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Journal of Virology, February 2004, p. 1093-1100, Vol. 78, No. 3
0022-538X/04/$08.00+0 DOI: 10.1128/JVI.78.3.1093-1100.2004
Copyright © 2004, American Society for Microbiology. All Rights Reserved.
Department of Biological Sciences, Graduate School of Science,1 Department of Microbiology, Graduate School of Medicine, The University of Tokyo, Bunkyo-ku, Tokyo 113-0033,3 Center of Excellence Integrative Human Science Program, Research Institute and Graduate School of Agriculture, Tamagawa University, Machida, Tokyo 194-8610, Japan2
Received 21 July 2003/ Accepted 16 October 2003
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Previously, members of our laboratories used the differential display method to identify genes expressed preferentially in the mushroom bodies (MBs), which are important for sensory integration, memory, and learning in the insect brain, with the aim of identifying candidate genes involved in the highly advanced behaviors of the honeybees (17, 30, 32, 33). We expected that this method would also be useful for identifying genes expressed in an aggressive behavior-selective manner in the honeybee brain.
The giant hornet Vespa mandarinia japonica is the most formidable natural enemy of honeybees in Japan (21, 25). For the present study, to identify a candidate gene(s) involved in the aggressive behavior of honeybee workers, we used the differential display method to search for genes expressed selectively in the brains of workers that exhibited attacking behavior against hornets. A novel RNA was identified that was a genome-sense RNA of a putative picorna-like virus.
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RNA extraction and differential display. The MBs were dissected from the heads of 100 attackers, escapers, nurse bees, and foragers. The heads, thoraxes, and abdomens of five attackers were collected. The samples were stored at -80°C before use. Each tissue was homogenized with a Polytron homogenizer (Central Scientific Commerce Inc., Tokyo, Japan), and total RNA was extracted with RNAgent (Promega, Madison, Wis.). RNA was treated with RNase-free DNase I and then reverse transcribed, with or without Superscript II (Invitrogen Corp., Carlsbad, Calif.), by use of an anchored oligo(dT) primer. Differential display was performed as described previously (14, 17, 20, 30, 32, 33) by use of a fluorescence differential display kit (Takara, Shiga, Japan) and arbitrary 10-mers with 178 primer combinations and LA Taq polymerase (Takara). Differential display was performed with three different RNA samples, each of which was extracted from 100 MBs.
Subcloning and sequencing.
Bands of interest were excised, and the DNA was reamplified by PCR with the same primer combinations used for the differential display method, except that BamHI sites were added at both the 5'- and 3'-flanking regions. The reamplified DNA was ligated into a pGEM-T or pGEM-T Easy vector (Promega) at the SmaI site and transfected into Escherichia coli JM109 or DH5
(Takara). The nucleotide sequences of both strands for multiple independent clones were determined by DNA sequencing reactions performed by the dideoxynucleotide cycle sequencing method, using a Dye Terminator cycle sequencing kit (Applied Biosystems, Tokyo, Japan) and an ABI Prism 3100 genetic analyzer (Applied Biosystems).
Semiquantitative RT-PCR. For reverse transcription (RT)-PCR, RNA from the MBs of the attackers and the escapers was treated with DNase and reverse transcribed as described above. PCR was performed with gene-specific primers (+8388 to +8415 and +8745 to +8765 for Kakugo cDNA and +2 to +21 and +376 to +395 for honeybee cytoplasmic actin cDNA [24]) and Ex Taq (Takara) under the following conditions: 94°C for 30 s, 55°C for 30 s, and 72°C for 40 s. Experiments were repeated for three RNA samples obtained from two different colonies on October and November 1999 and August 2000.
5'- and 3'-RACE. For rapid amplification of cDNA ends (RACE), RNA from the MBs of the attackers was treated with DNase and reverse transcribed as described above. Experiments were performed with the Marathon-Ready cDNA kit (Clontech, Palo Alto, Calif.) according to the manufacturer's protocol, using Ex Taq polymerase (Takara). The amplified DNA fragments were subcloned, and the nucleotide sequences of both strands were determined.
