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Yang C, Hu J, Su Q, Zhang Z, Du Y, Wang J, Sun H, Han B, Tang J, Guo L, Li H, Cai W, Zheng H, Zhou X, Zhang X. A review on recent taxonomic updates of gut bacteria associated with social bees, with a curated genomic reference database. INSECT SCIENCE 2024. [PMID: 38594229 DOI: 10.1111/1744-7917.13365] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2023] [Revised: 02/13/2024] [Accepted: 03/09/2024] [Indexed: 04/11/2024]
Abstract
Honeybees and bumblebees play a crucial role as essential pollinators. The special gut microbiome of social bees is a key factor in determining the overall fitness and health of the host. Although bees harbor relatively simple microbial communities at the genus level, recent studies have unveiled significant genetic divergence and variations in gene content within each bacterial genus. However, a comprehensive and refined genomics-based taxonomic database specific to social bee gut microbiomes remains lacking. Here, we first provided an overview of the current knowledge on the distribution and function of social bee gut bacteria, as well as the factors that influence the gut population dynamics. We then consolidated all available genomes of the gut bacteria of social bees and refined the species-level taxonomy, by constructing a maximum-likelihood core genome phylogeny and calculating genome-wide pairwise average nucleotide identity. On the basis of the refined species taxonomy, we constructed a curated genomic reference database, named the bee gut microbe genome sequence database (BGM-GDb). To evaluate the species-profiling performance of the curated BGM-GDb, we retrieved a series of bee gut metagenomic data and inferred the species-level composition using metagenomic intra-species diversity analysis system (MIDAS), and then compared the results with those obtained from a prebuilt MIDAS database. We found that compared with the default database, the BGM-GDb excelled in aligned read counts and bacterial richness. Overall, this high-resolution and precise genomic reference database will facilitate research in understanding the gut community structure of social bees.
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Affiliation(s)
- Chengfeng Yang
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
- Sanya Institute of China Agricultural University, Hainan Province, China
| | - Jiawei Hu
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Qinzhi Su
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
- Beijing Laboratory of Biomedical Materials, Department of Geriatric Dentistry, Peking University School and Hospital of Stomatology, Beijing, China
| | - Zijing Zhang
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
- Hebei Key Laboratory of Animal Physiology, Biochemistry and Molecular Biology, College of Life Sciences, Hebei Normal University, Shijiazhuang, China
| | - Yating Du
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Jieni Wang
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Huihui Sun
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
- Sanya Institute of China Agricultural University, Hainan Province, China
| | - Benfeng Han
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Junbo Tang
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Lizhen Guo
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Hu Li
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Wanzhi Cai
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Hao Zheng
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Xin Zhou
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
- Sanya Institute of China Agricultural University, Hainan Province, China
| | - Xue Zhang
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
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Han L, Chang ZM, Ren CS, Chen XS, Smagghe G, Yuan YG, Long JK. Colony performance of three native bumblebee species from South China and association with their gut microbiome. INSECT SCIENCE 2024. [PMID: 38516802 DOI: 10.1111/1744-7917.13351] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/16/2023] [Revised: 01/09/2024] [Accepted: 02/02/2024] [Indexed: 03/23/2024]
Abstract
Bumblebees play an important ecological economic role as pollinators in nature and agriculture. For reasons of biosecurity, many countries promote the cultivation of native bumblebee species for crop pollination instead of importing "alien" species. In South China, a few bumblebee species are considered useful in this way, particularly, Bombus atripes, Bombus bicoloratus and Bombus breviceps. However, whether they are suitable for artificial rearing and forming healthy colonies for pollination, remains unknown. In this project, queens from the 3 native species of Guizhou Province were collected and colonies were started under standardized conditions. The colonies were scored based on 19 parameters, including the stage of colony development, number and weight of offspring, and diet consumed. The data revealed that B. breviceps had the best performance, produced more workers and consumed the smallest diet. Next, we performed 16S rDNA sequencing of the bacterial communities found in the guts of offspring workers, and then a correlation analysis between colony performance and gut bacteria was conducted. Here, B. breviceps showed the highest diversity in gut bacterial composition, dominated by the bacteria Gilliamella, Snodgrassella, Enterobacter, and Lactobacillus Firm5. The higher the abundance of Snodgrassella, the better the performance of the colony in the foundation stage, and later Lactobacillus Firm5, Apibacter and Bifidobacterium were beneficial during the stages of rapid growth and colony decline. Although we do not understand all of the interactions yet, these correlations explain why B. breviceps demonstrated better colony performance. Our data provide valuable information for breeding local Bombus species and will contribute to developing strong colonies for crop pollination.
