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Xiong Q, Sopko B, Klimov PB, Hubert J. A novel Bartonella-like bacterium forms an interdependent mutualistic symbiosis with its host, the stored-product mite Tyrophagus putrescentiae. mSystems 2024; 9:e0082923. [PMID: 38380907 PMCID: PMC10949449 DOI: 10.1128/msystems.00829-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2023] [Accepted: 01/31/2024] [Indexed: 02/22/2024] Open
Abstract
A novel Bartonella-like symbiont (BLS) of Tyrophagus putrescentiae was characterized. BLS formed a separate cluster from the Bartonella clade together with an ant symbiont. BLS was present in mite bodies (103 16S DNA copies/mite) and feces but was absent in eggs. This indicated the presence of the BLS in mite guts. The BLS showed a reduction in genome size (1.6 Mb) and indicates gene loss compared to Bartonella apis. The BLS can be interacted with its host by using host metabolic pathways (e.g., the histidine and arginine metabolic pathways) as well as by providing its own metabolic pathways (pantothenate and lipoic acid) to the host, suggesting the existence of a mutualistic association. Our experimental data further confirmed these potential mutualistic nutritional associations, as cultures of T. putrescentiae with low BLS abundance showed the strongest response after the addition of vitamins. Despite developing an arguably tight dependency on its host, the BLS has probably retained flagellar mobility, as evidenced by the 32 proteins enriched in KEGG pathways associated with flagellar assembly or chemotaxis (e.g., fliC, flgE, and flgK, as highly expressed genes). Some of these proteins probably also facilitate adhesion to host gut cells. The microcin C transporter was identified in the BLS, suggesting that microcin C may be used in competition with other gut bacteria. The 16S DNA sequence comparison indicated a mite clade of BLSs with a broad host range, including house dust and stored-product mites. Our phylogenomic analyses identified a unique lineage of arachnid specific BLSs in mites and scorpions.IMPORTANCEA Bartonella-like symbiont was found in an astigmatid mite of allergenic importance. We assembled the genome of the bacterium from metagenomes of different stored-product mite (T. putrescentiae) cultures. The bacterium provides pantothenate and lipoic acid to the mite host. The vitamin supply explains the changes in the relative abundance of BLSs in T. putrescentiae as the microbiome response to nutritional or pesticide stress, as observed previously. The phylogenomic analyses of available 16S DNA sequences originating from mite, scorpion, and insect samples identified a unique lineage of arachnid specific forming large Bartonella clade. BLSs associated with mites and a scorpion. The Bartonella clade included the previously described Ca. Tokpelaia symbionts of ants.
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Affiliation(s)
- Qing Xiong
- School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong, China
- Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Hong Kong, China
| | | | - Pavel B. Klimov
- Purdue University, Lilly Hall of Life Sciences, West Lafayette, Indiana, USA
| | - Jan Hubert
- Department of Microbiology, Nutrition and Dietetics, Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Prague, Czechia
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Erban T, Sopko B, Klimov PB, Hubert J. Mixta mediterraneensis as a novel and abundant gut symbiont of the allergen-producing domestic mite Blomia tropicalis. EXPERIMENTAL & APPLIED ACAROLOGY 2024; 92:161-181. [PMID: 38227156 DOI: 10.1007/s10493-023-00875-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Accepted: 12/12/2023] [Indexed: 01/17/2024]
Abstract
Blomia tropicalis is an allergen-producing mite in the human environment in tropical regions. The microbiome of B. tropicalis was described using the barcode sequencing region of V4 16S rDNA and genome assemblage. Mixta mediterraneensis, previously isolated from human skin swabs, was identified as a B. tropicalis gut symbiont based on genome assembly. The microbiome contains two bacteria, Staphylococcus and M. mediterraneensis. The number of M. mediterraneensis 16S DNA copies was 106 per mite and 109 per feces in the rearing chamber based on qPCR quantification. The profile of this bacterium reached 50% of reads in the mite gut and feces. Genomic analyses revealed that the bacterium has several metabolic pathways that suggest metabolic cooperation with the mite host in vitamin and amino acid synthesis, nitrogen recycling, and antimicrobial defense. Lysozyme is present in the symbiotic bacterium but absent in the mite. The B. tropicalis microbiome contained Staphylococcus, which accelerates mite population growth. Mites can digest Staphylococcus by using specific enzymes with hydrolytic functions against bacterial cell walls (chitinases and cathepsin D), leading to endocytosis of bacteria and their degradation in lysosomes and phagosomes. Gene expression analysis of B. tropicalis indicated that phagocytosis was mediated by the PI3-kinase/Akt pathway interacting with the invasins produced by M. mediterraneensis. Moreover, the symbiont had metabolic pathways that allowed it to recycle the mite metabolic waste product guanine, known as a mite attractant. The mite host symbiont enhances mite aggregation in the feces, and the fecal-oral transmission route is excepted.
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Affiliation(s)
- Tomas Erban
- Crop Research Institute, Drnovska 507/73, 161 06, Prague 6 - Ruzyne, Czechia
| | - Bruno Sopko
- Crop Research Institute, Drnovska 507/73, 161 06, Prague 6 - Ruzyne, Czechia
| | - Pavel B Klimov
- Purdue University, Lilly Hall of Life Sciences, G-225, 915 W State St, West Lafayette, IN, 47907, USA
| | - Jan Hubert
- Crop Research Institute, Drnovska 507/73, 161 06, Prague 6 - Ruzyne, Czechia.
- Department of Microbiology, Nutrition and Dietetics, Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Kamycka 129, 165 00, Prague 6 - Suchdol, Czechia.
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Calzada D, Martín-López L, Carnés J. Growth, allergen profile and microbiome studies in Dermatophagoides pteronyssinus cultures. Sci Rep 2023; 13:10633. [PMID: 37391439 PMCID: PMC10313659 DOI: 10.1038/s41598-023-37045-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Accepted: 06/14/2023] [Indexed: 07/02/2023] Open
Abstract
Mites are mass-cultured to manufacture allergen extracts for allergy diagnostics and therapeutic treatment. This study focused on characterizing the growth, the allergen profile, and the microbiome of Dermatophagoides pteronyssinus cultures. Mite population, protein profile, total protein content and major allergen levels (Der p 1, Der p 2, Der p 23) were monitored at different times of three independent cultures. The allergenicity was studied by immunoblot using a pool of sera from allergic patients. Mite microbiome was characterized by sequencing the 16S rRNA gene from 600 adult mites from the last day of the culture. Endotoxin content was also analyzed. The cultures had a fast and unrelenting evolution. Mite density, total protein content, major allergen levels and the allergenicity were increased progressively during the cultures. Regarding the microbiome studies, the results confirm the presence of non-pathogenic bacteria, being firmicutes and actinobacteria the most common bacterial taxa, with a very low content of Gram-negative bacteria and endotoxin content. The allergenicity and levels of the main allergens in the mite cultures are objective methods useful to monitor the mite culture that help to produce standardized allergen extracts. The high presence of Gram-positive bacteria found limits the possibility for vaccine contamination by bacterial endotoxins.
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Affiliation(s)
- D Calzada
- R&D Unit, Allergy & Immunology, LETI Pharma S.L.U., Calle del Sol nº 5, Tres Cantos, 28760, Madrid, Spain
| | - L Martín-López
- R&D Unit, Allergy & Immunology, LETI Pharma S.L.U., Calle del Sol nº 5, Tres Cantos, 28760, Madrid, Spain
| | - Jerónimo Carnés
- R&D Unit, Allergy & Immunology, LETI Pharma S.L.U., Calle del Sol nº 5, Tres Cantos, 28760, Madrid, Spain.
