Virome in adult Aedes albopictus captured during different seasons in Guangzhou City, China

Background The mosquito Aedes albopictus is an important vector for many pathogens. Understanding the virome in Ae. albopictus is critical for assessing the risk of disease transmission, implementation of vector control measures, and health system strengthening. Methods In this study, viral metagenomic and PCR methods were used to reveal the virome in adult Ae. albopictus captured in different areas and during different seasons in Guangzhou, China. Results The viral composition of adult Ae. albopictus varied mainly between seasons. Over 50 viral families were found, which were specific to vertebrates, invertebrates, plants, fungi, bacteria, and protozoa. In rural areas, Siphoviridae (6.5%) was the most common viral family harbored by mosquitoes captured during winter and spring, while Luteoviridae (1.1%) was the most common viral family harbored by mosquitoes captured during summer and autumn. Myoviridae (7.0% and 1.3%) was the most common viral family in mosquitoes captured in urban areas during all seasons. Hepatitis B virus (HBV) was detected by PCR in a female mosquito pool. The first near full-length HBV genome from Ae. albopictus was amplified, which showed a high level of similarity with human HBV genotype B sequences. Human parechovirus (HPeV) was detected in male and female mosquito pools, and the sequences were clustered with HPeV 1 and 3 sequences. Conclusions Large numbers of viral species were found in adult Ae. albopictus, including viruses from vertebrates, insects, and plants. The viral composition in Ae. albopictus mainly varied between seasons. Herein, we are the first to report the detection of HPeV and HBV in mosquitoes. This study not only provides valuable information for the control and prevention of mosquito-borne diseases, but it also demonstrates the feasibility of xenosurveillance. Graphical Abstract Supplementary Information The online version contains supplementary material available at 10.1186/s13071-021-04922-z.

China is a country located in East Asia. Most of the regions in this country are in the temperate zone, while some southern regions are located in the subtropical and tropical zones [17]. Ae. albopictus is found in nearly one third of the regions in China: south to Hainan Island, north to Shenyang and Dalian, west to Jingshui and Longnan, southwest to the Tibet Autonomous Region, and most regions to the east [18][19][20].
Some mosquito-borne diseases are prevalent in China. Since the first outbreak of dengue fever in 1978, this disease has been a threat for over 40 years in China, especially in southern and southeastern China [21]. Ae. albopictus was the sole vector responsible for some dengue fever outbreaks [22][23][24][25][26]. Outbreaks of chikungunya related to Ae. albopictus have also been reported in China [23,27,28]. Major public health concerns have been raised in China due to these frequent outbreaks [29].
Guangzhou (23°08′N, 113°16′E), the capital city of Guangdong Province, is located in southern China, and it is the fourth most populous city in the entire country [30]. The average annual temperature in Guangzhou is 22-23 °C, and the average rainfall is 1983 mm [31,32]. Ae. albopictus is active in Guangzhou nearly all year round [33]. In 2014, there were 38,036 dengue cases reported in Guangzhou, accounting for 80.8% of all cases in the largest dengue outbreak in mainland China since 1990 [32,34]. In addition, some sporadic cases of imported CHIKV infection were also reported in Guangzhou [35]. There is a great need for mosquito surveillance and control in Guangzhou.
Next-generation sequencing enables efficient detection of known and unknown viruses [36][37][38]. Viruses in Aedes, Culex, Anopheles, and Armigeres mosquitoes have been revealed using these methods. Some known viruses have been detected, such as DENV, ZIKV, and West Nile virus [39][40][41][42][43]. Novel viruses such as the Cuacua virus in Mansonia mosquitoes and the novel orbivirus in Culex fatigans mosquitoes have also been detected [37,44]. Understanding the viral composition in mosquitoes is important for the prevention and control of emerging and reemerging mosquito-borne diseases. However, few studies have used next-generation sequencing methods to investigate the virome in Ae. albopictus [45,46].
In this study, viral metagenomic and polymerase chain reaction (PCR) methods were used to reveal the viral composition in adult Ae. albopictus captured in different areas and during different seasons in Guangzhou City, China.

