Identification of olfactory genes and functional analysis of BminCSP and BminOBP21 in Bactrocera minax

Authors: Penghui Xu ^aff001; Yaohui Wang ^aff001; Mazarin Akami ^aff001; Chang-Ying Niu ^aff001
Authors place of work: Department of Plant Protection, College of Plant Science & Technology, Huazhong Agricultural University, Wuhan, China ^aff001
Published in the journal: PLoS ONE 14(9)
Category: Research Article
doi: https://doi.org/10.1371/journal.pone.0222193

Summary

Insects possess highly developed olfactory systems which play pivotal roles in its ecological adaptations, host plant location, and oviposition behavior. Bactrocera minax is an oligophagous tephritid insect whose host selection, and oviposition behavior largely depend on the perception of chemical cues. However, there have been very few reports on molecular components related to the olfactory system of B. minax. Therefore, the transcriptome of B. minax were sequenced in this study, with 1 candidate chemosensory protein (CSP), 21 candidate odorant binding proteins (OBPs), 53 candidate odorant receptors (ORs), 29 candidate ionotropic receptors (IRs) and 4 candidate sensory neuron membrane proteins (SNMPs) being identified. After that, we sequenced the candidate olfactory genes and performed phylogenetic analysis. qRT-PCR was used to express and characterize 9 genes in olfactory and non-olfactory tissues. Compared with GFP-injected fly (control), dsOBP21-treated B. minax and dsCSP-treated B. minax had lower electrophysiological response to D-limonene (attractant), suggesting the potential involvement of BminOBP21 and BminCSP genes in olfactory perceptions of the fly. Our study establishes the molecular basis of olfaction, tributary for further functional analyses of chemosensory processes in B. minax.

Keywords:

Biology and life sciences – Genetics – Gene expression – Genomics – Genome analysis – Biochemistry – Organisms – Eukaryota – Plants – Computational biology – proteins – Evolutionary biology – Neuroscience – Psychology – Social sciences – Computer and information sciences – Evolutionary systematics – Phylogenetics – Phylogenetic analysis – Taxonomy – Data management – Anatomy – Medicine and health sciences – Zoology – Animal anatomy – Sensory perception – Transcriptome analysis – Odorant binding proteins – Pheromones – Insect pheromones – Entomology – smell – Animal antennae

Introduction

Many research workers have pointed out that biosynthesis and receptor molecular recognition systems evolve in synchronous steps during animal signaling process [1–3]. Odors are a potential tool to control agricultural beneficial and injurious insects [4]. With highly sophisticated olfactory system insects can recognize various volatile chemicals from their prey, host plants and conspecifics [5, 6].

Sensory inputs can be converted into behavioral outputs by synaptic connections in highly streamlined olfactory circuits [7]. Antennae and maxillary palps are two important olfactory organs in the detection of olfactory signals and cues [8]. These organs are covered in sensilla that contain the dendrites of stereotypical combinations of olfactory sensory neurons (OSNs), odorant receptor (OR) or ionotropic receptor (IR) [9]. Normally, ORs are expressed in company with a co-receptor, which is called Orco [4, 10]. Compared with ORs, Orco is widely expressed in olfactory sensory neurons and plays a vital role in olfactory transduction [7, 11]. IR families can be categorized into three subgroups, including “antennal IRs” “divergent IRs” and iGluRs. iGluRs and “antennal IRs” which are extensively expressed in coeloconic OSNs of antenna [12]. Odorant binding proteins (OBPs) and chemosensory proteins (CSPs) are typically located on antennae and mouthparts and are also major proteins involved in recognition of volatiles. OBPs and CSPs play an important role in transporting incoming odorants to corresponding receptors and in transferring the odorant-degrading enzymes (ODEs) to the receptors [13, 14]. Previous studies have shown that insects communicate with their environment through detection of odorant molecules [15]. The olfactory systems of insects are highly selective for semiochemicals, which are of great importance to the mediation of their behavior patterns such as location of mates and food sources [16, 17]. Therefore, investigating the gene function in semiochemical detection is an essential step towards understanding the mechanism of olfaction in insects.