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Kim J, Lee JH, Song Y, Kim HJ. Effect of indoor house dust mite concentration on canine atopic dermatitis. Front Vet Sci 2023; 10:1078306. [PMID: 36816188 PMCID: PMC9932715 DOI: 10.3389/fvets.2023.1078306] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Accepted: 01/16/2023] [Indexed: 02/05/2023] Open
Abstract
Introduction House dust mites (HDM) are regarded as essential environmental allergens not only in human, but also in canine atopic dermatitis (CAD), however, there are only a few studies on the influence of indoor HDM concentration on the disease. Methods Our study analyzed the correlation between the indoor HDM concentration, the severity of CAD, and the residential environments in client-owned 35 AD and 13 healthy dogs. We measured the extent of CAD and severity index-04 (CADESI-04), pruritus visual analog scale (PVAS), and transepidermal water loss (TEWL), indoor relative humidity (RH) and analyzed the residential environment questionnaires to evaluate AD severity. Results The Der f 1 concentration had an inverse association with TEWL, and no association with CADESI-04 and PVAS. The Der f 1 concentration was significantly high in the group living near the green area and 40% or higher RH. Discussion Our results suggest two possibilities: (1) Living around green areas and maintaining an appropriate indoor climate may help to improve CAD clinical symptoms. (2) The HDM may contain endotoxin and when present in high concentrations in CAD, they play a preventive role by enhancing the skin barrier function. Further studies with a larger number of dogs may help further elucidate an association between CAD and Der f 1.
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Affiliation(s)
- Jihee Kim
- Department of Internal Medicine, College of Veterinary Medicine, Chonnam National University, Gwangju, Republic of Korea
| | - Ji-Hye Lee
- Department of Internal Medicine, College of Veterinary Medicine, Chonnam National University, Gwangju, Republic of Korea,BK 21 Project Team, College of Veterinary Medicine, Chonnam National University, Gwangju, Republic of Korea
| | - Yunji Song
- Department of Internal Medicine, College of Veterinary Medicine, Chonnam National University, Gwangju, Republic of Korea,BK 21 Project Team, College of Veterinary Medicine, Chonnam National University, Gwangju, Republic of Korea
| | - Ha-Jung Kim
- Department of Internal Medicine, College of Veterinary Medicine, Chonnam National University, Gwangju, Republic of Korea,BK 21 Project Team, College of Veterinary Medicine, Chonnam National University, Gwangju, Republic of Korea,*Correspondence: Ha-Jung Kim ✉
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Vackova T, Pekar S, Klimov PB, Hubert J. Population growth and respiration in the dust mite Dermatophagoides farinae under different temperature and humidity regimes. EXPERIMENTAL & APPLIED ACAROLOGY 2023; 89:157-169. [PMID: 36723778 DOI: 10.1007/s10493-022-00775-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2022] [Accepted: 12/30/2022] [Indexed: 06/18/2023]
Abstract
Dermatophagoides farinae is an important house dust mite species that causes allergies in humans worldwide. In houses, these mites are commonly found in actively used mattresses and pillows, which provide food (i.e. sloughed skin and microorganisms), moisture, and increased temperature for faster mite development. In mattresses, feeding mites prefer the upper sector, as close as possible to the resting human (temperature 32-36 °C, humidity between 55 and 59%). However, mites that are not actively feeding prefer staying at deeper zones of the mattress. Here, we analyzed mite responses to different temperatures (15-35 °C) and relative humidity (62-94% RH) in terms of their population size growth and respiration (CO2 production) using lab mite cultures. The intrinsic rate of population increase had a single maximum at approximately 28 °C and 85% RH. At 30 °C, there were two respiration peaks at RH 90% (smaller peak) and 65% (larger peak). Therefore, there is a mismatch between the optimal temperature/humidity for the population size increase vs. respiration. We propose preliminary hypotheses explaining the two respiration peaks and suggest that future research should be done to elucidate the nature of these peaks.
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Affiliation(s)
- Tereza Vackova
- Crop Research Institute, Drnovska 507/73, 161 06, Prague 6 - Ruzyne, Czechia
- Department of Parasitology, Faculty of Science, Charles University, Vinicna 1594/7, 128 44, Prague 2 - New Town, Czechia
| | - Stano Pekar
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlarska 267/2, 611 37, Brno, Czechia
| | - Pavel B Klimov
- Lilly Hall of Life Sciences, Purdue University, G-225, 915 W State St, West Lafayette, IN, 47907, USA
- X-Bio Institute, Tyumen State University, 10 Semakova Str., 625003, Tyumen, Russia
| | - Jan Hubert
- Crop Research Institute, Drnovska 507/73, 161 06, Prague 6 - Ruzyne, Czechia.
- Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Kamycka 129, 165 00, Prague 6 - Suchdol, Czechia.
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Woo C, Bhuiyan MIU, Kim D, Kumari P, Lee SK, Park JY, Dong K, Lee K, Yamamoto N. DNA metabarcoding-based study on bacteria and fungi associated with house dust mites (Dermatophagoides spp.) in settled house dust. EXPERIMENTAL & APPLIED ACAROLOGY 2022; 88:329-347. [PMID: 36301451 DOI: 10.1007/s10493-022-00755-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2022] [Accepted: 10/12/2022] [Indexed: 06/16/2023]
Abstract
House dust mites (HDMs) including Dermatophagoides spp. are an important cause of respiratory allergies. However, their relationship with microorganisms in house dust has not been fully elucidated. Here, we characterized bacteria and fungi associated with HDMs in house dust samples collected in 107 homes in Korea by using DNA barcode sequencing of bacterial 16S rRNA gene, fungal internal transcribed spacer 2 (ITS2) region, and arthropod cytochrome c oxidase I (COI) gene. Our inter-kingdom co-occurrence network analysis and/or indicator species analysis identified that HDMs were positively related with a xerophilic fungus Wallemia, mycoparasitic fungi such as Cystobasidium, and some human skin-related bacterial and fungal genera, and they were negatively related with the hygrophilous fungus Cephalotrichum. Overall, our study has succeeded in adding novel insights into HDM-related bacteria and fungi in the house dust ecosystem, and in confirming the historically recognized fact that HDMs are associated with xerophilic fungi such as Wallemia. Understanding the microbial ecology in house dust is thought to be important for elucidating the etiology of human diseases including allergies, and our study revealed baseline information of house dust ecology in relation to HDMs. The findings could be useful from a perspective of human health.
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Affiliation(s)
- Cheolwoon Woo
- Department of Environmental Health Sciences, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
| | - Mohammad Imtiaj Uddin Bhuiyan
- Department of Environmental Health Sciences, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
| | - Donghyun Kim
- Department of Environmental Health Sciences, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
| | - Priyanka Kumari
- Department of Environmental Health Sciences, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
- Institute of Health and Environment, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
| | - Seung-Kyung Lee
- Department of Environmental Health Sciences, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
- Institute of Health and Environment, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
| | - Ji Young Park
- Institute of Health and Environment, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
| | - Ke Dong
- Major of Life Science, College of Natural Sciences, Kyonggi University, Suwon, 16227, Republic of Korea
| | - Kiyoung Lee
- Department of Environmental Health Sciences, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
- Institute of Health and Environment, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea
| | - Naomichi Yamamoto
- Department of Environmental Health Sciences, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea.
- Institute of Health and Environment, Graduate School of Public Health, Seoul National University, Seoul, 08826, Republic of Korea.
