Activated and inactivated immune responses in Caenorhabditis elegans against Photorhabdus luminescens TT01.

The Gram-negative bacterium Photorhabdus luminescens which symbiotically associates with the entomopathogenic nematode Heterorhabditis bacteriophora, has a broad insecticidal and nematicidal activity. The virulence of P. luminescens toward the non-mutualistic nematode Caenorhabditis elegans has not been described. We showed that when fed on P. luminescens, the intestinal cells of C. elegans worms become delicate and some crystal-like structure was developed within the intestinal lumen. Next, we examined the requirement of the p38 mitogen-activated protein kinase (MAPK) and insulin/IGF-1 signaling pathway against P. luminescens. Depletion of pmk-1 by RNAi enhances susceptibility to P. luminescens, and numerous downstream targets regulated by the p38 MAPK pathway were induced when fed on P. luminescens. On the other hand, knockdown of daf-16 has no effects on C. elegans lifespan, but knockdown of daf-2 dramatically increased resistance to P. luminescens in a daf-16-dependent manner. We also revealed one of the daf-2 ligands ins-7 was induced and ins-7 deletion mutant survived longer when fed on P. luminescens. These results suggest the p38 MAPK pathway is activated and required for the host defense against P. luminescens. Insulin/IGF-1 signaling pathway is inactivated by P. luminescens through the overexpression of insulin-like gene.

Background

Photorhabdus luminescens is an enteric Gram-negative bacterium which can be a pathogen producing a broad-spectrum toxins with antibacterial, antifungal insecticidal, and nematicidal activities, or a symbiont of the entomopathogenic nematode (EPN) Heterorhabditis bacteriophora orchestrating insect pathogenicity (Waterfield et al. 2009). A highly specialized mechanism of the bacterium-EPN association and adaptation has evolved and well established. Infective juveniles (IJs) of the EPNs invade the insect hosts and release their symbiotic bacteria into the hemocoel (Ciche and Ensign 2003). The bacteria suppress insect host defenses via production of phenoloxidase inhibitor (Eleftherianos et al. 2007), and produce insecticidal toxins to kill insect hosts within 48 hours after infection. EPNs consume bacteria and insect tissues to support their growth and reproduction. Meanwhile, the bacteria produce antibiotics and deterrent chemicals to protect the insect cadaver from microorganisms and other scavenger animals (Richardson et al. 1988; Williams et al. 2005; Gulcu et al. 2012). IJs emerge under the control of H. bacteriophora-producing pheromone (Noguez et al. 2012), are released from the insect cadaver carrying their aggressive symbiotic bacteria in the intestine and seek for new hosts (Ciche 2007).

Several toxin proteins produced by P. luminescens and other pathogenic bacteria have been identified, e.g. the toxin complex (Tc), the “Makes caterpillars floppy” (Mcf), Photox, and Photorhabdus insect related (Pir) toxins (Bowen et al. 1998; Daborn et al. 2002; Duchaud et al. 2003; Visschedyk et al. 2010). Even though the pathogenicity of several P. luminescens toxins is under active investigation (Dowling et al. 2004, 2007; ffrench-Constant et al. 2007; Vlisidou et al. 2009; Lang et al. 2010, 2011, 2013; Gatsogiannis et al. 2013; Yang and Waterfield 2013) and the genome data of P. luminescens are available (Duchaud et al. 2003), the underlying mechanism of their virulence remains unclear.

The mechanisms of host defense response against bacterial pathogens have been recently studied using the genetic model organism Caenorhabditis elegans. This approach successfully identifies the broadly conserved pathways involved in the host responses, e.g. Toll-like receptor pathway (Pujol et al. 2001; Tenor and Aballay 2008), p38 MAPK pathway (Kim et al. 2002; Troemel et al. 2006; Shivers et al. 2009, 2010), insulin/IGF-1 signaling pathway (Garsin et al. 2003; Murphy et al. 2003; Kawli and Tan 2008), and SKN-1/NRF oxidative stress pathway (van der Hoeven et al. 2011; Papp et al. 2012).