As a univoltine, oligophagous tephritid, Bactrocera minax is mainly distributed in the citrus production areas of China, India and Bhutan [18, 19]. The adult female oviposits and larvae develop primarily in citrus. After hatching, larvae is fed and protected within the reproductive structures of the host plant until completion of their larval stage [20]. The endophytic behavior of larvae and pupal diapause make this insect difficult to control using conventional insecticides [20, 21]. Some methods have been developed to monitor population outbreaks of B. minax, and the transcriptome of B. minax has been determined [22]. Olfactory proteins that are crucial in allowing the insect to locate potential oviposition substrates (citrus fruit), and food lures to attract adult B. minax have been developed [23, 24]. Host plant volatiles which synergize the response to sex pheromones in the orange have attracted attention [25]. However, the olfactory responses of B. minax to different host plants and the genes involved are yet to be elucidated.

In our study, we identified functional olfactory molecules in B. minax and evaluated the responses of the fly to its specific attractant volatile D-limonene. RNA interference technique revealed the predominance of BminCSP and BminOBP21 genes in olfactory and non-olfactory tissues, specifically in the antennae of B. minax. Compared with GFP-injected B. minax (control), RNAi-treated B. minax had significantly lower electrophysiological responses to D-limonene. Our data add a unique understanding of the molecular olfactory responses of B. minax that will facilitate the development of attractants for an effective biological control approach of B. minax.

Methods

Ethical statement

Bactrocera minax is a pest insect which does not require any permission for their manipulation and handling. The study was approved by the College of Plant Science and Technology, Huazhong Agricultural University.

Insect rearing and maintenance

The third instar larvae of B. minax were retrieved from infested citrus fruits planted in San Douping county, Hubei province, China. Adults were kept in cubical cages (50cm x 50cm x 50cm) and fed with sucrose and brewer’s yeast at 28°C, under relative humidity of 70–80% with light -dark ratio of 14 h: 10 h.

Transcriptome analysis and functional annotation

B. minax heads were dissected from newly emerged females, sexually mature males, and sexually mature females, respectively. The heads were gently separated using sterilized forceps under a stereomicroscope, washed twice in DEPC-ethanol 70% and used immediately. The total RNA was isolated using RNAiso plus reagent (TaKaRa Biotechnology, China). Transcriptome analyses were performed according to previously published methods [26].

The difference in gene expression at different stages was compared using FPKM of genes from all samples of the transcriptome. The Blast2GO program was adopted for functional annotation of the genes [27]. The open reading frame (ORF) of the identified unigene was predicted by ORF Finder and verified on the basis of protein BLAST results [28]. The signal peptides of OBPs and CSPs were predicted by SignalP 4.0. The transmembrane domain (TMD) of the identified OR was evaluated by TMHMM server v. 2.0 [29].

Phylogenetic analyses

Based on the amino acid sequences of candidate olfaction genes and collected olfaction genes, the phylogenetic tree was established in MEGA 7.0 software. Clustal W was performed to align the amino acid sequences. A bootstrap procedure was carried out to assess node support [30].

qRT-PCR-based analysis of candidate olfactory gene expression

qRT-PCR analysis was performed to evaluate the expression profiles of the putative olfactory genes from different samples[15]. Total RNA was extracted according to the method mentioned above. cDNA was synthesized using a first strand cDNA Synthesis Kit. 10 μl of the PCR master mix consisted of 5 μl of TB Green Premix Ex TaqII, 0.2 μl of ROX Reference Dye, 0.6 μl of cDNA templates, 0.4 μl of each primer, and 3.4 μl of double-distilled water. Primers are described in S4 Table. Three biological samples were analyzed for each experiment. The expression level of olfactory gene was quantified and calculated using the 2^−ΔΔCT method with the Bmtubulin gene as control [31].

RNA interference and electrophysiological recordings

Full-length BminCSP and BmOBP21 dsRNA was synthesized through in vitro transcription and purified using RNeasy MinElute Cleanup Kit. About 100 nl of dsRNA was injected into sexually mature female B. minax with a micro Injector™ System MINJ-1. Two lines of injected flies were generated, namely the dsRNA-injected and dsGFP-injected ones. Individual female head was dissected 2 days after injection. RNA was extracted from each head and qRT-PCR was conducted using the same methods as earlier described, three biological samples and three technical repeats were analyzed for each treatment [32]. Primers used in RNAi for PCR and qRT-PCR are described in the supporting information (S5 and S6 Tables).