Southern blotting. DNA (10 µg each) extracted from the whole bodies of the nurse bees was digested with 100 U of EcoRI (Takara), subjected to 0.8% agarose gel electrophoresis, and transferred to a nylon membrane (GeneScreen Plus; NEN Life Science Products, Inc., Boston, Mass.). A 378-bp fragment of Kakugo cDNA (+8388 to +8765) and a 366-bp fragment of Mblk-1 cDNA (+12151 to +12516) (33) were used as probes. The probes were labeled with 32P by use of a StripEZ DNA kit (Ambion, Austin, Tex.). Hybridization was performed with ExpressHyb hybridization solution (Clontech) according to the manufacturer's protocol. After hybridization, membranes were washed and exposed to Kodak X-ray film (Rochester, N.Y.).
Phylogenetic analysis. The highly conserved fragments of RNA-dependent RNA polymerase (RdRp) amino acid sequences encompassing motifs 1 to 8 of RdRps of the picornaviruses (amino acid positions 2559 to 2829) were used for phylogenetic analysis by the neighbor-joining method (34). The statistical significance of the branch order was estimated by performing 1,000 replications of bootstrap resampling of the original aligned amino acid sequences.
Infection of the worker honeybees with head lysate containing Kakugo virus. Whole heads of 70 attackers or foragers were homogenized with 10 volumes of phosphate-buffered saline (PBS; 8.1 mM phosphate buffer, pH 7.4, containing 137 mM NaCl, 2.68 mM KCl, and 1.47 mM KH2PO4) in a glass homogenizer. The homogenates were centrifuged at 1,500 x g for 15 min at 4°C, and the supernatants were used as the inoculum for infection. The presence of Kakugo virus in the attacker head supernatants was confirmed by RT-PCR analysis.
For inoculation of workers with Kakugo virus, 1 µl of the supernatant or PBS was injected into the heads of foragers ventrally from the neck. The inoculated foragers were kept in separate cages at 25°C and collected at different times after injection. Each whole head was homogenized with 300 µl of PBS in a glass homogenizer, and the resulting homogenates were centrifuged at 1,500 x g for 15 min at 4°C. The total RNA was extracted from 250 µl of the supernatants with 750 µl of TRIzol LS, according to the manufacturer's protocol (Invitrogen), and was subjected to quantitative RT-PCR to detect Kakugo RNA.
Sucrose density gradient centrifugation. Whole thoraxes from seven foragers inoculated with Kakugo virus were homogenized with 10 volumes of PBS in a glass homogenizer, and the homogenate was centrifuged at 1,500 x g for 15 min at 4°C. The supernatant (100 µl) was homogenized with 10 µl of 20% N-lauroylsarcosine sodium salt, added to 20 µg of yeast tRNA and 40 U of RNase out (Invitrogen), and then loaded in a 15 to 30% sucrose density gradient column prepared in diethyl pirocarbonate-treated distilled water. Centrifugation was performed at 200,000 x g for 1 h at 4°C with a Beckman SW55Ti rotor (Beckman Coulter, Inc., Fullerton, Calif.). Next, 520-µl fractions were collected and 250 µl of each fraction was used to determine the Kakugo RNA content by quantitative RT-PCR. The total RNA (500 ng) extracted from the same lysate of forager thoraxes that were inoculated with Kakugo virus and the partially purified virion of the type 1 poliovirus (PV) Mahoney strain [PV1(M)OM] (31) were also loaded in the sucrose density gradient centrifugation column, separately, as controls.
Quantitative RT-PCR. PCR was performed with Light Cycler and LightCycler-DNA master hybridization probes (Roche, Basel, Switzerland) according to the manufacturer's protocol, using gene-specific primers (+8388 to +8415 and +8745 to +8765 for Kakugo cDNA and +2 to +21 and +376 to +395 for honeybee cytoplasmic actin cDNA) and fluorescent probes (+8654 to +8679 and +8681 to +8716 for Kakugo cDNA and +297 to +313 and +315 to +354 for actin cDNA) in a total volume of 20 µl. The PCR conditions used were as follows: 95°C for 1 s, 55°C for 10 s, and 72°C for 10 s. Kakugo and actin cDNA clones of known concentrations were used as standards.