Although several studies have indicated that some P. luminescens strains displayed pathogenicity toward C. elegans (Couillault and Ewbank 2002; Sicard et al. 2007; Engelmann et al. 2011; Fischer et al. 2012, 2013; Julien-Gau et al. 2014), detailed phenotypes and the roles of host defenses have not been characterized. In this study we tested the pathogenicity of P. luminescens TT01, a mutualistic bacterial strain of the H. bacteriophora TT01 to C. elegans. Here we reported the phenotypes observed in C. elegans when infected by P. luminescens and revealed a similar molecular strategy with other pathogens to exert its pathogenicity.

Results

P. luminescensTT01 causes drastic damage to C. elegansintestine

C. elegans can be infected by many other bacterial strains (Couillault and Ewbank 2002; Sicard et al. 2007; Engelmann et al. 2011; Fischer et al. 2012, 2013; Julien-Gau et al. 2014). Here we showed that P. luminescens TT01 was also highly pathogenic to C. elegans. More than 90% of L4- staged C. elegans feeding on P. luminescens died within 5 days (Figure  1, Table  1, Blank RNAi). Body and brood size were largely reduced and the hatched larvae are developmentally retarded; most of the F1 did not develop to adulthood (data not shown). C. elegans intestinal cells were delicate. After 2 hours of feeding, the intestinal lumen started to swell and some crystal-like structures began to form (Figure  2A-D). This layered crystal-like structure was also observed in another bacteriovorous nematode Rhabditidae sp. (Additional file 1). Next we cultured L4 stage C. elegans on P. luminescens-seeded plates for 12 hours followed by recovery on Escherichia coli OP50. After 24 and 48 hour feeding on E. coli OP50, the crystal-like structure remained in the intestinal lumen (Table  2) and didn’t change the crystal size (Additional file 2), but the body morphology seemed healthy (Additional file 2) and reproduced normally (data not shown).

Figure 1

Two pathways contribute to resistance against . (A) pmk-1-knocked down C. elegans decreased resistance against P. luminescens (P < 0.005). (B) daf-16-knocked down did not affect C. elegans resistance against P. luminescens (P > 0.05). (C) daf-2-knocked down C. elegans increased resistance against P. luminescens (P < 0.005). (D) Null mutation of daf-16 did not affect C. elegans lifespan (P > 0.05), and knockdown of daf-2 didn’t affect daf-16 null mutant (P > 0.05). Survival curves are presented based on three or two trials (see Table  1). P values were calculated by log-rank test compared with the blank(RNAi).

Table 1

Effect of on lifespan

Trial	Genotype	Lifespan*	% increase	n	Pvalue**
1	N2, Blank(RNAi)	63.7		39
	N2, pmk-1(RNAi)	42.4	−33.4	73	< 0.005
	N2, daf-16(RNAi)	55.9	−12.2	47	> 0.05
	N2, daf-2(RNAi)	140.0	+119.8	42	< 0.005
2	N2, Blank(RNAi)	65.3		77
	N2, pmk-1(RNAi)	48.5	−25.8	79	< 0.005
	N2, daf-16(RNAi)	55.6	−14.8	71	> 0.05
3	N2, Blank(RNAi)	75.0		81
	N2, pmk-1(RNAi)	38.6	−48.5	84	< 0.005
	N2, daf-2(RNAi)	125.3	+67.1	51	< 0.005
4	N2, Blank(RNAi)	53.9		51
	N2, daf-16(RNAi)	56.7	+5.2	79	> 0.05
	N2, daf-2(RNAi)	117.4	+118.0	75	< 0.005
5	N2, Blank(RNAi)	62.1		63
	daf-16(mu86), Blank(RNAi)	57.5	−7.3	39	> 0.05
	daf-16(mu86), daf-2(RNAi)	65.4	+5.3	58	> 0.05
6	N2, Blank(RNAi)	72.7		68
	daf-16(mu86), Blank(RNAi)	62.1	−14.6	70	> 0.05
	daf-16(mu86), daf-2(RNAi)	62.5	−14.1	68	> 0.05
7	N2	64.6		87
	ins-7(tm1907)	76.3	+18.3	83	< 0.01
8	N2	64.0		88
	ins-7(tm1907)	77.1	+20.6	75	< 0.05

*Mean lifespan (hour).