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Li Z, Zheng N, An Q, Li X, Sun S, Zhang W, Ji Y, Wang S, Li P. Impact of environmental factors and bacterial interactions on dust mite allergens in different indoor dust. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 844:157177. [PMID: 35803427 DOI: 10.1016/j.scitotenv.2022.157177] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2022] [Revised: 06/11/2022] [Accepted: 07/01/2022] [Indexed: 06/15/2023]
Abstract
Indoor dust is the main carrier of indoor pollutants, especially dust mite allergens and bacteria, they can trigger asthma, rhinitis, eczema and other allergic diseases. However, the interactions between dust mite allergens and bacterial communities in different types of indoor dust are not clear. The study focused on particulate and flocculent fibrous dust, explored the concentrations of Der p 1 (Dermatophagoides pteronyssinus) and Der f 1 (D. farinae) in 46 households in Changchun and their environmental influences, characterized the bacterial communities by high-throughput sequencing, and the interactions between Der p 1, Der f 1 and bacterial communities were explored. The results showed that Der p 1 and Der f 1 tended to accumulate more in flocculent fibrous dust, and Der p 1 predominated in the indoor dust samples. The floor height, years of housing occupancy and the living areas all affected the concentrations of dust mite allergens. In bacterial community, Proteobacteria, Firmicutes and Actinobacteria were leading phyla in the two types of dust. Kocuria, Blastococcus and Massilia were dominating genera in particulate dust and Acinetobacter, Lactobacillus, Corynebacterium_1 were dominating genera in flocculent fibrous dust. The overall diversity and species richness of bacteria in particulate dust were significantly higher than those in flocculent dust (p < 0.001). The living area was an important environmental factor affecting the bacterial community in flocculent fibrous dust (p < 0.01). The interaction between the relative abundance of Proteobacteria, Firmicutes and Actinobacteria and dust mite allergen concentrations significantly differed between the two dust types, indicating that bacteria could be used both as food and to establish symbiotic relationships with household dust mites (HDMs) hosts and provide nutrition.
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Affiliation(s)
- Zimeng Li
- College of New Energy and Environment, Jilin University, Changchun, 130012, China
| | - Na Zheng
- College of New Energy and Environment, Jilin University, Changchun, 130012, China; Key Laboratory of Groundwater Resources and Environment, Ministry of Education, Jilin University, Changchun, 130012, China.
| | - Qirui An
- College of New Energy and Environment, Jilin University, Changchun, 130012, China
| | - Xiaoqian Li
- College of New Energy and Environment, Jilin University, Changchun, 130012, China
| | - Siyu Sun
- College of New Energy and Environment, Jilin University, Changchun, 130012, China
| | - Wenhui Zhang
- College of New Energy and Environment, Jilin University, Changchun, 130012, China
| | - Yining Ji
- College of New Energy and Environment, Jilin University, Changchun, 130012, China
| | - Sujing Wang
- College of New Energy and Environment, Jilin University, Changchun, 130012, China
| | - Pengyang Li
- College of New Energy and Environment, Jilin University, Changchun, 130012, China
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Hubert J, Navratilova B, Sopko B, Nesvorna M, Phillips TW. Pesticide residue exposure provides different responses of the microbiomes of distinct cultures of the stored product pest mite Acarus siro. BMC Microbiol 2022; 22:252. [PMID: 36261789 PMCID: PMC9580201 DOI: 10.1186/s12866-022-02661-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Accepted: 10/04/2022] [Indexed: 11/15/2022] Open
Abstract
Background The contribution of the microbiome to pesticide breakdown in agricultural pests remains unclear. We analyzed the effect of pirimiphos-methyl (PM) on four geographically different cultures of the stored product pest mite Acarus siro (6 L, 6Tu, 6Tk and 6Z) under laboratory experiments. The effect of PM on mite mortality in the impregnated filter paper test was compared. Results The mite sensitivity to PM decreased in the order of 6 L, 6Tu, 6Tk, and 6Z. Then, the mites were cultured on PM residues (0.0125 and 1.25 µg·g−1), and population growth was compared to the control after 21 days of exposure. The comparison showed two situations: (i) increasing population growth for the most sensitive cultures (6 L and 6Tu), and (ii) no effect on mite population growth for tolerant cultures (6Z and 6Tk). The microbiome of mites was analyzed by quantification of 16S DNA copies based on quantitative polymerase chain reaction (qPCR) and by barcode sequencing of the V4 fragment of 16S DNA on samples of 30 individuals from the control and PM residues. The microbiome comprised primarily Solitalea-like organisms in all cultures, except for 6Z, followed by Bacillus, Staphylococcus, and Lactobacillus. The microbiomes of mite cultures did not change with increasing population density. The microbiome of cultures without any differences in population density showed differences in the microbiome composition. A Sodalis-like symbiont replaced Solitalea in the 1.25 µg·g−1 PM in the 6Tk culture. Sodalis and Bacillus prevailed in the microbiomes of PM-treated mites of 6Z culture, while Solitalea was almost absent. Conclusion The results showed that the microbiome of A. siro differs in composition and in response to PM residues in the diet. The results indicate that Sodalis-like symbionts can help recover mites from pesticide-induced stress. Supplementary Information The online version contains supplementary material available at 10.1186/s12866-022-02661-4.
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Affiliation(s)
- Jan Hubert
- Crop Research Institute, Drnovska 507/73, 16106, Prague 6 - Ruzyne, Czechia. .,Department of Microbiology, Nutrition and Dietetics, Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Kamycka 129, 165 00, Prague 6 - Suchdol, Czechia.
| | - Blanka Navratilova
- Crop Research Institute, Drnovska 507/73, 16106, Prague 6 - Ruzyne, Czechia.,Department of Ecology, Faculty of Science, Charles University, Vinicna 1594/7, CZ-128 44, Prague 2 - New Town, Czechia
| | - Bruno Sopko
- Crop Research Institute, Drnovska 507/73, 16106, Prague 6 - Ruzyne, Czechia
| | - Marta Nesvorna
- Crop Research Institute, Drnovska 507/73, 16106, Prague 6 - Ruzyne, Czechia
| | - Thomas W Phillips
- Department of Entomology, Kansas State University, Manhattan, KS, 66506, USA
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Oliveira AS, Gaspar C, Rolo J, Pereira CC, Palmeira-de-Oliveira R, Teixeira JP, Martinez-de-Oliveira J, Palmeira-de-Oliveira A. Development of a new multiplex PCR to detect prevalent species of house dust mites in house dust. INTERNATIONAL JOURNAL OF ENVIRONMENTAL HEALTH RESEARCH 2022; 32:1500-1512. [PMID: 33685302 DOI: 10.1080/09603123.2021.1893282] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2020] [Accepted: 02/17/2021] [Indexed: 06/12/2023]
Abstract
Dermatophagoides pteronyssinus and Dermatophagoides farinae are the most common House Dust Mite (HDM) species in home environments worldwide and responsible for HDM allergy. Since the prevalence of HDM-related clinical conditions is linked to exposure to the mite itself, the detection of HDM in the human households gains importance. We aimed to develop a fast and accessible multiplex PCR to detect and distinguish two relevant HDM species in house dust. New primers were designed, and sensitivity analysis was performed. Sequencing of PCR products was also performed to confirm the method's specificity. The limit of detection of the multiplex PCR for both species was as low as 30 pg µL-1. The application of the multiplex PCR to dust samples also resulted in the identification of both species with high sensitivity. The protocol required small amount of template, reagents and a short reaction time thus presenting an alternative to classically used techniques for HDM identification.
