysis
All data are expressed as means ± SD (n = 3). Statistical significance was determined using the unpaired two-tailed Student’s t-test. p values less than 0.05 were considered to represent statistically significant differences.
In this study, we report the molecular cloning and characterization of the mlc2f gene of Korean oily bitterling Acheilognathus koreensis at both the mRNA and genomic DNA levels. We report that the genomic organization of Akmlc2f includes a seven-exon structure, which is conserved in vertebrate orthologs, and short duplicated sequences in intron 1. In addition, we showed that high levels of Akmlc2f transcripts are expressed in skeletal muscle but not in smooth muscle. Moreover, we showed that the activities of the Akmlc2f promoter might be regulated by the C/EBPβ transcription factor in the luciferase or DsRed reporter assay system using deletion constructs (P355, P851, P1757 and P2657). The activity of the promoter region of Akmlc2f was also confirmed in the developing zebrafish embryo. Taken together, these results lay the groundwork for investigating factors that regulate Akmlc2f expression and for developing a useful promoter for gene expression in fish.
We thank Jung-Hyun Kim for maintenance of fish and Yoon Kyung Jun for microinjection into embryo. This work was supported by a grant from the National Fisheries Research and Development Institute (NFRDI), Korea (RP-2013-BT-043).
Conflicts of Interest
The authors declare no conflict of interest.
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