**P values of each trial were calculated by log rank test compared with controls.

Figure 2

affects intestinal cells (A) Nomarski DIC images of C. elegans intestine fed on E. coli (A, B) or P. luminescens (C, D) for 44 hours. (A) Uterus region. Arrowheads indicate healthy intestinal lumen. (B) Tail region. (C) Uterus region. Intestinal cells are delicate and pseudocoelomic space becomes larger (asterisk). Arrows indicate crystal-like structures constructed in the intestinal lumen. (D) Tail region. Arrow indicates crystal-like structures constructed in the intestinal lumen. Anterior is left. Scale bars, 50 μm.

Table 2

Crystal-like structures do not disappear once constructed

	Pl 12 h + Ec 0 h		Pl 12 h + Ec 48 h
	Crystal	No crystal	Crystal	No crystal
1st Trial	10	0	20	0
2nd Trial	18	3	18	2
3rd Trial	20	0	18	2

Values indicate the number of nematodes in which the crystal-like structure was formed. Pl 12 h + Ec 0 h; C. elegans grown on P. luminescens for 12 hours from the L4 stage. Pl 12 h + Ec 48 h; C. elegans grown on E. coli for 48 hours after 12-hour incubation on P. luminescens from the L4 stage. The significant differences of present/absent of the crystal in each trial were calculated by Fischer’s exact test.

C. elegans ground E. coli in the terminal bulb, digested them and absorbed the nutrition in the intestinal cells (Figure  3A-D). However, C. elegans couldn’t grind the P. luminescens, intact bacterial cells remained but the bacteria did not proliferate in the intestinal lumen (Figure  3E-H).

Figure 3

Intact gets to the intestinal lumen. Nomarski DIC (A, B, E, F) or fluorescence (C, D, G, H) images of C. elegans, fed on GFP-labeled E. coli (A-D) or GFP-labeled P. luminescens (E-H) for 24 hours. Intestinal lumen was filled with ground cells when cultured on E. coli (A-D). Intestinal lumen had intact cells when nematodes were cultured on P. luminescens (E-H). Arrows indicate the terminal bulb. Anterior is left. Scale bars, 50 μm.

Two pathways influence C. elegansresistance to P. luminescens

Given that the insulin/IGF-1 signaling pathway and the p38 MAPK pathway in C. elegans are required for the defense response against several bacterial infections in intestine (Tan and Shapira 2011), we examined the role of these pathways against P. luminescens. The bZIP transcription factor ATF-7 is phosphorylated by the MAP kinase PMK-1 (Shivers et al. 2010), which activates numerous antimicrobial enzymes and peptides such as LYS-2 and CLEC-67 (Troemel et al. 2006). When the pmk-1 was knocked down by RNAi, C. elegans lifespan decreased significantly (P < 0.005) (Figure  1A, Table  1). The FOXO transcription factor DAF-16 is negatively regulated under the control of the insulin/IGF-1 receptor DAF-2 (Murphy et al. 2003), regulating the expression of antimicrobial enzymes and peptides such as SPP-1, LYS-7 and THN-2 (Murphy et al. 2003; Evans et al. 2008). Knockdown and null mutation of daf-16 did not affect C. elegans lifespan (P > 0.05) (Figure  1B, D, Table  1). On the other hand, C. elegans lifespan significantly increased when daf-2 was knocked down (P < 0.005) (Figure  1C, Table  1). Moreover, knockdown of daf-2 didn’t extend lifespan in daf-16 null mutant (Figure  1D, Table  1). The size of crystal-like structure was not affected by these pathways (data not shown).

