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Applied and Environmental Microbiology, May 2002, p. 2278-2284, Vol. 68, No. 5
0099-2240/02/$04.00+0 DOI: 10.1128/AEM.68.5.2278-2284.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.
Transcript Levels of the Eukaryotic Translation Initiation Factor 5A Gene Peak at Early G1 Phase of the Cell Cycle in the Dinoflagellate Crypthecodinium cohnii
K. L. Chan, D. New, S. Ghandhi, F. Wong, C. M. C. Lam, and J. T. Y. Wong*
Biology Department, Hong Kong University of Science and Technology, Clearwater Bay, Kowloon, Hong Kong Special Administrative Region, People's Republic of China
Received 25 October 2001/
Accepted 26 December 2001

ABSTRACT
A cDNA encoding a eukaryotic translation initiation factor 5A
(eIF-5A) homolog in heterotrophic dinoflagellate
Crypthecodinium cohnii (CceIF-5A) was isolated through random sequencing of
a cDNA library. The predicted amino acid sequence possesses
the 12 strictly conserved amino acids around lysine 52 (equivalent
to lysine 50 or 51 in other eukaryotes). A single 1.2-kb band
was detected in Northern blot analysis. In synchronized
C. cohnii cells, the transcript level peaked at early G
1 and decreased
dramatically on the entry to S phase. Although this has not
been previously reported, studies of budding yeast (
Saccharomyces cerevisiae) and certain mammalian cell types suggest a role
for eIF-5A in the G
1/S transition of the eukaryotic cell cycle.
Phylogenetic trees constructed with 26 other published eIF-5A
sequences suggest that CceIF-5A, while falling within the eukaryotic
branches, forms a lineage separate from those of the plants,
animals, and archaebacteria. The posttranslational modification
of eIF-5A by a transfer of a 4-aminobutyl moiety from spermidine
to conserved lysine 50 or 51, forming amino acid hypusine, is
the only demonstrated specific function of polyamines in cell
proliferation. It has been suggested that polyamines stimulate
population growth of bloom-forming dinoflagellates in the sea.
We demonstrate here putrescine-stimulated cell proliferation.
Furthermore, ornithine decarboxylase inhibitor
D-difluoromethylornithine
and the specific hypusination inhibitor
N-guanyl-1,7-diaminoheptane
exhibited inhibitory effects in two species of dinoflagellates.
The possible links of polyamines and saxitoxin synthesis to
the arginine cycle are also discussed.

INTRODUCTION
Dinoflagellates contribute significantly to primary production
in the aquatic environment and are also a major causative agent
of harmful algal blooms. Various environmental factors can contribute
to the formation and decay of red tides, including water temperature,
nutrient availability, turbulence, and water stratification.
One of the ecophysiological differences between dinoflagellates
and other phytoplankton species (e.g., diatoms) is their greater
nutritional diversity, involving mixotrophic ability (
43).
Eukaryotic translation initiation factor 5A (eIF-5A), formerly eIF-4D, is the only known protein to contain hypusine (8), which is synthesized posttranslationally by a two-step process in mammalian cells. A 4-aminobutyl moiety from spermidine is first transferred onto a specific lysine residue, followed by the hydroxylation of the aminobutyl group by the enzyme deoxyhypusine synthase (7, 32). Putrescine can be synthesized from ornithine by enzyme ornithine decarboxylase (ODC) and is itself a precursor of spermine and spermidine. Depleting polyamines in L1210 leukemia cells caused cytostasis with accumulation of unmodified eIF-5A (4), and it was suggested that eIF-5A content was a cellular mediator of polyamines in cell growth regulation (45). eIF-5A was first thought to be a translation initiation factor, as it can stimulate the formation of the first peptide bond in vitro (8) and was proposed to be responsible for the translation of a subset of proteins that are required for G1/S transition in eukaryotes (15). Recent studies reveal that eIF-5A is also involved in mRNA turnover (53).