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Affiliation(s)
- Ana Sofia Oliveira
- Health Sciences Research Centre (CICS-UBI), University of Beira Interior Av. Infante D. Henrique, Covilhã, Portugal
- Faculty of Health Sciences,University of Beira Interior, Av. Infante D. Henrique, Covilhã, Portugal
| | - Carlos Gaspar
- Health Sciences Research Centre (CICS-UBI), University of Beira Interior Av. Infante D. Henrique, Covilhã, Portugal
- Faculty of Health Sciences,University of Beira Interior, Av. Infante D. Henrique, Covilhã, Portugal
- Labfit - Health Products Research and Development Lda, UBImedical, Estrada Nacional, Covilhã, Portugal
| | - Joana Rolo
- Health Sciences Research Centre (CICS-UBI), University of Beira Interior Av. Infante D. Henrique, Covilhã, Portugal
| | - Cristiana Costa Pereira
- National Institute of Health,Environmental Health Department, Rua Alexandre Herculano, Porto, Portugal
- EPIUnit, EPIUnit - Instituto de Saúde Pública da Universidade do Porto, Rua das Taipas, Porto, Portugal
| | - Rita Palmeira-de-Oliveira
- Health Sciences Research Centre (CICS-UBI), University of Beira Interior Av. Infante D. Henrique, Covilhã, Portugal
- Labfit - Health Products Research and Development Lda, UBImedical, Estrada Nacional, Covilhã, Portugal
- fCNC - Center for Neurosciences and Cell Biology, Center for Innovative Biomedicine and Biotechnology (CIBB), University of Coimbra, Faculty of Medicine (Polo 1), Rua Larga, Coimbra, Portugal
| | - João Paulo Teixeira
- National Institute of Health,Environmental Health Department, Rua Alexandre Herculano, Porto, Portugal
- EPIUnit, EPIUnit - Instituto de Saúde Pública da Universidade do Porto, Rua das Taipas, Porto, Portugal
| | - José Martinez-de-Oliveira
- Health Sciences Research Centre (CICS-UBI), University of Beira Interior Av. Infante D. Henrique, Covilhã, Portugal
- Faculty of Health Sciences,University of Beira Interior, Av. Infante D. Henrique, Covilhã, Portugal
| | - Ana Palmeira-de-Oliveira
- Health Sciences Research Centre (CICS-UBI), University of Beira Interior Av. Infante D. Henrique, Covilhã, Portugal
- Faculty of Health Sciences,University of Beira Interior, Av. Infante D. Henrique, Covilhã, Portugal
- Labfit - Health Products Research and Development Lda, UBImedical, Estrada Nacional, Covilhã, Portugal
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Zheng F, An XL, Zhou GW, Zhu D, Neilson R, Chen B, Yang XR. Mite gut microbiome and resistome exhibited species-specific and dose-dependent effect in response to oxytetracycline exposure. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 807:150802. [PMID: 34626628 DOI: 10.1016/j.scitotenv.2021.150802] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/13/2021] [Revised: 09/30/2021] [Accepted: 10/01/2021] [Indexed: 06/13/2023]
Abstract
The importance of the gut microbiome to host health is well recognized, but the effects of environmental pressures on the gut microbiome of soil fauna are poorly understood. Here, Illumina sequencing and high-throughput qPCR were applied to characterize the gut microbiomes and resistomes of two mites, Nenteria moseri and Chiropturopoda sp. AL5866, exposed to different concentrations of oxytetracycline (0, 0.01, 0.1 and 1 μg mg-1). Proteobacteria, Bacteroidetes, Actinobacteria and Firmicutes were the dominant phyla in the gut microbiomes of both studied mite species, but the relative abundance of them was different between mites. After exposure to oxytetracycline, there was no variation in the gut microbiome and resistome of C. sp. AL5866, whereas the gut microbiome and resistome of N. moseri were altered significantly. The relative abundance of Proteobacteria significantly decreased, and those of Bacteroidetes and Firmicutes significantly increased at the high-concentration antibiotic treatments. Excepting the 0.01 μg mg-1 treatment, gut microbial diversity increased with ascending concentrations. A significant resistome enrichment of relative abundance in N. moseri gut microbiome at low-dose antibiotic treatment was noted. These results indicated that the gut microbiome in N. moseri was potentially more sensitive to antibiotics than C. sp. AL5866, which was supported by the greater relative abundance of key tetracycline-resistant genes in the gut microbiome of C. sp. AL5866 compared to N. moseri. Mite gut microbiomes were correlated with their associated resistomes, demonstrating the consistent changes between microbiome and resistome. Thus, this study showed that oxytetracycline amendment resulted in a dose-dependent and species-specific effect on the gut microbiomes and resistomes of two mite species. It will contribute to understanding the relationship between the soil mite gut microbiome and resistome under antibiotic exposure, and extend our knowledge regarding the emergence and transfer of resistomes in soil food webs.
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Affiliation(s)
- Fei Zheng
- School of Life Sciences, Hebei University, Baoding 071002, China; Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China
| | - Xin-Li An
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China; University of the Chinese Academy of Sciences, 19A Yuquan Road, Beijing 100049, China
| | - Guo-Wei Zhou
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China; School of Resources and Environmental Engineering, Anhui University, Hefei 230601, China
| | - Dong Zhu
- University of the Chinese Academy of Sciences, 19A Yuquan Road, Beijing 100049, China; State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Roy Neilson
- Ecological Sciences, The James Hutton Institute, DD2 5DA, Scotland, UK
| | - Bing Chen
- School of Life Sciences, Hebei University, Baoding 071002, China
| | - Xiao-Ru Yang
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China; University of the Chinese Academy of Sciences, 19A Yuquan Road, Beijing 100049, China.
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11
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Wu Z, Lyu H, Ma X, Ren G, Song J, Jing X, Liu Y. Comparative effects of environmental factors on bacterial communities in two types of indoor dust: Potential risks to university students. ENVIRONMENTAL RESEARCH 2022; 203:111869. [PMID: 34411549 DOI: 10.1016/j.envres.2021.111869] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2020] [Revised: 08/02/2021] [Accepted: 08/07/2021] [Indexed: 06/13/2023]
Abstract
University students are constantly exposed to potential bacterial pathogens and environmental pollutants in indoor environment because they spend most of their time indoors. University dormitory and printing shop are two typical indoor environments frequented by university students. However, little is known about the characteristics of bacterial community as well as the effect of indoor environmental factors on them. 16S rRNA gene sequencing was used to reveal the bacterial community in indoor dust, electronic devices were recorded during dust sampling, and polybrominated diphenyl ethers (PBDEs) were detected by gas chromatography mass spectrometry (GC-MS). Proteobacteria, Actinobacteria and Firmicutes were leading phyla, and Acinetobacter, Paracoccus and Kocuria were dominating genera. The predominant genera showed Acinetobacter > Paracoccus > unidentified Corynebacteriaceae in indoor dusts from university dormitories, whereas Paracoccus > unidentified Cyanobacteria > Acinetobacter in printing shops. The occurrence of Acinetobacter, Kocuria, Corynebacterium, Pseudomonas, and Bacillus suggested the health risks of potential pathogenic bacteria to university students. Significant differences of microbial composition and diversity were proved between university dormitories and printing shops. Chemoheterotrophy and aerobic chemoheterotrophy were dominant bacterial functions, and the seven primary bacterial functions displayed university dormitory > printing shop. BDE 138 and BDE 66 were main environmental parameters affecting the indoor dust bacterial community in university dormitory, while printer and BDE 47 played dominating role in shaping microorganism in printing shop. The complex biotic (potential bacterial pathogens) and abiotic factors (electronic equipment and chemical pollutants) in indoor dusts may pose potential health risks to university students.