Sample collection
Between September 2017 and August 2018, adult Ae. albopictus specimens were collected three times per month in rural and urban areas in Guangzhou. The rural areas included Xiongwei and Nanfang villages in the Baiyun district, and the urban areas consisted of the Keyuan community in the Yuexiu district and the Taozhuang community in the Tianhe district. The captured mosquitoes were morphologically identified to determine their species and sex [37]. A total of 3346 adult Ae. albopictus were trapped (Additional file 1: Tables S1 and S2). All samples were stored at −80 °C in tubes containing RNAlater prior to processing.

Laboratory viral metagenomic experiments
According to the collection sites and seasons, mosquitoes were randomly selected and pooled into four samples for viral metagenomic analysis (Additional file 1: Table S1). Pooled samples were homogenized in liquid nitrogen and then suspended in phosphate-buffered saline (PBS) [47,48]. The supernatant was filtered through a 0.22-mm filter, and the filtered samples were then concentrated using centrifugal ultrafiltration tubes. To remove nonparticle-protected nucleic acids, samples were incubated at 37 °C for 2 h with a mixture of DNases and RNase (New England Biolabs, USA). The total DNA and RNA of the pooled specimens was extracted using the MiniBEST Viral RNA/DNA Extraction Kit (TaKaRa, Japan). Reverse transcription was performed using the Transcriptor First Strand cDNA Synthesis Kit (Roche, Switzerland), and the primer used was reported in a previous study [49]. Random PCR was performed using the primer described in a previous study, and the purified PCR products were then obtained using the QIAquick Gel Extraction Kit (Qiagen, Germany) [49]. Libraries were constructed with the TruSeq ™ DNA Sample Prep Kit (Illumina). The libraries were sequenced using the Illumina HiSeq platform at Shanghai Majorbio Bio-Pharm Technology Co., Ltd. (Shanghai, China) with 300-bp paired-end reads.

Bioinformatics analysis of viral metagenomics
The quality score cut-off value was 20, and sequences with ambiguous bases (more than 10 bp N) and short length reads (less than 50 bp) were removed using the Sickle program (https:// github. com/ najos hi/ sickle). To remove host-related sequences, quality reads were aligned with the host genome via BWA [50]. Reads with a high degree of similarity to the hosts' genome were removed in further analyses. The taxonomic assignments were based on the National Center for Biotechnology Information (NCBI) nucleotide (NT) and non-redundant protein sequence (NR) databases, and the functional categories were based on the MetaGene system. In addition, the short reads were assembled using the IDBA-UD algorithm based on the de Bruijn graph approach [51]. The assembled contigs were analyzed based on the NCBI NR database. Phylogenetic analyses were performed using the MEGA 6.0 program with the maximum likelihood method.

Sample collection
A total of 990 mosquitoes were randomly selected for viral metagenomic analysis, and others (2356 Ae. albopictus) were pooled and applied to survey the prevalence and genomic diversity of the viruses using PCR (Additional file 1: Tables S1 and S2).

Data overview of viral metagenomics
An average of 45,012,644 raw reads, 27,464,028 clean reads, 47,002 contigs, and 22,280 open reading frames (ORFs) was obtained for each sample (NCBI SRA number: SRP304029) (Additional file 1: Table S3). The majority of the sequences (over 80%) detected in our study were unidentifiable based on sequence similarity. Larger numbers of viral species were detected in mosquitoes captured during winter and spring as compared to mosquitoes captured during summer and autumn ( Table 1). The viral composition in the mosquitoes mainly varied between seasons ( Figs. 1 and 2).
The viruses detected in Ae. albopictus were specific to vertebrates, invertebrates, plants, fungi, bacteria, and protozoa (Fig. 3). Invertebrate viruses were detected with the highest relative abundance in all groups, especially in the mosquitoes that were captured in summer and autumn. Plant viruses and phage also had high relative abundance in all groups, followed by vertebrate viruses. The relative abundance of vertebrate viruses was lower in the mosquitoes captured in summer and autumn than that of the mosquitoes captured in winter and spring.