The requirement of polyamines spermine, spermidine, and putrescine in eukaryotic cell proliferation is well documented (23). Polyamine depletion inhibits DNA synthesis (23) and causes cell cycle arrest in cultured mammalian cells (5, 17, 24). However, the detailed mechanisms of polyamine-stimulated growth are not well understood (16). The only proven and specific function of polyamines that may directly lead to growth stimulation is the modification of unusual amino acid hypusine (33). Recent data suggested that polyamines, especially putrescine from decaying fish, may stimulate the growth of flagellates and contribute to the formation of red tides (12). Polyamines can also be produced from the arginine pathway in the cell. Interestingly, the cellular concentration of arginine was shown to vary with the level of saxitoxins in the toxic dinoflagellate Alexandrium minutum (11).
It has been suggested that polyamines may play a role in the rapid growth of bloom-forming dinoflagellates (13). However, no data are available as to the polyamine requirement of dinoflagellates, especially in relation to possible growth stimulation. As eIF-5A was suggested to be a cellular monitor of polyamines for cell growth regulation (45), isolation of its gene would be important in studying the polyamine requirements of dinoflagellates. Also, dinoflagellates are well known to contain both eukaryotic and prokaryotic cytological features (reviewed in reference 35), including permanently condensed chromosomes and no nucleosomes. No full-length clones of eIF-5A from any protists have been reported. As polyamines are essential to growth in both prokaryotes and eukaryotes, it would be of interest to identify the phylogenetic relationship of the dinoflagellate eIF-5A homolog. Very little is known about the transcriptional and translational control of gene expression in dinoflagellates except for the genes regulated by the circadian rhythm. Circadian expression of the luciferin-binding protein and glyceraldehyde-3-phosphate dehydrogenase is regulated at the translational level, while their mRNAs remain constant in the light and the dark phases (10, 26).
In a general search for cell cycle and growth-regulatory genes in dinoflagellate Crypthecodinium cohnii, we obtained a cDNA clone of eIF-5A (CceIF-5A). We report here a characterization of the gene by Northern and Southern blot analysis. Interestingly, we observed a cell cycle-phased transcription of CceIF-5A, peaking at early G1. This may imply a role for CceIF-5A in the entry to S phase. We also describe the growth stimulation of dinoflagellates by putrescine and reduction of growth in the presence of inhibitors to hypusination and polyamine synthesis. The present study provides evidence for a role of polyamines in cell growth of the dinoflagellates. The application of molecular-biology techniques to the study of biological oceanography requires the development of molecular markers. Cell cycle probes have been used in conjunction with flow cytometry to estimate the population growth rate in dinoflagellates (6). With further work involving other dinoflagellate species, CceIF-5A can potentially be used as a molecular marker for G1 cells in oceanographic studies.

MATERIALS AND METHODS
Culture, cell cycle synchronization, and flow-cytometric analysis.
C. cohnii Biecheler cells were cultured in MLH medium (
47) at
28°C in the dark. Photosynthetic
Heterocapsa triquetra (CCMP449)
dinoflagellates were cultured in f/2 medium at 17°C under
daily cycles of 14 h of light and 10 h of darkness.
C. cohnii cells were synchronized at early G
1 by the cyst release filtration
method as previously described (
51). The
C. cohnii culture was
concentrated by centrifugation (1,200
x g, 15 min, 20°C)
to around 1/200 of its original volume prior to being spread
on MLH agar plates. The plates were incubated at 28°C in
the dark for 48 h and filled with fresh MLH medium to allow
the emergence of motile G
1 cells. The medium was filtered with
a 10-µm mesh, and the G
1 cells were collected in the filtrate.
Synchronous cells were harvested every 2.5 h (from 0 to 14 h)
after synchronization for RNA extraction and flow-cytometric
analysis. Synchronized harvested
C. cohnii cells were fixed
in 70% ethanol, rehydrated in phosphate-buffered saline, pH
7.4, and incubated at 37°C for 1 h with 200 µg of
RNase H ml
-1. The cells were stained with 25 µg of propidium
iodide ml
-1 (4°C, 3 h) before being analyzed with a Becton
Dickinson Vantage flow cytometer. At least 10,000 events were
measured for each flow cytogram.
eIF-5A cDNA cloning, sequencing, and phylogenetic analysis.