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Affiliation(s)
- Zhineng Wu
- School of Energy and Environmental Engineering, Hebei University of Technology, Tianjin, 300401, China; School of Public Health, Xinxiang Medical University, Xinxiang, 453003, China
| | - Honghong Lyu
- School of Energy and Environmental Engineering, Hebei University of Technology, Tianjin, 300401, China
| | - Xiaodong Ma
- School of Energy and Environmental Engineering, Hebei University of Technology, Tianjin, 300401, China.
| | - Gengbo Ren
- School of Energy and Environmental Engineering, Hebei University of Technology, Tianjin, 300401, China
| | - Jie Song
- School of Public Health, Xinxiang Medical University, Xinxiang, 453003, China
| | - Xiaohua Jing
- School of Chemistry and Chemical Engineering, Anyang Normal University, Henan Province, 455002, China
| | - Yuanyuan Liu
- Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing, 100101, China
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12
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Vidal‐Quist JC, Vidal C, Escolar F, Lambrecht BN, Rombauts S, Hernández‐Crespo P. RNA viruses in the house dust mite Dermatophagoides pteronyssinus, detection in environmental samples and in commercial allergen extracts used for in vivo diagnosis. Allergy 2021; 76:3743-3754. [PMID: 33914957 DOI: 10.1111/all.14884] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2021] [Revised: 03/15/2021] [Accepted: 03/24/2021] [Indexed: 11/30/2022]
Abstract
BACKGROUND Allergy to house dust mites (HDM), the most important source of indoor allergens worldwide, is diagnosed and treated using natural extracts from cultures that can contain immunoactive components from the HDM microbiome, including mite-infecting viruses. This study aimed to contribute to the discovery and characterization of RNA viruses from Dermatophagoides pteronyssinus, followed by their detection in different mite-derived sources. METHODS Viruses were assembled after in silico metatranscriptomic analysis of D. pteronyssinus RNA samples, visualized by electron microscopy, and RNA detected by direct RT-PCR or data mining. Mite culture performance was evaluated in vivo. RESULTS Seven RNA viruses were identified in our laboratory stock colony. Picornavirus-like viral particles were detected in epithelial cells of the digestive system and in fecal pellets. Most of these viruses could be persistently transmitted to an inbred virus-free colony by inoculating fecal material from the stock colony. Upon viral infection, no significant effect could be seen on mite population growth. Transcriptomic screening confirmed the presence of homolog sequences to these viruses in independent laboratory stocks of D. pteronyssinus and in other Astigmata mites. Noteworthy, RNA from most of the viruses could be detected by RT-PCR on house dust samples, reference standards, and/or commercial diagnostic D. pteronyssinus extracts. CONCLUSIONS Our results show that viral infections are common and widespread in D. pteronyssinus, both in natural and culture-based growth conditions. Potential effects on the mites themselves and consequences toward allergenicity in humans whether exposed naturally or after immunotherapy are discussed.
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Affiliation(s)
- José Cristian Vidal‐Quist
- Laboratorio de Interacción Planta‐Insecto Departamento de Biotecnología Microbiana y de Plantas Centro de Investigaciones Biológicas Margarita Salas ‐ CSIC Madrid Spain
| | - Carmen Vidal
- Servicio de Alergología Complejo Hospitalario Universitario de Santiago (CHUS) Santiago de Compostela Spain
| | - Fernando Escolar
- Servicio de Microscopía Electrónica Centro de Investigaciones Biológicas Margarita Salas ‐ CSIC Madrid Spain
| | - Bart N. Lambrecht
- Laboratory of Immunoregulation and Mucosal Immunology VIB Center for Inflammation Research Ghent Belgium
- Department of Internal Medicine and Pediatrics Ghent University Ghent Belgium
| | - Stephane Rombauts
- Center for Plant Systems Biology VIB Ghent Belgium
- Department of Plant Biotechnology and Bioinformatics Ghent University Ghent Belgium
| | - Pedro Hernández‐Crespo
- Laboratorio de Interacción Planta‐Insecto Departamento de Biotecnología Microbiana y de Plantas Centro de Investigaciones Biológicas Margarita Salas ‐ CSIC Madrid Spain
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13
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Interactions of the Intracellular Bacterium Cardinium with Its Host, the House Dust Mite Dermatophagoides farinae, Based on Gene Expression Data. mSystems 2021; 6:e0091621. [PMID: 34726490 PMCID: PMC8562489 DOI: 10.1128/msystems.00916-21] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
Dermatophagoides farinae is inhabited by an intracellular bacterium, Cardinium. Using correlations between host and symbiont gene expression profiles, we identified several important molecular pathways that potentially regulate/facilitate their interactions. The expression of Cardinium genes collectively explained 95% of the variation in the expression of mite genes assigned to pathways for phagocytosis, apoptosis, the MAPK signaling cascade, endocytosis, the tumor necrosis factor (TNF) pathway, the transforming growth factor beta (TGF-β) pathway, lysozyme, and the Toll/Imd pathway. In addition, expression of mite genes explained 76% of the variability in Cardinium gene expression. In particular, the expression of the Cardinium genes encoding the signaling molecules BamD, LepA, SymE, and VirD4 was either positively or negatively correlated with the expression levels of mite genes involved in endocytosis, phagocytosis, and apoptosis. We also found that Cardinium possesses a complete biosynthetic pathway for lipoic acid and may provide lipoate, but not biotin, to mites. Cardinium gene expression collectively explained 84% of the variation in expression related to several core mite metabolic pathways, and, most notably, a negative correlation was observed between bacterial gene expression and expression of mite genes assigned to the glycolysis and citric acid cycle pathways. Furthermore, we showed that Cardinium gene expression is correlated with expression levels of genes associated with terpenoid backbone biosynthesis. This pathway is important for the synthesis of pheromones, thus providing an opportunity for Cardinium to influence mite reproductive behavior to facilitate transmission of the bacterium. Overall, our study provided correlational gene expression data that can be useful for future research on mite-Cardinium interactions. IMPORTANCE The molecular mechanisms of mite-symbiont interactions and their impacts on human health are largely unknown. Astigmatid mites, such as house dust and stored-product mites, are among the most significant allergen sources worldwide. Although mites themselves are the main allergen sources, recent studies have indicated that mite-associated microbiomes may have implications for allergen production and human health. The major medically important house dust mite, D. farinae, is known to harbor a highly abundant intracellular bacterium belonging to the genus Cardinium. Expression analysis of the mite and symbiont genes can identify key mite molecular pathways that facilitate interactions with this endosymbiont and possibly shed light on how this bacterium affects mite allergen production and physiology in general.
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14
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Hubert J, Nesvorna M, Pekar S, Green SJ, Klimov PB. Cardinium inhibits Wolbachia in its mite host, Tyrophagus putrescentiae, and affects host fitness. FEMS Microbiol Ecol 2021; 97:6358523. [PMID: 34448854 DOI: 10.1093/femsec/fiab123] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2021] [Accepted: 08/24/2021] [Indexed: 12/14/2022] Open
Abstract
Interactions among endosymbiotic bacteria inside their eukaryotic hosts are poorly understood, particularly in mites. The mite Tyrophagus putrescentiae is a common, medically important generalist species that has many intracellular and gut bacterial symbionts. In the experiments, we examined bacterial abundances and composition in mite populations obtained by controlled mixing of stock mite populations that differed in the presence/absence of the major intracellular bacteria Wolbachia and Cardinium. Changes in microbial communities were characterized using 16S ribosomal RNA high-throughput sequencing (pooled mite individuals) and quantitative PCR for key microbial taxa (individual mites). Mite fitness was estimated as a parameter of population growth. We detected that in mixed mite populations, Cardinium and Wolbachia can co-occur in the same mite individual. The presence of Cardinium was negatively correlated with the presence of Wolbachia and Bartonella, while the Bartonella and Wolbachia were positively correlated in individual level samples. Since mixed populations had lower abundances of Wolbachia, while the abundance of Cardinium did not change, we suggest that the presence of Cardinium inhibits the growth of Wolbachia. The mixed mite populations had lower population growth than parental populations. The possible effect of symbionts on the fitness of mixed population is discussed.