P. luminescenssuppresses some daf-16-regulated antimicrobial genes in C. elegans

Next, we tested the expression of seven enzymes and peptides which are thought to work against microbial infection under the controls of these insulin/IGF-1 and p38 MAPK pathways after 6, 12 or 24 hours of P. luminescens exposure. We found that all four p38 MAPK-regulated genes, F08G5.6, T24B8.5, lys-2, and clec-67, were induced in each time point (Figure  4). The insulin/IGF-1-regulated genes, however, were differentially expressed. lys-7 was induced and spp-1 was suppressed in all time points; thn-2 was induced at 6 hours, unchanged at 12 hours, then repressed at 24 hours (Figure  4). The expression of one of the insulin/IGF-1 peptides, INS-7, a ligand of DAF-2 which suppresses DAF-16 activity (Murphy et al. 2003; Kawli and Tan 2008), was induced at all time points (Figure  4).

Figure 4

Relative gene expression changes of the seven antimicrobial enzymes and peptides, and genes in , fed on for 6, 12 and 24 hours. Values are means ± SE from at least three independent experiments. The significant differences were determined by Student’s t-test, compared to a normalized value of 1.0 for control C. elegans fed on E. coli OP50. *P < 0.05; **P < 0.005.

Several external stresses, such as starvation, heat, and oxidative stresses induce DAF-16 translocation from cytosol to nucleus, inducing several stress responsive and antimicrobial peptides (Henderson and Johnson 2001). Depletion of daf-16 clearly diminished cytosolic DAF-16::GFP (Figure  5A-D). When daf-2 was knocked down, DAF-16::GFP was accumulated into nuclei (Figure  5E, F). Exposure to P. luminescens TT01 fails to promote DAF-16::GFP translocation (Figure  5G, H).

Figure 5

DAF-16::GFP does not respond to . (A, B) DAF-16::GFP was located in cytosol when C. elegans was grown on E. coli OP50. (C, D) Cytosolic DAF-16::GFP was diminished when daf-16 was knocked down. (E, F) Cytosolic DAF-16::GFP was accumulated into the cell nuclei when daf-2 was knocked down. (G, H) DAF-16::GFP translocation was not seen when C. elegans was exposed to P. luminescens TT01. Scale bars, 100 μm.

P. luminescenspartially suppresses C. elegansresistance by INS-7 induction

Some daf-16-regulated antimicrobial genes were suppressed, and one of the daf-2 ligand ins-7 was induced by P. luminescens, given that P. luminescens may suppress C. elegans resistance by ins-7 inductions. We next examined if the loss of ins-7 function would not suppress C. elegans resistance and extend life span. The deletion ins-7(tm1907) mutant significantly increased lifespan (Figure  6, Table  1), suggesting that P. luminescens partially suppresses C. elegans resistance by INS-7 induction.

Figure 6

Deletion mutant significantly increased lifespan. Deletion ins-7(tm1907) mutant increased resistance against P. luminescens (P < 0.001). Survival curves are presented based on two trials (see Table  1). P values were calculated by log-rank test compared with the N2.

Discussion

We showed that when C. elegans was fed on P. luminescens TT01, intestinal cells became delicate and eventually collapsed (Figure  2C-D). Some insecticidal toxins such as Tc and Mcf produced by P. luminescens W14 were reported to cause destructions of midgut epithelium in insects (Bowen et al. 1998; Daborn et al. 2002). When C. elegans was fed on the recombinant E. coli expressing the P. asymbiotica mcf1 gene, severe feeding delay was observed (Waterfield et al. 2008) suggesting the possibility of damage on nematodes intestine. And a toxin complex TcaA was necessary but not sufficient for C. elegans-killing ability in Yersinia enterocolitica (Spanier et al. 2010). Such possible toxins produced by P. luminescens might be responsible for the intestinal cell deformation.