Viral composition in Ae. albopictus
In rural areas, Siphoviridae (6.5%), Luteoviridae (4.3%), and Coronaviridae (3.7%) were the top three viral families harbored by the mosquitoes captured in winter and spring, while Luteoviridae (1.17%), Siphoviridae (0.4%), and Flaviviridae (0.4%) were the most common viral families harbored by the mosquitoes captured in summer and autumn (Fig. 4). In urban areas, Myoviridae was the most common viral family in the mosquitoes captured during all seasons (winter and spring: 7.0%; summer and autumn: 1.3%). Siphoviridae (3.8%) and Podoviridae (3.3%) were the second and third most common viral families in mosquitoes that were captured during winter and spring, while Luteoviridae (0.3%) and Siphoviridae (0.3%) were common in mosquitoes captured in summer and autumn. Among the mosquitoes captured in winter and spring, Luteoviridae (4.3%), Siphoviridae (6.5%), Coronaviridae (3.7%), Herpesviridae (1.0%), Poxviridae (0.5%), and Picornaviridae (0.4%) were found with higher relative abundance in mosquitoes captured in rural areas, while Myoviridae (7.0%), Podoviridae (3.3%), and Mimiviridae (2.8%) were more common in mosquitoes captured in urban areas. Higher relative abundance of Flaviviridae (0.4%) and Polydnaviridae (0.2%) was found in mosquitoes captured in rural areas during summer and autumn, while Myoviridae (1.3%), Anelloviridae (0.2%), Picornaviridae (0.1%), and Podoviridae (0.1%) were more common in mosquitoes captured in urban areas during the same seasons. At the genus level, Sobemovirus and Polerovirus were the top two genera in all of the mosquitoes (Fig. 5). Alphacoronavirus ranked third in mosquitoes captured in rural areas during winter and spring, Flavivirus ranked third in mosquitoes captured in rural areas during summer and autumn, and Alphacoronavirus was the third most common viral genus in mosquitoes captured in urban areas during all seasons. In winter and spring, a higher relative abundance of Rhadinovirus (0.9%) was detected in mosquitoes captured in rural areas as compared to mosquitoes captured in urban areas. However, in summer and autumn, Parechovirus (0.1%) was more common in mosquitoes from urban areas, while a higher relative abundance of Sobemovirus (4.8%), Polerovirus (1.1%), Flavivirus (0.4%), and Bracovirus (0.2%) was found in mosquitoes captured in rural areas.
At the species level, Drosophila A virus, Sowbane mosaic virus, and Wheat yellow dwarf virus-GPV were the top three viral species in all of the mosquitoes (Fig. 6) and Megavirus chiliensis (2.1%) were more common in mosquitoes from urban areas. In summer and autumn, Torque teno virus (0.2%) and Rhinovirus C (0.1%) exhibited higher relative abundance in mosquitoes from urban areas, while Aedes flavivirus (0.4%), Small anellovirus (0.1%), and Kamiti River virus (0.1%) exhibited higher relative abundance in mosquitoes from rural areas.

PCR confirmatory testing and phylogenetic analysis
Although Ae. albopictus is one of the dominant vectors of ZIKV, DENV, and CHIKV, none of the Ae. albopictus in our study was positive for these viruses. Some vertebrate viruses in mosquitoes were detected using PCR, including HPeV and HBV, while negative results were found in the detection of coronavirus, herpesvirus, and TTV ( Table 2).
HPeV was detected in seven male and two female mosquito pools. Five of the screening sequences showed a high level of similarity with HPeV 3 sequences, while four sequences were clustered with HPeV 1 (GenBank accession numbers: MW455086-MW455091 and MZ502310-MZ502312) (Fig. 7).
HBV was only detected in one female mosquito pool from an urban area, and a near full-length HBV genome was amplified (TH5-11, GenBank accession number: MW411446). Both the screening sequence and the near full-length genome of HBV were clustered with human HBV genotype B sequences ( Fig. 8a and b). The nearly full-length genome exhibited a high level of similarity  Table S4, Fig. 8b).