An eIF-5a cDNA clone was obtained through the random sequencing of a C. cohnii cDNA library. The fragment was further cloned into pGEM-T Easy vector (Promega Corporation, Madison, Wis.) and sequenced (AutoRead sequencing; Pharmacia Corporation, Peapack, N.J.) according to manufacturer's instructions. The deduced amino acid sequence was aligned and compared with amino acid sequences of eIF-5A/hypusine-containing proteins of 26 species from PubMed by using the ClustalX program (Center for Scientific Computing). Phylogenetic analysis was carried out using PHYLIP, version 3.5 (Joe Felsenstein, Department of Genetics, University of Washington) with elongation factor P of Escherichia coli as an outgroup. Five hundred bootstrap replicates were generated, and consensus trees based on protein parsimony and the unweighted pair group method with arithmetic averages (UPGMA) were constructed. For the species with more than one isoform of the eIF-5A gene cloned, such as yeast and chickens, only one of them was used in the alignment and the phylogenetic studies.
Northern blot and Southern blot analysis.
Genomic DNA was extracted from a mid-log-phase C. cohnii culture with cetyltrimethylammonium bromide buffer as previously described (51). Genomic Southern blotting was conducted using full-length C. cohnii eIF-5A cDNA as a probe. Probes were labeled by using the ECL direct nucleic acid labeling and detection system (Amersham). Total RNA was extracted from synchronous C. cohnii cells by LiCl precipitation and used for Northern blot analysis. 32P-labeled probes were prepared by random prime labeling using C. cohnii eIF-5A cDNA as a template. All standard molecular-biology techniques were based on reference 36.
Effects of D-DFMO, GC7, and putrescine on growth of dinoflagellates.
While there was suggestion that polyamine may stimulate population growth in dinoflagellates (13), there were no reports on experimental demonstration. Putrescine can be synthesized in many organisms from amino acid ornithine by ODC. Putrescine is itself the precursor for spermidine, which is further transformed to spermine. It is also a breakdown product of many marine organisms. In the present study, we tested the effects of exogenous putrescine on the cell proliferation of C. cohnii. ODC inhibitor difluoromethylornithine (DFMO), which effectively depletes polyamines in yeast and mammalian cells, was also used to evaluate the possible effects of depleting polyamines in dinoflagellates. The two enantiomers of DFMO differ in their abilities to inhibit ODC, with the L form being more potent than the D form (25). The D form is used here as a control for the ODC inhibitory function. N-Guanyl-1,7-diaminoheptane (GC7; a kind gift from Hans Johansson, Children's Hospital, Oakland Research Institute), the most effective specific inhibitor of deoxyhypusine synthase (33), was also tested for its effects on dinoflagellates in the present study. Exponentially growing dinoflagellate cells were cultured in the presence of 0.1, 1, and 10 µM putrescine; 1 mM D-DFMO and L-DFMO; and 1 and 10 mM GC7 (dissolved in dimethyl sulfoxide [DMSO]) in full-growth medium. These concentrations were observed to be effective in other eukaryotes. The control for GC7 is normal growth medium with the same percentage of DMSO added as for the treatment. Exponentially growing cells were inoculated at a 10-fold dilution with fresh medium before the addition of drugs at the beginning of each experiment. Each treatment was performed in triplicate. C. cohnii cells were collected every 12 h, while H. triquetra cells were collected every day for density determination with a Coulter Multisizer II.

RESULTS
Sequence analysis and comparisons of CceIF-5A (GenBank accession no. AF329432).