To our knowledge, there is no report about the formation of crystal-like structure in nematode intestinal lumen followed by bacterial infection including other Photorhabdus strains. P. luminescens is reported to produce two types of intracellular protein inclusions, CipA and CipB, which support growth and reproduction of the mutualistic EPN but have no effect on insect pathogenesis (Bintrim and Ensign 1998). Because Cip proteins are so small in size and produced inside of the bacterial cell, these inclusion proteins might be different from the crystal-like structure in the present study. The crystal-like structure still remains in C. elegans intestinal lumen after transferred onto E. coli lawn and their growth and reproduction are resumed (Additional file 2, Table  2); this crystal was unlikely to be toxic for C. elegans.

Many pathogenic bacteria colonize and proliferate in the intestinal lumen of C. elegans to exert their pathogenicity (Tan et al. 1999; Garsin et al. 2001; Kurz et al. 2003). Our result clearly showed that P. luminescens was not ground up by C. elegans terminal bulb, and remained intact into the intestinal lumen without proliferation. This may suggest that P. luminescens adopts a different strategy to kill nematodes, for example, via production of toxins without colonization.

Four antimicrobial genes (F08G5.6, T24B8.5, lys-2, clec-67) under the control of the p38 MAPK pathway, were up-regulated when fed on P. luminescens for 6, 12 and 24 hours (Figure  4). Up-regulation of these genes was also observed when infected by other pathogenic bacteria e.g. Gram-negative bacterium Pseudomonas aeruginosa (Troemel et al. 2006; Evans et al. 2008; Shivers et al. 2010). In addition, when pmk-1 was knocked down by RNAi, C. elegans became more susceptible to P. luminescens (Figure  1A, Table  1), which suggests that this pathway contributed resistance against P. luminescens but didn’t affect enough for survival. This pathway is reported to act in a cell-autonomous manner in intestine to regulate innate immunities against bacterial infections (Kim et al. 2002; Troemel et al. 2006; Shivers et al. 2009, 2010; Engelmann et al. 2011).

On the other hand, three antimicrobial genes (spp-1, thn-2, lys-7) regulated by the insulin/IGF-1 signaling pathway showed different expression patterns when fed on P. luminescens (Figure  4). This pathway is also related to host defense against several pathogens (Garsin et al. 2003; Murphy et al. 2003), and its activation is regulated in a non-cell-autonomous manner by secretion of INS-7 from the nervous system, which negatively regulates infection-related genes expression via the transcription factor DAF-16 (Kawli and Tan 2008; Tan and Shapira 2011). Infection of P. aeruginosa PA14 suppressed the expression of these three genes through the induction of INS-7 expression (Evans et al. 2008). However, transcriptional analysis using tiling arrays and RNA-sequencing showed the spp-1 and thn-2 were down-regulated, but lys-7 and ins-7 were not affected when C. elegans was fed on P. luminescens strain Hb (Engelmann et al. 2011).

We couldn’t observe translocation of DAF-16::GFP into cell nuclei after P. luminescens infection (Figure  5). As shown in our experiments, resistance of C. elegans against P. luminescens was increased when DAF-16 was activated by daf-2 RNAi (Figure  1C-D, Table  1). However, DAF-16 was not activated by the bacteria, which is consistent with the fact that daf-16 RNAi did not significantly decrease C. elegans lifespan on P. luminescens (Figure  1B, Table  1).

Up-regulation of ins-7 and the importance of ins-7 for DAF-16 nuclear delocalization during the infection of P. aeruginosa to C. elegans have been reported (Evans et al. 2008). P. luminescens induced overexpression of INS-7 in C. elegans (Figure  3), which might keep DAF-16 in the cytoplasm via the insulin/IGF-1 signaling pathway. This mechanism seems unique to P. luminescens and P. aeruginosa. Gram-positive bacterial pathogen Enterococcus faecalis V583 induces the DAF-16-controlling genes in C. elegans (Evans et al. 2008), and Gram-negative bacterium Salmonella typhimurium induces spp-1 in C. elegans, which contribute to suppress bacterial proliferation in the intestine (Alegado and Tan 2008). Although P. luminescens and P. aeruginosa suppress the nematode immune response in the same way, they don’t share their natural hosts. They might have developed the immune-suppressive mechanism independently.