Discussion
Mosquito-borne diseases have greatly influenced human health. Aedes albopictus is an invasive animal species, and it is an important reservoir for many arboviruses, including DENV, ZIKV, and CHIKV [5]. Outbreaks of mosquito-borne infectious diseases related to Ae. albopictus have been reported. Because of the active movement of humans and climate change, Ae. albopictus is found in nearly one third of the regions in China [18]. Some mosquito-borne diseases associated with Ae. albopictus, such as dengue fever, are prevalent in China [59], and therefore, understanding the virome in Ae. albopictus is very important for the prevention and control of mosquitoborne diseases. Compared with traditional methods, viral metagenomics is more efficient for viral identification and discovery [60]. Many studies have used viral metagenomics to investigate the viruses in mosquitoes [39,61,62]. However, few studies have focused on Ae. albopictus.
In this study, viral metagenomics was performed to investigate the virome in adult Ae. albopictus captured in different areas and during different seasons in Guangzhou City, Guangdong Province, China. We also investigated the prevalence and genetic diversity of several arboviruses and vertebrate viruses in Ae. albopictus using PCR. To the best of our knowledge, this is the first study to reveal and compare the viral composition in adult Ae. albopictus captured in different areas and during different seasons in Guangzhou, China.
The viral composition in Ae. albopictus varied mainly between seasons, and the viral composition between  Figs. 1 and 2). However, a previous study revealed a significant difference in the viral communities when comparing mosquitoes captured in different regions [61]. The high level of similarity in viral composition between mosquitoes captured in rural and urban areas in our study might be explained by the following: first, we collected the mosquitoes in urban and rural areas in the same city, and the sampling areas are close, with a maximum straight-line distance between Xiongwei village and Keyuan community of 47 km; second, the large population and active movement of humans in Guangzhou facilitated the spread of Ae. albopictus [30].  Large amounts of the sequences detected in the mosquitoes from our study cannot be annotated to known viral species, and this was consistent with the results of a previous study [63]. It seems that Ae. albopictus harbors a large number of novel viruses, and further studies are required to investigate these unknown viruses. Even though there was only a small proportion of detected sequences that could be annotated as known viruses, more than 50 viral families were annotated in adult Ae. albopictus, and these viruses were specific to vertebrates, invertebrates, plants, fungi, bacteria, and protozoa. Invertebrate viruses appeared with the highest relative abundance in all samples of Ae. albopictus, which is consistent with the results for Culex mosquitoes [39]. Large numbers of bacteriophages were detected, including members in Myoviridae, Siphoviridae, and Podoviridae [64]. Plant viruses were also found, such as members in Luteoviridae [65]. Some viruses that can cause diseases in humans and animals were detected, indicating the wide range of blood hosts for Ae. albopictus in Guangzhou.
Low temperatures limit insect development and activity, as well as the replication of viruses in insects [66]. Interestingly, the number of viral species in Ae. albopictus captured in winter and spring was slightly greater than that in Ae. albopictus captured in summer and autumn. In addition, a lower relative abundance of vertebrate viruses was found in Ae. albopictus captured in summer and autumn as compared to that in Ae. albopictus captured in winter and spring. This might be associated with the average winter temperature in Guangzhou (15.9 °C) [67], which is high enough that Ae. albopictus is active all year round in this city. A previous study showed that Ae. albopictus can still feed on humans and animals, and produce eggs in early winter in Guangzhou [68]. In addition, the sex ratio of emerged adults in early winter, such as in November   (female/male = 1.2), is higher than that in some summer months (female/male = 0.71 in August), indicating that there may be a larger proportion of female Ae. albopictus in winter than in summer [68].