The cDNA fragment we obtained contains 997 nucleotides, with
two possible start codons, which may encode proteins differing
by 32 amino acids in length (data not shown). Comparison with
other species suggests that the first ATG is the probable start
codon. Results from the Blast search suggest that the cDNA fragment
is homologous to the known eIF-5A genes from other organisms,
and we therefore name its product CceIF-5A. The 12 strictly
conserved amino acids around the hypusination site known in
other species are conserved in CceIF-5A. The deduced amino acid
sequence has 53, 45, and 50% identity to, and 15.7, 21, and
19.3% conserved amino acid changes from, those of eIF-5As from
thale cress, humans, and budding yeast, respectively. The cDNA
obtained contains no 5' untranslated region (UTR) upstream of
the first possible start codon, while at the 3' end, a putative
UTR of 511 nucleotides, which is approximately the same length
as the coding region, is present. A database search using only
the 3' UTR found no homology to any known genes. A poly(A) tail
was found in the 3' UTR, about 500 bases downstream of the predicted
stop codon, but the usual eukaryotic poly(A) signal AATAAA and
its major natural variant, ATTAAA, are absent. The absence of
the AATAAA poly(A) signal from other dinoflagellate genes has
been reported (
1,
21).
Phylogenetic analysis.
Only a few eIF-5A genes have been analyzed phylogenetically (9, 14). In the present study, we conducted phylogenetic analysis based on 26 eIF-5A amino acid sequences. Consensus trees from 500 bootstrap replicates generated from both the UPGMA (Fig. 1) and parsimony methods (data not shown) have an overall topology very similar to that inferred from rRNA genes. Among the group of eukaryotes, the trees show a clear distinction between eIF-5As from plants, fungi, and animals, except for Caenorhabditis elegans and slime mold. CceIF-5A is located in the eukaryotic group in both phylogenetic trees with almost 100% bootstrap support and forms a separate lineage at the root of plants, animals, and fungi. In some of the bootstrap replicates, CceIF-5A formed a lineage at the base of the plant group. However, this may be due to the lack of other protist sequences in the phylogenetic analysis.
Genomic Southern blot and Northern blot analysis.
To confirm the presence of CceIF-5A in
C. cohnii, genomic Southern
blotting was conducted with the CceIF-5A cDNA as a probe. A
single band of about 5 kb was detected in the
HindIII-digested
C. cohnii genomic DNA (Fig.
2, left, lane 1). Plasmid pGEM-eIF5A
was used as a positive control (Fig.
2, left, lane 2). Another
band of very high molecular size (>20 kb) was detected when
the genomic DNA was digested for 5 h or less (not shown); this
band may arise from the binding of the probe to incompletely
digested DNA. Hybridization of the same cDNA fragment to total
RNA extracted from a
C. cohnii culture yielded a single 1.2-kDa
band (Fig.
2, right), which was slightly larger than the cDNA
but which is comparable to those of other species. The extra
length detected probably corresponded to the 5' UTR absent in
the cloned fragment and the rest of the poly(A) tail.
eIF-5A transcript peaks at early G1 phase of the cell cycle.
It has been suggested that eIF-5A plays a role in cell cycle
control. However, there is little data as to its pattern of
expression in the cell cycle. We used the cyst release filtration
method to generate highly synchronized G
1 C. cohnii cells (time
zero; Fig.
3A) and monitored the progression of the cell cycle
for one cell cycle (10 h). As previously described, the G
2/M
cells appeared after 5 h and the cell cycle was completed by
10 h, at which time cytokinesis occurred within the mother cell.
Northern blotting with total-RNA samples from five different
time points in the cell cycle was carried out with CceIF-5A
cDNA as the probe. Interestingly, the level of CceIF-5A mRNA
peaks at early G
1 (0 and 2.5 h), and the signal detected dropped
dramatically on the entry to S phase (5 to 7 h) and stayed low
toward the end of the cell cycle (10 h; Fig.
3B), while the
level of rRNA stayed relatively constant throughout the experiment
(Fig.
3C). The level of CceIF-5A mRNA then increased again as
the cells entered G
1 of the next cell cycle. While the occurrence
of multiple fission (MF) would affect the synchrony of cells
after 14 h, the low percentage of MF in this strain (
21) did
not affect the synchrony of the first cell cycle.
Effects of D-DFMO, GC7, and putrescine on growth of dinoflagellates.