An antennae of an adult B. minax female was excised and mounted on a Syntech EAG platform. One metal conductive electrode was used for reference while the other was used as recording electrode [33]. The antennal preparation was bathed in a humidified air stream flowing at 20 ml/s. B. minax is sensitive to D-limonene [25]. D-limonene (99%, Sigma-Aldrich, USA) was dissolved in normal hexane (99%), resulting in a stock solution of 1 μg/μl. 10 μl of the stimulus was loaded onto a filter paper strip, and then introduced in 1 ml of polypropylene syringe. Solvent blanks of equal volume served as controls. The order in which antennae receive odor stimulation was solvent blank, then EAG (std1), followed by stimuli (EAG(A), then another solvent blank, and finally EAG (std2). rEAG is the relative EAG response. Each treatment contained a minimum of five replicates.

Statistical analysis

One-way ANOVA was performed to analyze the gene expression in SPSS 22.0 software. The relative gene expression level between dsRNA treatment and control was evaluated by t-tests at α = 0.05. In contrast, the rEAG between dsRNA treatment and control was evaluated by t-tests at α = 0.05. The difference was statistically significant when P < 0.05.

Results

Putative chemosensory proteins identification

As shown in S1 Table, a candidate CSP was identified and predicted to have a full sequence without signal peptide. From the Neighbor-Joining tree, it could be found that the sequences were clustered with orthologous gene, which could be easily identified, as shown in Fig 1. The unigene BminCSP was predicted to have the same function with BdorCSP3 in terms of feeding and oviposition [34].

<h2>Phylogenetic tree of candidate <i>BminCSP</i> with other Dipteran CSP sequences.</h2> — Fig. 1.
Phylogenetic tree of candidate *BminCSP* with other Dipteran CSP sequences.

Putative odorant-binding proteins identification

By aligning the 21 candidate OBPs to each other, they were organized into different classes according to the number of cysteine motifs present in each transcript and a phylogenetic was constructed, as shown in Fig 2A. All putative OBPs were similar to known OBPs from other Dipteran species. The identified OBP genes clustered in different subgroups and encoded a variety of proteins. A few genes that clustered together with their counterparts from B. dorsalis were identified and named as BminOBP1, BminOBP2, BminOBP7, BminOBP9, BminOBP11, and BminOBP16, respectively (S1 Table). According to the heatmap, BminOBP2, BminOBP6 were highly expressed in mature males (MM) while BminOBP9, BminOBP14, BminOBP12 were highly expressed in mature females (MF), and BminOBP4, BminOBP11, BminOBP13 were highly expressed in newly emerged females (EF) (Fig 2B).

<h2>Phylogenetic tree of candidate <i>BminOBPs</i> with known Dipteran OBP sequences and the candidate <i>BminOBP</i> genes expression pattern in newly emerged females (EF), sexually mature females (MF), and sexually mature males (MM).</h2> — Fig. 2.
Phylogenetic tree of candidate *BminOBPs* with known Dipteran OBP sequences and the candidate *BminOBP* genes expression pattern in newly emerged females (EF), sexually mature females (MF), and sexually mature males (MM).

Identification of candidate olfactory receptor proteins

Transcripts encoding 53 putative olfactory receptors (ORs) were identified. Among them, five were full-length genes encoding proteins of more than 399 amino acids. The unigene reference, length, and BLASTx best hit of all OR are shown in S2 Table. The majority of OR candidate genes clustered with at least one orthologous gene, forming multiple lineages (Fig 3A). Moreover, BminOR9, BminOR16, BminOR19, BminOR21, BminOR23, BminOR27, BminOR31 and BminOR32 genes were highly expressed in newly emerged flies (EF), while BminOR38 gene was highly expressed in sexually mature males (MM) (Fig 3B).

<h2>Phylogenetic tree of candidate <i>BminORs</i> with known Dipteran OR sequences and the candidate <i>BminOR</i> genes expression pattern in EF, MF and MM.</h2> — Fig. 3.
Phylogenetic tree of candidate *BminORs* with known Dipteran OR sequences and the candidate *BminOR* genes expression pattern in EF, MF and MM.

Identification of candidate ionotropic receptors

A total of 29 candidate IR sequences were identified in B. minax transcriptomic analyses, of which, 5 IRs had complete open reading frames (ORF), whereas the others were represented as partial ORF. An unrooted phylogenetic tree was established to reveal the relationship among the IRs from B. minax and other Dipteran species (Fig 4A). The name, unigene reference, length, and best BLASTx hit of all 29 IRs are shown in S3 Table. The heatmap revealed predominant expressions of BminIR1, BminIR11, BminIR12 in EF, while BminIR21 was highly expressed in MM and MF (Fig 4B).