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Affiliation(s)
- Lei Han
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education/College of Animal Science, Guizhou University, Guiyang, China
| | - Zhi-Min Chang
- Institute of Entomology/Provincial Special Key Laboratory for Developing and Utilization of Insect Resources, Guizhou University, Guiyang, China
| | - Chang-Shi Ren
- Key Laboratory of Animal Genetics, Breeding and Reproduction in the Plateau Mountainous Region, Ministry of Education/College of Animal Science, Guizhou University, Guiyang, China
| | - Xiang-Sheng Chen
- Institute of Entomology/Provincial Special Key Laboratory for Developing and Utilization of Insect Resources, Guizhou University, Guiyang, China
| | - Guy Smagghe
- Institute of Entomology/Provincial Special Key Laboratory for Developing and Utilization of Insect Resources, Guizhou University, Guiyang, China
| | - Yi-Ge Yuan
- Institute of Entomology/Provincial Special Key Laboratory for Developing and Utilization of Insect Resources, Guizhou University, Guiyang, China
| | - Jian-Kun Long
- Institute of Entomology/Provincial Special Key Laboratory for Developing and Utilization of Insect Resources, Guizhou University, Guiyang, China
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Jeffries CL, Tantely LM, Kadriaj P, Blagrove MSC, Lytra I, Orsborne J, Al-Amin HM, Mohammed AR, Alam MS, Girod R, Afrane YA, Bino S, Robert V, Boyer S, Baylis M, Velo E, Hughes GL, Walker T. Mitochondrial and microbial diversity of the invasive mosquito vector species Culex tritaeniorhynchus across its extensive inter-continental geographic range. Wellcome Open Res 2024; 9:18. [PMID: 38800519 PMCID: PMC11128058 DOI: 10.12688/wellcomeopenres.20761.1] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 12/28/2023] [Indexed: 05/29/2024] Open
Abstract
Background Culex (Cx.) tritaeniorhynchus is an invasive mosquito species with an extensive and expanding inter-continental distribution, currently reported across Asia, Africa, the Middle East, Europe and now Australia. It is an important vector of medical and veterinary pathogens which cause significant morbidity and mortality in human and animal populations. Across regions endemic for Japanese encephalitis virus (JEV), Cx. tritaeniorhynchus is considered the major vector and has also been shown to contribute to the transmission of several other zoonotic arboviruses including Rift Valley fever virus (RVFV) and West Nile virus (WNV). Methods In this study, we used laboratory vector competence experiments to determine if Cx. tritaeniorhynchus from a Southern European population were competent JEV vectors. We also obtained samples from multiple geographically dispersed Cx. tritaeniorhynchus populations from countries within Europe, Africa, Eurasia and Asia to perform phylogenetic analysis to measure the level of mitochondrial divergence using the cytochrome oxidase subunit 1 ( CO1) gene. We also undertook bacterial 16S rRNA gene amplicon sequencing to determine microbial diversity and used multi-locus sequence typing (MLST) to determine any evidence for the presence of strains of the naturally occurring endosymbiotic bacterium Wolbachia. Results Cx. tritaeniorhynchus from a Greek population were shown be be competent vectors of JEV with high levels of virus present in saliva. We found a signficant level of mitochondrial genetic diversity using the mosquito CO1 gene between geographically dispersed populations. Furthermore, we report diverse microbiomes identified by 16S rRNA gene amplicon sequencing within and between geographical populations. Evidence for the detection of the endosymbiotic bacteria Wolbachia was confirmed using Wolbachia-specific PCR and MLST. Conclusions This study enhances our understanding of the diversity of Cx. tritaeniorhynchus and the associated microbiome across its inter-continental range and highlights the need for greater surveillance of this invasive vector species in Europe.
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Affiliation(s)
- Claire L. Jeffries
- Department of Disease Control, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, London, WC1E 7HT, UK
| | - Luciano M Tantely
- Unite d'entomologie medicale, Institute Pasteur de Madagascar, Antanarivo, Madagascar
| | - Perparim Kadriaj
- Vector Control Unit, Control of Infectious Diseases Department, Institute of Public Health, Tirana, Albania
| | - Marcus S C Blagrove
- Department of Evolution, Ecology and Behaviour, Institute of Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool, England, UK
- Health Protection Research Unit on Emerging and Zoonotic Infections, University of Liverpool, Liverpool, England, UK
| | - Ioanna Lytra
- Department of Entomology and Agricultural Zoology, Benaki Phytopathological Institute, Athens, Greece
| | - James Orsborne
- Department of Disease Control, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, London, WC1E 7HT, UK
| | - Hasan Mohammad Al-Amin
- Infectious Diseases Division, International Centre for Diarrhoeal Disease Research, Dhaka, Bangladesh
- Berghofer Medical Research Institute, Queensland Institute of Medical Research, Brisbane, Australia
| | - Abdul Rahim Mohammed
- Department of Medical Microbiology, University of Ghana Medical School, University of Ghana, Accra, Greater Accra Region, Ghana
| | - Mohammad Shafiul Alam