Despite the suggestion of the possible stimulation of dinoflagellate
blooms, there are no published accounts of the requirements
for polyamines by the group. To demonstrate a possible role
of polyamines in dinoflagellate proliferation, we tested the
effects of putrescine, the precursor of spermidine and the direct
product of ODC, on the cell proliferation of
C. cohnii. Addition
of 10 µM putrescine induced a significant (
t = 0.05) difference
in cell number when compared to the control in both species
of dinoflagellate (
C. cohnii and
H. triquetra) tested. At other
concentrations of putrescine, there were no significant differences
in cell number compared to the control culture (Fig.
4A). Cells
treated with the less-potent enantiomer of DFMO,
D-DFMO, were
not significantly different in their numbers when compared to
the control. A dramatic reduction of cell proliferation in both
H. triquetra and
C. cohnii cultures was observed after treatment
with ODC inhibitor
L-DFMO (Fig.
4B). The effects of
L-DFMO on
the two dinoflagellate species were also different. No cell
number increase was observed for the photosynthetic species
H. triquetra, while a much reduced increase in cell number was
observed for
C. cohnii. GC
7 at 1 mM had a significant effect
on cell proliferation of both
C. cohnii and
H. triquetra (Fig.
4C). As for
L-DFMO, the inhibitor was more potent for
H. triquetra than for
C. cohnii.

DISCUSSION
The CceIF-5A gene.
In many eukaryotes, different isoforms of eIF-5A genes and nonfunctional
pseudogenes are present (
18,
19,
38). The single band detected
in the genomic Southern blot suggests that the CceIF-5A gene
is a single-copy gene in
C. cohnii; it has been found in
Dictyostelium discoideum and described (
37), and its presence in insect
Spodoptera frugiperda has been suggested (
49). However, we cannot completely
rule out the possibility that the 5-kb fragment contains a cluster
of more than one eIF-5A gene. The size of the CceIF-5A transcript
is similar to those reported from other species (
18,
19). However,
the CceIF-5A mRNA is slightly larger than the cDNA, and the
extra length probably corresponds to the 5' UTR, which is not
found in the cloned fragment, and the rest of the poly(A) tail.
The single RNA species detected suggests that eIF-5A mRNAs of
various lengths derived from different genes (
37,
47) are unlikely
to exist in
C. cohnii. One major cytological characteristic
of dinoflagellates is the lack of histones. Recent data suggested
that the loss of the histone gene cluster occurred in the evolution
of the dinoflagellates, during which some prokaryotic genome
was acquired (
35). This was supported by the discovery of the
nucleus-encoded dinoflagellate RuBisCo (ribulose-1,5-biphosphate
carboxylase-oxygenase) in
Gonyaulax polyedra; this gene is more
homologous to those of the proteobacteria than to those of eukaryotes
(
27). The definite presence of a eukaryotic eIF-5a in
C. cohnii implies that the dinoflagellates have eukaryotic protein synthesis
machinery. More sequences are required to reveal the relative
position of CceIF-5A among the protists.
Cell cycle variation in the CceIF-5A transcript.
There are two important regulatory proteins in dinoflagellate C. cohnii, cyclin and PCNA, with cell cycle expression patterns resembling those of their counterparts in higher eukaryotes (2, 21, 22). The presence of these cyclic proteins suggests that the dinoflagellate cell cycle is also partly controlled by the cell cycle expression of regulatory genes. In the present study, the level of CceIF-5A mRNA peaked at early G1 and dramatically decreased toward the entry into S phase (Fig. 4B). It was proposed that eIF-5A acts on the G1/S transition in yeast and mammalian cells (13), and predominant expression at early G1 phase in C. cohnii provides circumstantial evidence for this hypothesis. In the somatic cell cycle in maize, eIf-5A was observed to be strongly induced in late-G1 cells, but not in S or G2/M cells, by using a hydroxyurea arrest-release method of synchronization (9). However, it would be difficult to investigate early-G1 cells as hydroxyurea is essentially an S phase inhibitor and maize eIF-5A was not observed during the early part of the release experiment (9). Information on cell cycle variation of eIF-5A transcripts in other organisms is limited. In addition to transcription, there are at least two major events that control eIF-5A activity: translation of the eIF-5A precursor and posttranslational modification of hypusine. Further research is required to investigate the role of eIF-5A in cell cycle control.