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Affiliation(s)
- Jan Hubert
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia.,Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Kamycka 129, CZ-165 00 Prague 6-Suchdol, Czechia
| | - Marta Nesvorna
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia
| | - Stano Pekar
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlarska 2, CZ-611 37 Brno, Czechia
| | - Stefan J Green
- Genomics and Microbiome Core Facility, Rush University, Chicago, IL 60612, USA
| | - Pavel B Klimov
- School of Natural Sciences, Bangor University, Bangor, LL57 2 UW, UK.,Institute of Biology, University of Tyumen, Pirogova 3, 625043 Tyumen, Russia
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15
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Vidal-Quist JC, Ortego F, Hernández-Crespo P. Contribution of cysteine and serine proteases to proteolytic digestion in an allergy-eliciting house dust mite. JOURNAL OF INSECT PHYSIOLOGY 2021; 133:104285. [PMID: 34284041 DOI: 10.1016/j.jinsphys.2021.104285] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2021] [Revised: 07/13/2021] [Accepted: 07/13/2021] [Indexed: 06/13/2023]
Abstract
The digestive physiology of house dust mites (HDM) is of interest to understand their allergenicity towards humans since many of their allergens are digestive enzymes and/or are excreted into airborne fecal pellets. The aim of this study is to provide insight on the biochemical basis of proteolytic digestion in Dermatophagoides pteronyssinus, the most widespread HDM species. First, assays using non-specific protein substrates on purified fecal and body extracts determined that body-associated activity is almost exclusively dependent on cysteine proteases, and specifically on major allergen Der p 1. By contrast, cysteine and serine proteases contributed similarly to the activity estimated on fecal extracts. Second, the screening of group-specific peptide-based protease inhibitors followed by ingestion bioassays revealed that the human skin-derived cysteine protease inhibitor cystatin A produces a significant reduction in mite feeding (i.e. excreted guanine), and triggers the overproduction of Der p 1 (3-fold increase by ELISA). Noteworthy, the inhibition of cysteine proteases by cystatin A also resulted in a reduction in three non-target serine protease activities. Further incubation of these extracts with exogenous Der p 1, but not with other commercial cysteine proteases, restored trypsin (Der p 3) and chymotrypsin (Der p 6) activities, indicating that Der p 1 is responsible for their activation in vivo. Finally, the role of serine proteases on the mite's digestive physiology is discussed based on their remarkable activity in fecal extracts and the autocoprophagic behavior reported in mites in this study.
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Affiliation(s)
- José Cristian Vidal-Quist
- Laboratorio de Entomología Aplicada a la Agricultura y la Salud, Centro de Investigaciones Biológicas Margarita Salas CSIC, Spain.
| | - Félix Ortego
- Laboratorio de Entomología Aplicada a la Agricultura y la Salud, Centro de Investigaciones Biológicas Margarita Salas CSIC, Spain
| | - Pedro Hernández-Crespo
- Laboratorio de Entomología Aplicada a la Agricultura y la Salud, Centro de Investigaciones Biológicas Margarita Salas CSIC, Spain
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16
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Nesvorna M, Pekar S, Shcherbachenko E, Molva V, Erban T, Green SJ, Klimov PB, Hubert J. Microbiome variation during culture growth of the European house dust mite, Dermatophagoides pteronyssinus. FEMS Microbiol Ecol 2021; 97:6155062. [PMID: 33674831 DOI: 10.1093/femsec/fiab039] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2020] [Accepted: 02/26/2021] [Indexed: 12/23/2022] Open
Abstract
In culture, the house dust mite, Dermatophagoides pteronyssinus, shows different growth patterns, but the composition and changes in the associated microbial community during mite culture growth are poorly known. In this study, we analyzed temporal changes in microbial communities including 'internal' communities (inside mites, ingested) and 'environmental' communities (from culture environment). Microbial community structure was correlated with guanine content (a nitrogenous waste product of mites) and mite population density. Both internal and environmental microbial communities were remarkably consistent between biological replicates from the same culture age group and were composed of relatively few dominant taxa-11 bacterial and 3 fungal operational taxonomic units (OTUs). Significant changes over time in microbial community structure in the bulk culture environment and in internal mite samples were observed. The yeast, Saccharomyces cerevisiae, a main component of the mite diet, gradually disappeared during mite culture growth and was replaced by fungi from the genera Aspergillus and Candida in both 'internal' and 'environmental' samples. In environmental samples, bacteria from the genus Lactobacillus and S. cerevisiae were negatively correlated, and Aspergillus and Candida positively correlated, with guanine content. The relative abundance of bacteria from the genus Kocuria increased with mite density but declined with increasing guanine content. The relative abundance of bacteria from the genus Virgibacillus was negatively correlated with mite density in 'internal' samples. Gram-positive bacteria dominated bacterial microbiomes at all time points in our experiments, indicating a more limited possibility for vaccine contamination by bacterial endotoxins (heat-stable lipopolysaccharides produced mostly by Gram-negative bacteria) in our experimental cultures.
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Affiliation(s)
- Marta Nesvorna
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia
| | - Stano Pekar
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlarska 2, CZ-611 37 Brno, Czechia
| | | | - Vit Molva
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia
| | - Tomas Erban
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia
| | - Stefan J Green
- Rush University, Department of Internal Medicine, Division of Infectious Diseases, Rush Medical College, 600 S. Paulina St. Chicago, Illinois 60612, USA
| | - Pavel B Klimov
- Department of Ecology and Evolutionary Biology, University of Michigan, 3600 Varsity Drive, Ann Arbor, MI 48109, USA.,Institute of Biology, University of Tyumen, Pirogova 3, 625043 Tyumen, Russia
| | - Jan Hubert
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia.,Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Kamycka 129, CZ-165 00 Prague 6-Suchdol, Czechia
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17
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Hubert J, Nesvorna M, Green SJ, Klimov PB. Microbial Communities of Stored Product Mites: Variation by Species and Population. MICROBIAL ECOLOGY 2021; 81:506-522. [PMID: 32852571 DOI: 10.1007/s00248-020-01581-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2020] [Accepted: 08/18/2020] [Indexed: 05/25/2023]
Abstract
Arthropod-associated microorganisms are important because they affect host fitness, protect hosts from pathogens, and influence the host's ability to vector pathogens. Stored product mites (Astigmata) often establish large populations in various types of food items, damaging the food by direct feeding and introducing contaminants, including their own bodies, allergen-containing feces, and associated microorganisms. Here we access the microbial structure and abundance in rearing diets, eggs, feces fraction, and mite bodies of 16 mite populations belonging to three species (Carpoglyphus lactis, Acarus siro, and Tyrophagus putrescentiae) using quantitative PCR and 16S ribosomal RNA (rRNA) gene amplicon sequencing. The mite microbiomes had a complex structure dominated by the following bacterial taxa (OTUs): (a) intracellular symbionts of the genera Cardinium and Wolbachia in the mite bodies and eggs; (b) putative gut symbionts of the genera Solitalea, Bartonella, and Sodalis abundant in mite bodies and also present in mite feces; (c) feces-associated or environmental bacteria of the genera Bacillus, Staphylococcus, and Kocuria in the diet, mite bodies, and feces. Interestingly and counterintuitively, the differences between microbial communities in various conspecific mite populations were higher than those between different mite species. To explain some of these differences, we hypothesize that the intracellular bacterial symbionts can affect microbiome composition in mite bodies, causing differences between microbial profiles. Microbial profiles differed between various sample types, such as mite eggs, bodies, and the environment (spent growth medium-SPGM). Low bacterial abundances in eggs may result in stochastic effects in parent-offspring microbial transmission, except for the intracellular symbionts. Bacteria in the rearing diet had little effect on the microbial community structure in SPGM and mite bodies. Mite fitness was positively correlated with bacterial abundance in SPGM and negatively correlated with bacterial abundances in mite bodies. Our study demonstrates critical host-microbe interactions, affecting all stages of mite growth and leading to alteration of the environmental microbiome. Correlational evidence based on absolute quantitation of bacterial 16S rRNA gene copies suggests that mite-associated microorganisms are critical for modulating important pest properties of mites by altering population growth.