Nucleotide sequence accession number. The nucleotide sequence reported in this paper has been submitted to the DDBJ/EMBL/GenBank data bank under the accession number AB070959.
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FIG. 1. Identification of Kakugo RNA in the brains of attacker honeybees. (A) A hornet (blue arrow) was hung by a thread and presented as a decoy to the guard bees. (B) Some guard bees scrambled and obstinately attacked the hornet. (C) The hornet was presented to the workers inside the hive. (D) Some of the workers escaped from it. (E) Semiquantitative RT-PCR using total RNA from the MBs of the escapers (lane 1) and attackers (lane 2). Gene-specific primer sets for Kakugo and actin were used. RT (-), control experiment with RT-negative template and Kakugo-specific primer set.
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FIG. 2. Kakugo RNA encodes a polyprotein of a putative picorna-like virus. (A) Graphic representation of the positions of the initiation codons and termination codons in the Kakugo cDNA. Termination codons (TAA, TAG, and TGA) and the initiation codon (ATG) are indicated by long blue and short pink vertical lines, respectively, in each of three reading frames. The numbers indicate base numbers from the 5' end. (B) Structure of Kakugo cDNA and comparison of putative amino acid sequence of the Kakugo protein with those of other picorna-like virus polyproteins. Open and shaded boxes show the ORFs carried by the Kakugo cDNA and the domains of the Kakugo polyprotein, respectively. Numbers indicate the base positions corresponding to each domain. Sequence identities with the Kakugo protein in the helicase (Hel), protease (Pro), and RdRp domains are indicated below the corresponding domains. Bracket 1, the insect picorna-like viruses SBV (8), Perina nuda picorna-like virus (PnPV) (37), and infectious flacherie virus (IFV) (13); bracket 2, the mammalian picornaviruses hepatitis A virus (HAV) (22), foot-and-mouth disease virus (FMDV) (7), and PV (23); bracket 3, the cricket paralysis-like viruses acute bee paralysis virus (ABPV) (10) and Drosophila C virus (DCV) (16). (C) Phylogenetic tree constructed with the highly conserved amino acid sequences encompassing motifs 1 to 8 of the RdRp domains by the neighbor-joining method. KV, putative Kakugo virus. Numbers at each node represent bootstrap values as the results of 1,000 replicons.
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To further examine whether Kakugo RNA is encoded by the honeybee genome, we performed Southern blotting analysis, using Kakugo cDNA as a probe (Fig. 3). Kakugo RNA was not detected in the honeybee genome, whereas a single band was detected for the MB-preferential transcription factor Mblk-1 (26, 27, 33), indicating that Kakugo RNA is not encoded by the honeybee genome. Furthermore, the Kakugo RNA sequence is not included in the genomic sequences annotated and registered to date by the honeybee genome project (Human Genome Sequencing Center at Baylor College of Medicine [http://hgsc.bcm.tmc.edu/projects/honeybee/]). These results strongly suggest that Kakugo RNA is a foreign RNA derived from an RNA virus and that the attackers' brains were infected by this putative RNA virus, Kakugo virus.
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FIG. 3. Southern blotting analysis of Kakugo DNA. Southern blotting analysis was performed with honeybee genomic DNA (10 µg) digested with EcoRI, with a partial Kakugo cDNA as a probe (lane 1). The Mblk-1 gene, which encodes a transcription factor (26, 27, 32), was also analyzed as a loading control (lane 2). Plasmid cDNAs (5 pg each) for Kakugo and Mblk-1 were included as hybridization controls (bottom). The band positions are indicated by arrows.