Polyamines, dinoflagellate cell proliferation, and toxin production.
Cells treated with 10 µm putrescine were observed to have a higher rate of proliferation than the control cells in both C. cohnii and H. triquetra. However, we cannot determine whether this is due to the requirements of polyamines or to the use of polyamines as a nitrogen source (30). Reduction of cell proliferation due to L-DFMO, but not to D-DMFO, in both dinoflagellates suggests the presence of ODC and a polyamine metabolic pathway in the dinoflagellates similar to that in higher eukaryotes. However, no complete growth arrest was observed in C. cohnii after 2 days of D-DFMO treatment. This reduced inhibitory activity of L-DFMO may possibly be attributable to unexpectedly low stability of L-DFMO in MLH medium, up-regulation of ODC activity, or replenishment of the depleted polyamines from other sources, as C. cohnii is a heterotrophic species. Similarly, a high level of GC7 was required to inhibit cell proliferation in dinoflagellates. However, the specificity of GC7 suggests that hypusination is essential for cell proliferation of dinoflagellates. Both dinoflagellates are thecated species, and the reduced effect observed in C. cohnii was unlikely to be due to the reduced permeability of the dinoflagellate amphiesma in this species. In the toxic-bloom-forming prymnesiophyte Chrysochromulina leadbeateri, putrescine was found to stimulate both cell proliferation and toxin production (12). Putrescine was demonstrated to be present in the dinoflagellate Alexandrium tamarensis (29), and it was also suggested that putrescine stimulates the growth of red tide-forming dinoflagellate Gymnodinium nagasakiense (13). The present study demonstrated the stimulatory effects of putrescine in the proliferation of dinoflagellates. In mammalian cells, excess putrescine accumulation inhibits the formation of hypusine in eIF-5A and induces apoptosis (3, 45, 46). The cloning of CcEIF5a and the demonstration of its G1 expression is significant also for its application as a potential probe in biological oceanography for identifying active dinoflagellate cells in G1 versus inactive ones. Development of antibodies to CcEIF5ap and further work on immunocytochemistry in conjunction with flow cytometry for other dinoflagellate species will be required.
The synthesis of both polyamines and saxitoxin is linked to the intracellular arginine cycle. Interestingly, homospermidine synthase, an enzyme responsible for the synthesis of some plant alkaloids, was shown to have evolved from deoxyhypusine synthase (29). While the pathways for the biosynthesis of the alkaloid-based saxitoxins have yet to be dissected, there is circumstantial evidence for their links to polyamine biosynthesis (11). The production of saxitoxins in Alexandrium was also shown to exhibit a cell cycle-phased pattern, occurring mainly in G1 and before the entry to S phase (42, 44). As eIF-5A was suggested to have regulatory roles in the entry to S phase and polyamine-mediated cell growth (45), the cloning of a dinoflagellate eIF-5A will provide the necessary reagents for further research into cellular growth and cell proliferation, as well as their relationship to toxin production in bloom-forming dinoflagellates.

ACKNOWLEDGMENTS
The present project was partly supported by grants CERG:HKUST6175/97
M and DAG99/00.SC13 to J.T.Y.W. from the Research Grant Council
of the Government of the Hong Kong Special Administrative Region.
GC7 was kindly provided by Hans Johansson, Children's Hospital, Oakland Research Institute. We thank Francis Chan for technical assistance in flow cytometry and Patrick K. K. Yeung for his help in the preparation of the figures. We also thank Donald Anderson for discussion in relation to possible links between polyamines and saxitoxin production.

FOOTNOTES
* Corresponding author. Mailing address: Biology Department, Hong Kong University of Science and Technology, Clearwater Bay, Kowloon, Hong Kong SAR, People's Republic of China. Phone: 852-23587343. Fax: 852-23581559. E-mail:
Botin{at}Ust.hk.


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Applied and Environmental Microbiology, May 2002, p. 2278-2284, Vol. 68, No. 5
0099-2240/02/$04.00+0 DOI: 10.1128/AEM.68.5.2278-2284.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.