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Affiliation(s)
- Jan Hubert
- Crop Research Institute, Drnovska 507/73, CZ-161 06, Prague 6-Ruzyne, Czechia.
- Faculty of Agrobiology, Food and Natural Resources, Department of Microbiology, Nutrition and Dietetics, Czech University of Life Sciences, Kamycka 129, CZ-165 21, Prague 6-Suchdol, Czechia.
| | - Marta Nesvorna
- Crop Research Institute, Drnovska 507/73, CZ-161 06, Prague 6-Ruzyne, Czechia
| | - Stefan J Green
- Genome Research Core, University of Illinois at Chicago, Chicago, IL, 60612, USA
| | - Pavel B Klimov
- Department of Ecology and Evolutionary Biology, University of Michigan, 3600 Varsity Drive, Ann Arbor, MI, 48109, USA
- Institute of Biology, University of Tyumen, Pirogova 3, 625043, Tyumen, Russia
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18
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Erban T, Klimov P, Molva V, Hubert J. Whole genomic sequencing and sex-dependent abundance estimation of Cardinium sp., a common and hyperabundant bacterial endosymbiont of the American house dust mite, Dermatophagoides farinae. EXPERIMENTAL & APPLIED ACAROLOGY 2020; 80:363-380. [PMID: 32072355 DOI: 10.1007/s10493-020-00475-5] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/24/2019] [Accepted: 02/13/2020] [Indexed: 05/09/2023]
Abstract
The two common species of house dust mites (HDMs), Dermatophagoides farinae and D. pteronyssinus, are major sources of allergens in human dwellings worldwide. Many allergens from HDMs have been described, but their extracts vary in immunogens. Mite strains may differ in their microbiomes, which affect mite allergen expression and contents of bacterial endotoxins. Some bacteria, such as the intracellular symbiont Cardinium, can affect both the sex ratio and biochemical pathways of mites, resulting in abundance variations of mite allergens/immunogens. Here, we investigated the bacterial microbiomes of D. farinae and D. pteronyssinus males and females using barcode 16S rDNA sequencing, qPCR, and genomic data analysis. We found a single species of Cardinium associated with D. farinae strains from the USA, China and Europe. Cardinium had high abundance relative to other bacterial taxa and represented 99% of all bacterial DNA reads from female mites from the USA. Cardinium was also abundant with respect to the number of host cells-we estimated 10.4-11.8 cells of Cardinium per single female mite cell. In a European D. farinae strain, Cardinium was more prevalent in females than in males (representing 92 and 67% of all bacterial taxa in females and males, respectively). In contrast, D. pteronyssinus lacked any Cardinium species, and the microbiomes of male and female mites were similar. We produced a Cardinium genome assembly (1.48 Mb; GenBank: PRJNA555788, GCA_007559345.1) associated with D. farinae. The ascertained ubiquity and abundance of Cardinium strongly suggest that this intracellular bacterium plays an important biological role in D. farinae.
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Affiliation(s)
- Tomas Erban
- Crop Research Institute, Drnovska 507/73, 161 06, Prague 6-Ruzyne, Czechia.
- Department of Biophysics, 2nd Faculty of Medicine, Charles University, 150 00, Prague 5, Czechia.
- Proteomics and Metabolomics Laboratory, Crop Research Institute, Drnovska 507/73, 16106, Prague 6-Ruzyne, Czechia.
| | - Pavel Klimov
- Department of Ecology and Evolutionary Biology, University of Michigan, 3600 Varsity Drive, Ann Arbor, MI, 48109, USA
- Institute of Biology, University of Tyumen, Pirogova 3, Tyumen, Russia, 625043
| | - Vit Molva
- Crop Research Institute, Drnovska 507/73, 161 06, Prague 6-Ruzyne, Czechia
- Department of Parasitology, Faculty of Science, Charles University, Vinicna 7, 128 44, Prague 2, Czechia
| | - Jan Hubert
- Crop Research Institute, Drnovska 507/73, 161 06, Prague 6-Ruzyne, Czechia
- Department of Microbiology, Nutrition and Dietetics, Faculty of Agrobiology, Food and Natural Resources,, Czech University of Life Sciences, Kamycka 129, 165 21, Prague 6 - Suchdol, Czechia
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19
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Molva V, Nesvorna M, Hubert J. Feeding Interactions Between Microorganisms and the House Dust Mites Dermatophagoides pteronyssinus and Dermatophagoides farinae (Astigmata: Pyroglyphidae). JOURNAL OF MEDICAL ENTOMOLOGY 2019; 56:1669-1677. [PMID: 31145461 DOI: 10.1093/jme/tjz089] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2019] [Indexed: 05/24/2023]
Abstract
The feeding interactions between house dust mites (HDM) and microorganisms are key factors in the survival of mites in human environments. The suitability of different microbes for HDM is not known. Here, microbial species isolated from HDM cultures were offered to HDM in food preference tests under laboratory conditions. The microbial species were added to the rearing diet of mites to reach 7% of Saccharomyces cerevisiae and 10% of each tested microorganism. The suitability of each microbe-supplemented diet for Dermatophagoides pteronyssinus and Dermatophagoides farinae was compared in terms of mite population growth and mite preference in a cafeteria test. The effect of mite feeding on the respiration of microorganisms in the diet was observed in microcosms. HDM were able to feed and reproduce on some bacterial and fungal species, but the suitability of microbial species differed. Increasing the yeast Sa. cerevisiae in the diet from 7 to 17% appeared the most suitable for both mite species. Staphylococcus spp. bacteria were preferred for D. farinae and were suitable for reproduction. The population growth and feeding preferences of D. pteronyssinus and D. farinae with respect to microorganisms indicate that D. farinae can develop on a diet with bacterial (Staphylococcus nepalensis and Staphylococcus kloosii) additions, whereas D. pteronyssinus was successful on a diet with fungal (Aspergillus jensenii and Aspergillus ruber) additions. The bacteria Kocuria rhizophila and Bacillus cereus decreased population growth in D. pteronyssinus, whereas the yeasts Hyphopichia pseudoburtonii, Hyphopichia burtonii, and Candida ciferrii decreased population growth in D. farinae. These results indicate that some microorganisms are an important food source for HDM.