Conclusions

We showed here the high pathogenicity of the EPN mutualistic bacterium P. luminescens TT01 to the model organism C. elegans. The insulin/IGF-1 signaling pathway is highly effective for the resistance against P. luminescens, albeit DAF-16 is inactivated by the bacteria via INS-7 induction, which was also reported in human opportunistic pathogen Pseudomonas aeruginosa PA14. This infection strategy of P. luminescens might also be applied to infect insects.

Methods

Nematodes and bacteria strains and culturing

C. elegans and Rhabditidae sp. culturing and handling were performed as described previously (Brenner 1974), except when otherwise noted. Strains used in this study were: Caenorhabditis elegans N2 (Bristol strain), TJ356 {zIs356[Pdaf-16::daf-16::gfp, pRF4]IV} (Henderson and Johnson 2001), CF1038 daf-16(mu86)I (Lin et al. 1997), ins-7(tm1970) (provided by the National BioResource Project, Japan), Rhabditidae sp. KHA410. Heterorhabditis bacteriophora TT01 (kindly provided by Ann Burnell, National University of Ireland-Maynooth) was maintained by infecting the greater wax moth Galleria mellonella larvae as following the methods described previously (Kaya and Stock 1997). The symbiotic bacteria P. luminescens TT01 was isolated from G. mellonella infected with H. bacteriophora TT01, spread on MacConkey agar plates to select the primary phase colonies. The primary phase P. luminescens TT01 colony was picked up, transferred into LB media and grown overnight at 28°C with 200 rpm shaking. About 200 μl or 400 μl of the liquid cultured bacteria was spread on a 6 cm or 9 cm NGM plate, respectively, without clearance space, incubated 32 hours at 28°C, and then cooled down to 20°C. All fresh P. luminescens TT01 plates were prepared just before use.

Construction of gfp-labeled bacteria

GFP-labeled E. coli OP50 and P. luminescens TT01 were constructed by the miniTn7-transposon system pBK-miniTn7-gfp2 and pUX-BF13 (Lambertsen et al. 2004; Easom et al. 2010). Briefly, E coli S17-1 (λ pir) carrying pBK-miniTn7-gfp2 (donor) and E. coli SM10 (λpir) carrying pUX-BF13 (helper), and E. coli OP50 rifampicin resistance (RifR) or P. luminescence TT01 RifR (recipients) growing in LB medium containing 10 mM MgCl2 with appropriate antibiotics (MgLB) (OD600 = 0.5) were mixed in a 1:1:4 ratio (donor: helper: recipient = 50 μl: 50 μl: 200 μl), dropped on the center of MgLB agar plate and then incubated overnight at 30°C. Thereafter, bacterial cells were collected with MgLB and plated on MgLB agar containing 50 μg/ml rifampicin and 5 μg/ml chloramphenicol, and incubated for 48 hours at 30°C. Correct position of the Tn7 insertion in the colonies acquired were confirmed by PCR with the primers, Tn7-Pl_glmS, 5’ – CGT AAT TTG GCT AAA TCA GTG AC – 3’ and Tn7R109, 5’ – CAG CAT AAC TGG ACT GAT TTC AG – 3’.

Survival test

All survival tests were carried out at 20°C. Synchronized L1 stage C. elegans were obtained by treating egg-containing adults with sodium hypochlorite (Porta-de-la-Riva et al. 2012) and allowed to grow on NGM plates seeded with E. coli OP50 at 20°C for 48 hours until the late L4 stage. L4 stage C. elegans were washed with M9 buffer and transferred onto the 6 cm NGM plates completely covered with P. luminescens TT01, and checked every 12 hours until nematode death. Preparation of the NGM plate seeded with fresh P. luminescens TT01 was described as above. The time point of nematode transfer onto the P. luminescens plate represented the zero hour of life-span analysis. Nematodes began to lay a few eggs after about 12 hours, but the hatched larvae couldn't grow and were easily distinguish from their parents. Nematode was considered dead when it no longer responded to light prodding with a platinum wire. Nematodes that crawled-up to the dish wall and desiccated were excluded from the data. Experiments were performed two or three times. Survival curves were analyzed by the Kaplan-Meier procedure, and significant differences between survival curves were calculated by the log-rank test with statistical software Excel Tokei 2006 (SSRI, Tokyo, Japan).