PCR or viral metagenomic analysis indicated that none of the samples was positive for ZIKV, DENV, or CHIKV. This is consistent with the prevalence of the relative diseases in human populations: none of the related mosquito-borne diseases were reported in the sampling  In the future, studies should be continued to survey the virome in Ae. albopictus in order to monitor and prevent related mosquito-borne diseases.
Large numbers of vertebrate viruses were detected in our study. Members within Coronaviridae can cause human diseases [69]. Using viral metagenomics, Coronaviridae was found in Ae. albopictus, and it was the most abundant vertebrate viral family in our study. However, none of the samples was positive for it using PCR. This discrepancy might be explained by the high sensitivity of viral metagenomics. A higher relative abundance of Coronaviridae was found in mosquitoes captured during winter and spring. Interestingly, the circulation of coronaviruses in human and animal populations in Guangzhou City also exhibited a peak of coronavirus infection in winter and spring [70]. It seems that xenosurveillance is feasible, and the relative abundance of Coronaviridae in Ae. albopictus can provide some information regarding the disease prevalence in human populations. Bat coronavirus Trinidad/1CO7BA/2007 was the only species detected within Coronaviridae. This virus was first detected in bats in America [71]. Its detection in Ae. albopictus indicated that this virus had already spread to the bats in Guangzhou, China. Some pathogenetic coronaviruses might have originated from bats [72], and therefore, studies on these animals is necessary to prevent the transmission of emerging viruses.
A previous study reported the detection of Herpesviridae in Culex mosquitoes [61]. In our study, Herpesviridae was the second most abundant vertebrate viral family in Ae. albopictus. Different species of herpesviruses were detected, including Ateline herpesvirus 3, Macacine herpesvirus 1, Caviid herpesvirus 2, Gallid herpesvirus 1, Human herpesvirus 6, and Human herpesvirus 6B, suggesting that many animals in Guangzhou were infected by herpesviruses. Like Coronaviridae, a higher relative abundance of Herpesviridae was found in Ae. albopictus captured in winter and spring than that in Ae. albopictus captured in summer and autumn, which might be explained by the seasonal dynamics of herpesviruses in human and animal populations [73].
Sequences annotated as Anelloviridae have been detected in other species of mosquitoes, such as Anopheles mosquitoes [62]. Three members of Anelloviridae were annotated in our study, including Torque teno virus, Small anellovirus, and Torque teno sus virus 1a, indicating that humans and pigs in Guangzhou were infected by anelloviruses. However, PCR results indicated that none of the mosquito pools was positive for TTV, which might also be explained by the high sensitivity of viral metagenomics. The pathogenicity of TTV is still unknown, but it is prevalent in humans [74], and mother-to-infant vertical transmission of this virus is known to occur [75]. Studies should be performed to investigate the relationship between TTV and human diseases. Pigs are often co-infected with torque teno sus virus and other viruses, especially the porcine circovirus, and it may pose a potential threat to swine herds [39].
Like Coronaviridae and Herpesviridae, a higher relative abundance of Picornaviridae was also found in mosquitoes captured in winter and spring. A similar seasonal pattern for picornaviruses was found in some blood hosts of Ae. albopictus [76]. Three viral species within Picornaviridae were detected, including Human parechovirus, Rhinovirus C, and Oscivirus A. HPeV and rhinovirus C are human pathogenic viruses related to gastrointestinal diseases and respiratory diseases, respectively [77]. It seems that humans in Guangzhou were infected by parechovirus and rhinovirus, and it would be a worthy endeavor to further study these viruses for disease prevention and control. Osciviruses originate from amphibians and birds [78,79], suggesting that Ae. albopictus also feeds on these animals. The PCR results indicated that nine pooled samples were positive for HPeV. The HPeV sequences obtained in our study were clustered with HPeV 1 and 3 sequences. HPeV 1 can cause acute gastroenteritis, and it is the most frequently identified member within the genus Parechovirus [80][81][82]. Disease outbreak related to HPeV 3 has been reported in humans [83]. To prevent the relative diseases in Guangzhou, mosquito surveillance is beneficial because it can provide rapid identification of the spread of emerging HPeV types. In our study, most of the HPeV sequences were detected in male mosquitoes. Male Ae. albopictus do not need a blood meal, and it was unlikely that they acquired this virus from humans by mosquito bite. Male Ae. albopictus might have acquired HPeV by vertical transmission or from the environment, such as from raw sewage [84]. However, there is no evidence indicating that HPeV can be transmitted vertically. Thus, it is likely that the HPeV in male Ae. albopictus was obtained from the environment. Surveillance of the virome in mosquitoes not only provides data that reflects the viral infection status in humans and animals, but also provides information regarding the viruses in the environment.