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Affiliation(s)
- Vit Molva
- Crop Research Institute, Drnovska, Prague, Czechia
- Charles University, Faculty of Science, Department of Parasitology, Vinicna, Prague, Czechia
| | | | - Jan Hubert
- Crop Research Institute, Drnovska, Prague, Czechia
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Klimov P, Molva V, Nesvorna M, Pekar S, Shcherbachenko E, Erban T, Hubert J. Dynamics of the microbial community during growth of the house dust mite Dermatophagoides farinae in culture. FEMS Microbiol Ecol 2019; 95:5581497. [DOI: 10.1093/femsec/fiz153] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2019] [Accepted: 10/01/2019] [Indexed: 12/27/2022] Open
Abstract
ABSTRACTThe variation in house dust mite microbial communities is important because various microorganisms modulate the production of allergens by their mite hosts and/or contaminate immunotherapeutic extracts. Temporal changes in mite microbiomes and the mite culture environment occurring at different stages of mite culture development are particularly understudied in this system. Here, we analyzed the dynamics of microbial communities during the culture growth of Dermatophagoides farinae. Changes in microbiomes were related to three key variables: the mite population density, microbial microcosm respiration and concentration of guanine (the mite nitrogenous waste metabolite). Mite populations exhibited the following phases: exponential growth, plateau and exponential decline. The intracellular bacterium Cardinium and the yeast Saccharomyces cerevisiae prevailed in the internal mite microbiomes, and the bacterium Lactobacillus fermentum was prevalent in the mite diet. The reduction in the mite population size during the late phases of culture development was related to the changes in their microbial profiles: the intracellular bacterium Cardinium was replaced by Staphylococcus, Oceanobacillus and Virgibacillus, and S. cerevisiae was replaced by the antagonistic fungi Aspergillus penicillioides and Candida. Increases in the guanine content were positively correlated with increases in the Staphylococcus and A. penicillioides profiles in the culture environment. Our results show that the mite microbiome exhibits strong, dynamic alterations in its profiles across different mite culture growth stages.
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Affiliation(s)
- Pavel Klimov
- Department of Ecology and Evolutionary Biology, University of Michigan, 3600 Varsity Drive, Ann Arbor, MI 48109, USA
- Institute of Biology, University of Tyumen, Pirogova 3, 625043 Tyumen, Russia
| | - Vit Molva
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia
- Department of Parasitology, Faculty of Science, Charles University, Vinicna 1594/7, CZ-12800 Prague 2, Czechia
| | - Marta Nesvorna
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia
| | - Stano Pekar
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlarska 267/2, CZ-61137 Brno, Czechia
| | | | - Tomas Erban
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia
| | - Jan Hubert
- Crop Research Institute, Drnovska 507/73, CZ-16106 Prague 6-Ruzyne, Czechia
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Sun X, Gostinčar C, Fang C, Zajc J, Hou Y, Song Z, Gunde-Cimerman N. Genomic Evidence of Recombination in the Basidiomycete Wallemia mellicola. Genes (Basel) 2019; 10:genes10060427. [PMID: 31167502 PMCID: PMC6628117 DOI: 10.3390/genes10060427] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2019] [Revised: 05/28/2019] [Accepted: 05/30/2019] [Indexed: 12/16/2022] Open
Abstract
One of the most commonly encountered species in the small basidiomycetous sub-phylum Wallemiomycotina is Wallemia mellicola, a xerotolerant fungus with a widespread distribution. To investigate the population characteristics of the species, whole genomes of twenty-five strains were sequenced. Apart from identification of four strains of clonal origin, the distances between the genomes failed to reflect either the isolation habitat of the strains or their geographical origin. Strains from different parts of the world appeared to represent a relatively homogenous and widespread population. The lack of concordance between individual gene phylogenies and the decay of linkage disequilibrium indicated that W. mellicola is at least occasionally recombining. Two versions of a putative mating-type locus have been found in all sequenced genomes, each present in approximately half of the strains. W. mellicola thus appears to be capable of (sexual) recombination and shows no signs of allopatric speciation or specialization to specific habitats.
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Affiliation(s)
- Xiaohuan Sun
- China National GeneBank, BGI-Shenzhen, Jinsha Road, Shenzhen 518120, China.
- BGI-Shenzhen, Beishan Industrial Zone, Shenzhen 518083, China.
| | - Cene Gostinčar
- Department of Biology, Biotechnical Faculty, University of Ljubljana, 1000 Ljubljana, Slovenia.
- Lars Bolund Institute of Regenerative Medicine, BGI-Qingdao, Qingdao 266555, China.
| | - Chao Fang
- China National GeneBank, BGI-Shenzhen, Jinsha Road, Shenzhen 518120, China.
- BGI-Shenzhen, Beishan Industrial Zone, Shenzhen 518083, China.
| | - Janja Zajc
- Department of Biology, Biotechnical Faculty, University of Ljubljana, 1000 Ljubljana, Slovenia.
- Department of Biotechnology and Systems biology, National Institute of Biology, 1000 Ljubljana, Slovenia.
| | - Yong Hou
- China National GeneBank, BGI-Shenzhen, Jinsha Road, Shenzhen 518120, China.
- BGI-Shenzhen, Beishan Industrial Zone, Shenzhen 518083, China.
| | - Zewei Song
- China National GeneBank, BGI-Shenzhen, Jinsha Road, Shenzhen 518120, China.
- BGI-Shenzhen, Beishan Industrial Zone, Shenzhen 518083, China.
| | - Nina Gunde-Cimerman
- Department of Biology, Biotechnical Faculty, University of Ljubljana, 1000 Ljubljana, Slovenia.
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Acevedo N, Zakzuk J, Caraballo L. House Dust Mite Allergy Under Changing Environments. ALLERGY, ASTHMA & IMMUNOLOGY RESEARCH 2019; 11:450-469. [PMID: 31172715 PMCID: PMC6557771 DOI: 10.4168/aair.2019.11.4.450] [Citation(s) in RCA: 76] [Impact Index Per Article: 15.2] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/28/2019] [Revised: 03/12/2019] [Accepted: 03/15/2019] [Indexed: 12/11/2022]
Abstract
Environmental variations induced by industrialization and climate change partially explain the increase in prevalence and severity of allergic disease. One possible mechanism is the increase in allergen production leading to more exposure and sensitization in susceptible individuals. House dust mites (HDMs) are important sources of allergens inducing asthma and rhinitis, and experimentally they have been demonstrated to be very sensitive to microenvironment modifications; therefore, global or regional changes in temperature, humidity, air pollution or other environmental conditions could modify natural HDM growth, survival and allergen production. There is evidence that sensitization to HDMs has increased in some regions of the world, especially in the subtropical and tropical areas; however, the relationship of this increase with environmental changes is not so clear as has reported for pollen allergens. In this review, we address this point and explore the effects of current and predicted environmental changes on HDM growth, survival and allergen production, which could lead to immunoglobulin E (IgE) sensitization and allergic disease prevalence. We also assess the role of adjuvants of IgE responses, such as air pollution and helminth infections, and discuss the genetic and epigenetic aspects that could influence the adaptive process of humans to drastic and relatively recent environmental changes we are experiencing.
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Affiliation(s)
- Nathalie Acevedo
- Institute for Immunological Research, University of Cartagena, Cartagena de Indias, Colombia
| | - Josefina Zakzuk
- Institute for Immunological Research, University of Cartagena, Cartagena de Indias, Colombia
| | - Luis Caraballo
- Institute for Immunological Research, University of Cartagena, Cartagena de Indias, Colombia.
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