Formation of crystal-like structure

Synchronized L4 stage C. elegans were transferred onto the 9 cm NGM plates completely covered with P. luminescens TT01, prepared as described above, and incubated at 20°C for 12 hours. Then nematodes were collected and washed with M9 buffer twice and transferred onto the 9 cm NGM plates seeded with E. coli OP50, and incubated at 20°C for 24 and 48 hours. After 24 or 48 hour incubation, 10–20 nematodes were randomly picked up and observed the formations of crystal-like structure with the differential interference contrast (DIC) microscopy. Each observation was performed three times independently.

RNA interference (RNAi)

Gene fragments of C. elegans daf-2, daf-16 and pmk-1 were prepared by PCR amplification of C. elegans N2 cDNA and cloned into the RNAi vector pPD129.36 (kindly provided by Fire, A., Stanford University). The PCR fragment-ligated plasmid or the blank vector pPD129.36 was used to transform E. coli HT115 (Kamath et al. 2001). Primers for RNAi constructs were listed in Table  3. For RNAi experiments, synchronized L1 stage nematodes were cultured until L4 stage for 48 hours at 20°C on NGM (containing 50 μg/mL ampicillin and 20 μg/mL tetracycline) plates seeded with E. coli HT115 transformed with each different RNAi plasmid. Synchronized L4 stage nematodes were then collected and transferred onto survival test plates.

Table 3

Primers used for RNAi constructs」

	Primer name	Sequence
1.	daf-16a_BamHI_For	5’ – GGGGATCCGCCGGAGCCACGTGGCAGGTG – 3’
2.	daf-16a_SalI_Rev	5’ – ATACGCGTCGACTCAGCTCATGTCTGATCAATG – 3’
3.	daf-2_SalI_For	5’ – GGAGCACGATATTGTCGACGGCA – 3’
4.	daf-2_XbaI_Rev	5’ – GCTCTAGATTTCTGAACAGTGACTTTGCCT – 3’
5.	pmk-1_EcoRI_For	5’ – GGGAATTCCACAGACAACAATGGATCATAT – 3’
6.	pmk-1_EcoRI_Rev	5’ – AAGGAATTCTTCATCTGGTGTTCC – 3’

Feeding test

Synchronized L4 stage C. elegans were washed with M9 buffer and transferred onto the 6 cm NGM plates completely covered with gfp-tagged P. luminescens TT01, or E. coli OP50. Nematodes were picked up at every time point and observed with the Nikon E600 microscope equipped with Nomarski DIC system and a fluorescence filter.