Hepatitis B virus was the only viral species within Hepadnaviridae detected by viral metagenomics. A higher relative abundance of Hepatitis B virus was found in mosquitoes captured during winter and spring than that in mosquitoes captured during summer and autumn, which may be explained by the seasonal fluctuations in HBV DNA levels in humans [85]. PCR results indicated that one female mosquito pool collected in an urban area was positive for HBV, and the first near fulllength genome of HBV (TH5-11) from mosquitoes was amplified. The screening sequence and the near fulllength genome showed a high level of similarity with human HBV genotype B sequences. A previous study reported that HBV genotype B is common in Asia [86], and the results in our study similarly indicated that HBV genotype B is prevalent in humans in Guangzhou. Mosquito bites may transmit HBV to laboratory animals [87]. However, up until now, there is no evidence showing that mosquitoes can transmit HBV to humans. Even though we amplified the near full-length genome of HBV in the current study, the most likely explanation for this detection is that the mosquitoes fed on HBV-infected humans. Experiments are needed to determine the role of Ae. albopictus in HBV transmission.
This research can further our understanding of the virome in adult Ae. albopictus in Guangzhou City. We also demonstrated that there is a wide circulation of diverse vertebrate viruses in Ae. albopictus. In addition, the relative abundance of vertebrate viruses in Ae. albopictus was in accordance with the disease prevalence in humans and animals, suggesting that surveillance of the virome in adult Ae. albopictus not only provides information to prevent mosquito-borne diseases but also forms a framework for the surveillance, prevention, and control of other human diseases. Surveillance of the virome in Ae. albopictus can also provide information regarding the viruses in the environment.
There are some limitations to our study. First, we did not pool the mosquitoes by sex in our viral metagenomic studies, which might affect the viral community composition within them. Second, midgut and salivary gland dissections were not performed to identify where the viruses were located. Third, the head, legs, and wings of the mosquitoes were not removed in our study. In the future, mosquito heads, legs, and wings should be removed to prevent PCR inhibition and reduce the host genome. Our findings should be confirmed by more rigorous studies with larger sample sizes.

Conclusions
This study revealed the viral composition of adult Ae. albopictus captured in different areas and during different seasons in Guangzhou City. The viral composition in Ae. albopictus varied mainly between seasons. A higher relative abundance of some vertebrate viruses was found in the mosquitoes trapped in winter and spring, which was consistent with the seasonal patterns of the related viruses in humans and animals. HPeV and HBV were detected in Ae. albopictus using PCR. Although the first near full-length genome of HBV from Ae. albopictus was amplified, additional research is still needed to decipher whether Ae. albopictus plays a role in the transmission of HBV. In the future, surveillance of the virome in Ae. albopictus should be continued to provide information for the prevention and control of mosquito-borne diseases. In addition, xenosurveillance is feasible, and the surveillance of the virome in Ae. albopictus can also form a framework for surveillance, prevention, and control of other human diseases.
Additional file 1: Table S1. Mosquitoes pooled for viral metagenomic analysis. Table S2. Mosquito pools for viral detection using PCR. Table S3. Sequencing results of viral metagenomics Additional file 2: Table S4. Nucleotide sequence identity for the near full-length genomic sequences of hepatitis B virus (HBV) from Aedes albopictus, humans, bats and woodchuck.