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Comparison of the domain structure of Kakugo polyprotein with those of other picornavirus polyproteins. For further sequence analysis, the amino acid residues of the Kakugo protein were compared with those of various picornavirus polyproteins. First, most of the amino acid residues conserved among the VP domains of picornavirus polyproteins are also conserved in residues 322 to 392 and 590 to 667 of the Kakugo protein (Fig. 4A and B), whereas the other regions were not conserved. Many picornaviruses have three or four major structural proteins; however, not all of them are necessarily conserved among viruses. Usually two of them are conserved among insect picorna-like viruses. The Kakugo protein also had two domains similar to those of other insect picorna-like viruses, consistent with previous findings (8, 10, 29, 37).
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FIG. 4. Comparison of the amino acid sequences of functional domains of the Kakugo polyprotein and other picorna-like virus polyproteins. (A) One of the VP regions of Kakugo virus with the corresponding region of SBV, CP1 of PnPV, VP3 of IFV, VP1 of DCV, VP2 of HAV, and the corresponding region of PV. Residues that are identical for at least four of the seven viruses are shown in red (A and B). (B) The other VP region of the Kakugo virus with the corresponding region of SBV, CP3 of PnPV, VP1 of IFV, VP2 of DCV, VP3 of HAV, and the corresponding region of PV. (C) The putative motifs A and B in the helicase domain of the Kakugo virus with those of SBV, PnPV, IFV, HAV, FMDV, PV, ABPV, and DCV. Amino acid residues that are essential for enzymatic activity are indicated by arrowheads (C and E). (D) The C terminus of the putative protease domain of Kakugo virus with those of SBV, PnPV, IFV, HAV, FMDV, PV, ABPV, and DCV. The protease motif and amino acid residues involved in substrate binding are indicated with white and blue arrowheads, respectively. (E) The putative motifs 4 through 7 in the RdRp domains of Kakugo virus with those of SBV, PnPV, IFV, HAV, FMDV, PV, ABPV, and DCV. Residues that are identical in at least five of the nine viruses are shown in red (C, D, and E). Arrowheads indicate the consensus amino acids within RdRp motifs. Numbers show amino acid positions from the N terminus.
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Kakugo RNA as the genomic RNA of an infectious virus. If the Kakugo RNA encodes a viral polyprotein, it could exist as mRNA as well as genomic RNA within a mature virion in honeybee tissues. For testing of this possibility, the whole worker abdomen lysate that contained Kakugo RNA was subjected to sucrose density gradient centrifugation, and the amount of Kakugo RNA in each fraction was determined by quantitative RT-PCR. When the fractions were analyzed, Kakugo RNAs, except for the material at the bottom, from the thorax lysate were detected in two major peaks, fractions 1 and 2 and fractions 6 to 8 (Fig. 5A), whereas Kakugo RNA from the total thorax RNA was detected as a single peak in fractions 1 and 2 (Fig. 5B). PV virion used as a control was detected mainly in fraction 7. These results suggest that Kakugo RNAs detected in these fractions correspond to free RNA and/or mRNA (fractions 1 and 2) and to genome-sense RNA constituting the virion (fractions 6 to 8). The material at the bottom might correspond to aggregates and/or cell debris that contains Kakugo RNA (fraction 10).
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FIG. 5. Sucrose density gradient centrifugation of the honeybee tissue lysate that contained Kakugo RNA. The lysate (A) and the total RNA (B) prepared from thoraxes of the foragers inoculated with Kakugo virus were each subjected to sucrose density gradient centrifugation, and the amount of the Kakugo RNA in each fraction was determined by quantitative RT-PCR. Arrow, the fraction in which the PV virion was mainly found. The solid and broken lines indicate the amount of Kakugo RNA and the putative sucrose concentration, respectively.
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FIG. 7. Kakugo RNA is detected almost exclusively in the brains of attackers. (A) Relative Kakugo RNA content in the MBs of nurse bees (N), attackers (A), and foragers (F). As many as 100 of each were examined by quantitative RT-PCR with Kakugo-specific primers and probes (black bar). actin mRNA was also examined to show that essentially the same amount of RNA was contained in each sample (dotted bars). Values are represented as percentages of Kakugo or actin mRNA relative to that in the attacker brains. (B) Relative RNA content of the MBs, heads (H), thoraxes (T), and abdomens (A) from five attackers, examined with Kakugo-specific (black bar) and actin-specific (dotted bars) primers and probes.