Quantitative RT-PCR

Gene expression of spp-1, thn-2, lys-7 (reported to be controlled by the insulin/IGF-1 signaling pathway, Murphy et al. 2003; Evans et al. 2008), F08G5.6, T24B8.5, lys-2, clec-67 (reported to be controlled by the p38 MAPK pathway, Troemel et al. 2006) and ins-7 (an insulin/IGF-1 peptide and DAF-2 ligand) were analyzed by qRT-PCR using SYBR® green assay (Takara bio, Shiga, Japan). Synchronized L4 stage C. elegans grown on the NGM seeded with E. coli OP50 were collected, washed with M9 buffer and transferred onto the 9 cm NGM plates completely covered with P. luminescens TT01 (prepared as described above) or E. coli OP50, and grown at 20°C. After 6, 12 or 24 hours, nematodes were collected, washed twice with M9 buffer, then immediately frozen in liquid nitrogen, and stored in −80°C freezer. Total RNA was extracted by the RNeasy® Plus Micro Kit (Qiagen, Venlo, Netherland) following the manufacturer’s protocol. Total RNA (adjusted for concentration of 50 ng/μl) was reverse transcribed using Oligo dT primer and PrimeScript RT reagent Kit (Takara bio). Quantitative RT-PCR was performed using SYBR® Premix Ex Taq™ II (Tli RNaseH Plus) (Takara bio) on CFX96™ Real-Time PCR Detection System (Bio-Rad, Berkeley, CA, USA). Primers were designed using Primer 3 software (http://simgene.com/Primer3) and tested for specificity prior to qRT-PCR. The housekeeping snb-1 gene was used as an internal control gene for calculation of relative expression levels of each gene. Primers for qRT-PCR were listed in Table  4. A single peak at the melting temperature of the PCR-product confirmed primer specificity. Experiments were performed at least three times using independent nematode samples. Relative gene expression of each gene was analyzed using ΔΔCT method (Livak and Schmittgen 2001).

Table 4

Primers used for qRT-PCR analysis

	Primer name	Sequence
1.	F08G5.6_For	5’ – ATCGTTCCGAATGGTGGTTGAC – 3’
2.	F08G5.6_Rev	5’ – GCCGATTTCAGCTTGCAAAGTG – 3’
3.	T24B8.5_For	5’ – AAACCTGTGGTGTCTGCGTTAC – 3’
4.	T24B8.5_Rev	5’ – TGGCAGGTTTTTGGGCATTG – 3’
5.	lys-2_For	5’ – TGCTGATTTCCGTGCTTTCG – 3’
6.	lys-2_Rev	5’ – TTCCAACAGCATACACGTCACG – 3’
7.	clec-67_For	5’ – AATGTTCAATCGGCCACCCTTG – 3’
8.	clec-67_Rev	5’ – TGGTCATGTTGAAGACGTTCGC – 3’
9.	spp-1_For	5’ – TTTGCTGGACTATGCTGTTGCC – 3’
10.	spp-1_Rev	5’ – AACATCCTTGCACGCCTTGTC – 3’
11.	thn-2_For	5’ – TCCAACTTACGGCTGGACAATC – 3’
12.	thn-2_Rev	5’ – TGCATTGCTCCGAGTTTCTGC – 3’
13.	lys-7_For	5’ – AATGTGCCGTCAAACTTGGC – 3’
14.	lys-7_Rev	5’ – TGCACGAACGAAAACTGCAC – 3’
15.	ins-7_For	5’ – TTAGGTCCAGCAGAACCAGAAG – 3’
16.	ins-7_Rev	5’ – CGCATGCTTTTCCACAAACCG – 3’
17.	snb-1_For	5’ – TGGAGCGTGATCAGAAGTTGTC – 3’
18.	snb-1_Rev	5’ – TCCACCAATACTTGCGCTTCAG – 3’

Authors’ information

JSPS Research Fellow.

Additional file 1: Crystal-like structure is also constructed in another bacteriovorous nematode. L4 stage Rhabditidae sp. was cultured on P. luminescens for 24 hours at 25°C. Arrow indicates crystal-like structure inside the intestinal lumen. (JPEG 589 KB)

Additional file 2: Crystal-like structures do not disappear once constructed. (A) Frequency of the crystal-like structure construction. There is no significant difference between before and after culturing on E. coli OP50 (P > 0.05, Fisher’s exact test). Integrated data of three independent experiments are shown. (B) C. elegans body shape, grown on E. coli for 24 hours after 12-hour incubation on P. luminescens from the L4 stage. Scale bar, 200 μm. (C) Crystal-like structure in the C. elegans intestine, grown on P. luminescens for 12 hours from the L4 stage. Scale bar, 50 μm. (D) Crystal-like structure in the C. elegans intestine, grown on E. coli for 48 hours after 12-hour incubation on P. luminescens from the L4 stage. Arrows indicate crystal structure. Scale bar, 50 μm. (JPEG 777 KB)