<h2>Phylogenetic tree of candidate <i>BminIRs</i> with known Dipteran IR sequences and the candidate <i>BminIR</i> genes expression pattern in EF, MF and MM.</h2> — Fig. 4.
Phylogenetic tree of candidate *BminIRs* with known Dipteran IR sequences and the candidate *BminIR* genes expression pattern in EF, MF and MM.

Identification of candidate SNMPs

Four candidate SNMPs were identified from the B. minax transcriptome, including. BminSNMP1a, BminSNMP1b, BminSNMP1c, and BminSNMP2a. The protein sequences of the SNMPs are shown in S1 Text.

Expression pattern of candidate olfactory gene

qRT-PCR was carried out to investigate the expression pattern of the candidate olfactory genes in male antennae, female antennae, head, thorax, abdomen, leg, and wing. As shown in Fig 5, all examined genes could be detected in B. minax antennae, but only some of the genes could be identified in other parts of the body (Fig 5). It was worth noting that BminCSP, BminOBP13, and BminOBP21 were highly expressed in antennae of both male and female, BminOBP8 was highly expressed only in the leg, while BminOBP16, BminOBP4, and BminOBP12 were highly expressed in the thorax and BminOR4 was highly expressed in antennae of males only. Moreover, the expressions of BminCSP, BminOBP4, BminOBP21, BminIR14 genes reached their peaks at the 13^th day when B. minax was becoming sexually mature, indicating their potential involvement in ovary development and oviposition (Fig 6).

<h2>Tissue- and sex-specific expression patterns of candidate <i>B</i>. <i>minax</i> olfaction genes.</h2> — Fig. 5.
Tissue- and sex-specific expression patterns of candidate B. *minax* olfaction genes.

<h2>Time expression patterns of candidate <i>B</i>. <i>minax</i> olfaction genes.</h2> — Fig. 6.
Time expression patterns of candidate B. *minax* olfaction genes.

Electrophysiological recordings

The qRT-PCR analysis was performed to examine mRNA levels of BminCSP and BminOBP21 in the antennae of dsRNA-injected insects and GFP-injected insects (control). Compared with GFP-injected insects, BminCSP and BminOBP21 transcript levels in dsRNA injected B. minax were significantly reduced, as shown in Fig 7. Through investigating EAG response to attractant of control and RNAi-treated B. minax females, it could be known that silencing BminCSP and BminOBP21 genes significantly influenced antennal response to D-limonene (Fig 7).

<h2>EAG response of <i>B</i>. <i>minax</i> antennae to D-limonene for the sexually mature females.</h2> — Fig. 7.
EAG response of B. *minax* antennae to D-limonene for the sexually mature females.

Discussion

OBPs and CSPs are highly expressed in the sensillum lymph and involved in the first critical step in odorant detection [13]. It has been reported that OBPs and CSPs probably carry semiochemicals affecting the behavior [34].

B. minax, is a critical phytophagous pest, which has been largely spread across China in recent years and gradually become a significant threat to worldwide citrus industry [21].The mechanism underlying the chemical communication in B. minax has rarely been researched [25]. Therefore, it is of great importance to determine the genes that are responsible for semiochemical perception [6, 16]. Candidate olfactory genes have been identified through transcriptomic analyses and annotation. In an attempt to unravel the molecular basis of olfaction in B. minax, we studied the whole transcriptomes from the head and antennae of this pest, and then, we determined the number of genes involved in olfactory processes.

A total of 108 putative olfactory genes (1 CSP, 21 OBPs, 53 ORs, 29 IRs, and 4 SNMPs) were identified from the transcriptome of B. minax. This number is somewhat lower than that detected in B. dorsalis, a polyphagous insect pest with a diverse host range. For B. dorsalis, it consists of 155 olfactory genes (3 CSPs, 35 OBPs, 74 ORs, 40 IRs, and 3 SNMPs) at the transcriptome level (our unpublished data). This could be an indication that the development of olfactory perception in fruit fly depends on the host plant range of the fly, either monophagous (eating of one host plant), oligophagous (feeding on a few specific hosts) or polyphagous (feeding on a broad spectrum of host fruits), since B. minax is an oligophgaous insect while B. dorsalis is a polyphagous one. Another possibility is that B. minax may use visual as well as olfactory signals to find and locate the suitable host plants and fruits [26].