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FIG. 6. Kakugo RNA constitutes an infectious virus. Foragers inoculated either with head lysate from the attackers (circle), head lysate from the foragers (triangle), or PBS (square) were collected at different times after inoculation. Noninjected foragers (lozenge) were also collected as controls. Kakugo RNA and actin mRNA levels, which served as a control, were determined by quantitative RT-PCR. The mean value of relative Kakugo RNA content normalized to that of actin mRNA is shown with a bold bar showing standard errors. N, the number of samples used for each experiment; asterisk, differences were significant, with a P value of <0.05 by the unpaired t test.
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SBV infects honeybees. SBV infection during the larval stage is lethal, and infection in the adult shortens the worker life span (2). Honeybee adults exchange nutrients orally, and SBV infects honeybees orally (1). Similarly, Kakugo virus might be transmitted by oral infection between the colony members. Alternatively, Kakugo virus might be transmitted accidentally by bodily injury from infected colony members or by other organisms (e.g., a mite that is parasitic for honeybees or hornets) that carry the virus. Since Kakugo RNA is detected specifically in the attackers but not in the nurse bees or foragers in normal colonies, Kakugo virus infection might affect the honeybee behaviors so that the infected workers tend to become attackers. The relationship between Kakugo virus infection and honeybee aggressive behaviors, however, is not clear at present, as it was difficult to observe the aggressive behaviors of the workers that were removed from the hive, inoculated with Kakugo virus, and kept in a cage. To overcome this issue, it will be necessary to establish a method for inoculation of Kakugo virus into workers without damage to observe their behaviors in the normal colony. It is also unclear whether the virus has some pathogenic or lethal effects on honeybees, like most other animal viruses at present, as the inoculated workers were viable for at least 3 days in the cage. If the Kakugo virus has some pathogenic effect on the honeybees, however, the attacking behavior of the infected workers might act as a self-defense system at the colony level, as the attacking behavior might shorten the life span of the infected workers and help to eliminate the virus from the colony.
The amount of Kakugo RNA detected in attacker heads was much less than that detected in forager heads artificially inoculated with Kakugo virus. This might be explained by the fact that the amount of Kakugo virus inoculated artificially (1 µl of attacker head lysate) into the foragers was much higher than that transmitted from infected workers to the other noninfected workers in a normal colony. Alternatively, heavily infected attackers might be eliminated from the colony so that we could not detect any attackers with a high titer of Kakugo RNA in the head.
Very recently, sequences similar to Kakugo RNA (98 and 97% homology) were registered in GenBank (accession numbers AJ489744 and AY292384) as the genome-sense RNA of the deformed wing virus (DWV) of the honeybee (unpublished data). Kakugo RNA and the registered DWV genome-sense RNAs differ in the following two ways. (i) There are at least 201 nucleotide substitutions, deletions, or insertions which are unique to Kakugo RNA; 21 of them result in amino acid substitutions in the polyproteins and 7 of them are located in the conserved domain structures. (ii). The 5' UTRs of the registered DWV genome-sense RNAs are 16 and 11 nt shorter than that of Kakugo RNA. DWV is transmitted from the bee mite, Varroa jacobsoni, into the honeybee, and the viral infection is suggested to cause morphological deformity of the adult wing when it infects honeybee larvae (3). Although we do not have any more information about the relationship between Kakugo virus and DWV, they might be closely related viruses carrying different pathogenicities, as no significant DWV symptoms are observed in our colonies. Further analyses are needed to clarify the relationship between these two virus species.
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-glucosidase from the hypopharyngeal gland of the honeybee Apis nellifera L. Biochem. Biophys. Res. Commun. 221:380-385.[CrossRef][Medline]
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