Transcriptome analysis has been carried out to identify the differentially expressed genes in a specific tissue of insects. The BLAST analysis of the OBP and CSP proteins identified in B. minax allowed us to characterize the sequences [17]. In this work, the transcriptome analysis revealed the identification of 1 CSP and 1 OBP (named as BminCSP and BminOBP21) which were highly expressed in antennae of both male and female B. minax. The injection of dsRNA targeting BminCSP and BminOBP21 genes significantly affected the antennal responses to D-limonene, which is a putative attractant that normally activates antennal responsiveness for oviposition or host location. Moreover, BminOBP8 gene was highly expressed in the legs, which may indicate its involvement in B. minax locomotion and host location.

The elementary functional and structural characteristics of insect olfactory receptor have remained unknown [10, 35]. In this study, 53 odorant receptors (ORs) candidate genes were identified. Male-specific ORs play a role in pheromone detection, while female-specific ORs are expected to feature in oviposition-related odorant detection [36]. For most species, only one obligate co-receptor (Orco) is expressed, which is a distinct complement of ORs [37].

The detection of one Orco gene (BminOR6) in our study could indicate the extent of its involvement in the olfaction of B. minax. A similar result was obtained in the vinegar fly Drosophila melanogaster, in which the odorant receptor gene was highly involved in its olfaction system. Although the molecular mechanisms of olfaction driven by BminOR6 gene in B. minax require further study, our results could constitute a starting point for implementing novel control strategies by targeting the olfaction properties of the fly. The significant expression of BminIR21 (ionotropic receptor candidate gene) in mature stages of the fly is possibly linked to the host maintenance and foraging ability. A recent study showed that a part of IR subtypes is involved in the detection of food-derived odors, while the other part is tuned to polyamines [12]. The two SNMPs of B. minax have been published [38]. BminSNMP1a identified in our study is nearly the same with BminSNMP1 in published paper, while BminSNMP2a identified in our study is an orthologous gene with BminSNMP2.

Olfaction plays a key role in locating food, sexual partners, and oviposition sites [6, 39]. At present, the techniques for studying gene function include RNAi [40] and CRISPR/Cas9 technologies [41]. Some olfactory genes functions have been identified in insects by RNAi [42]. In B. dorsalis, silencing OBP genes reduced the fecundity of females [40]. Currently, reverse chemical ecology, such as linking insect olfactory proteins to their respective pheromone and plant kairomones is the key and could provide a novel method for researching sophisticated mechanisms of chemosensory perception in insects [43].

Based on the present work, we are tentatively exploring the underlying molecular mechanisms of olfaction and chemoreception in B. minax to better understand how those candidate genes could be adequately manipulated for implementing effective management strategies of B. minax in the near future.

Conclusions

Overall, we firstly identified a total of 108 new olfactory genes in B. minax, including 1 CSP, 21 OBPs, 53 ORs, 29 IRs, and 4 SNMPs. This provides theoretical basis for investigating the mechanisms of olfaction in B. minax. In this study, we established a phylogenetic tree of olfactory genes. The results indicated that most of olfactory genes were expressed in the chemosensory organs while some genes showed antenna-biased expression. Moreover, the knock down of BminCSP and BminOBP21 genes affected antennal responses to D-limonene, a putative specific attractant. This study provides theoretical basis for researches on olfactory system of B. minax, and the variety of genes identified could constitute potential targets for genetic-based pest management against this notorious pest and other related pests.

Supporting information

S1 Table [docx]
Unigenes of candidate chemosensory proteins and odorant binding proteins.

S2 Table [docx]
Unigenes of candidate olfactory receptors.

S3 Table [docx]
Unigenes of candidate ionotropic receptors.

S4 Table [docx]
Primers used in the qRT-PCR experiments for expression patterns of candidate olfactory genes.

S5 Table [docx]
Primers used in RNAi for PCR.

S6 Table [docx]
Primers used in RNAi for qRT-PCR.

S1 Text [docx]
Fasta format of the protein sequences of OBPs, CSPs, ORs, IRs and SNMPs identified in this study.

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