- Infectious Diseases Division, International Centre for Diarrhoeal Disease Research, Dhaka, Bangladesh
| | - Romain Girod
- Unite d'entomologie medicale, Institute Pasteur de Madagascar, Antanarivo, Madagascar
| | - Yaw A Afrane
- Department of Medical Microbiology, University of Ghana Medical School, University of Ghana, Accra, Greater Accra Region, Ghana
| | - Silvia Bino
- Vector Control Unit, Control of Infectious Diseases Department, Institute of Public Health, Tirana, Albania
| | - Vincent Robert
- MIVEGEC, CNRS, Institute of Research for Development (IRD), University of Montpellier, Montpellier, France
| | - Sebastien Boyer
- Unite d'entomologie medicale, Institute Pasteur de Madagascar, Antanarivo, Madagascar
- Medical and Veterinary Entomology Unit, Institut Pasteur du Cambodge, Phnom Penh, Cambodia
| | - Matthew Baylis
- Health Protection Research Unit on Emerging and Zoonotic Infections, University of Liverpool, Liverpool, England, UK
- Department of Livestock and One Health, Institute of Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool, England, UK
| | - Enkelejda Velo
- Vector Control Unit, Control of Infectious Diseases Department, Institute of Public Health, Tirana, Albania
| | - Grant L Hughes
- Departments of Vector Biology and Tropical Disease Biology, Centre for Neglected Tropical Disease, University of Liverpool, Liverpool, England, UK
| | - Thomas Walker
- Department of Disease Control, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine, London, WC1E 7HT, UK
- School of Life Sciences, University of Warwick, Coventry, England, UK
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Khan KA, Ganeshprasad DN, Sachin HR, Shouche YS, Ghramh HA, Sneharani AH. Gut microbial diversity in Apis cerana indica and Apis florea colonies: a comparative study. Front Vet Sci 2023; 10:1149876. [PMID: 37252382 PMCID: PMC10213700 DOI: 10.3389/fvets.2023.1149876] [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: 01/23/2023] [Accepted: 04/26/2023] [Indexed: 05/31/2023] Open
Abstract
Introduction Honey bee gut microbiota have an important role in host health, nutrition, host-symbiont interaction, and interaction behavior with the surrounding environment. Recent discoveries of strain-level variation, characteristics of protective and nutritional capabilities, and reports of eco-physiological significance to the microbial community have emphasized the importance of honey bee gut microbiota. Many regions of Asia and Africa are inhabited by the dwarf honey bee, Apis florea. Studying its microflora and potential for pollination is therefore of foremost importance. Methods In the present investigation, we aimed to explore the gut bacteriobiome composition of two distinct honey bee species, Apis florea and Apis cerana indica using high throughput sequencing. Functional predictions of bee gut bacterial communities using PICRUSt2 was carried out. Results and discussion The phylum Proteobacteria dominated the bacterial community in both A. cerana indica (50.1%) and A. florea (86.7%), followed by Firmicutes (26.29 and 12.81%), Bacteroidetes (23.19 and 0.04%) and Actinobacteria (0.4 and 0.02%) respectively. The gut bacteria of A. cerana indica was more diverse than that of A. florea. The observed variations in bacterial genomic diversity among these critical pollinator species may have been influenced by the apiary management techniques, ecological adaptation factors or habitat size. These variations can have a significant effect in understanding host-symbiont interactions and functioning of gut microbiota highlighting the importance of metagenomic survey in understanding microbial community ecology and evolution. This is the first comparative study on variation in bacterial diversity between two Asian honey bees.
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Affiliation(s)
- Khalid Ali Khan
- Applied College, Mahala Campus, King Khalid University, Abha, Saudi Arabia
- Unit of Bee Research and Honey Production, King Khalid University, Abha, Saudi Arabia
- Research Center for Advanced Materials Science (RCAMS), King Khalid University, Abha, Saudi Arabia
| | - D. N. Ganeshprasad
- Department of Studies and Research in Biochemistry, Jnana Kaveri Post Graduate Centre, Mangalore University, Chikka Aluvara, Karnataka, India
| | - H. R. Sachin
- Department of Studies and Research in Biochemistry, Jnana Kaveri Post Graduate Centre, Mangalore University, Chikka Aluvara, Karnataka, India
| | - Yogesh S. Shouche
- National Centre for Microbial Resource, National Centre for Cell Science, Pune, India
| | - Hamed A. Ghramh
- Unit of Bee Research and Honey Production, King Khalid University, Abha, Saudi Arabia
- Research Center for Advanced Materials Science (RCAMS), King Khalid University, Abha, Saudi Arabia
| | - A. H. Sneharani
- Department of Studies and Research in Biochemistry, Jnana Kaveri Post Graduate Centre, Mangalore University, Chikka Aluvara, Karnataka, India
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Chamankar B, Maleki-Ravasan N, Karami M, Forouzan E, Karimian F, Naeimi S, Choobdar N. The structure and diversity of microbial communities in Paederus fuscipes (Coleoptera: Staphylinidae): from ecological paradigm to pathobiome. MICROBIOME 2023; 11:11. [PMID: 36670494 PMCID: PMC9862579 DOI: 10.1186/s40168-022-01456-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/02/2022] [Accepted: 12/21/2022] [Indexed: 06/17/2023]
Abstract
BACKGROUND Paederus fuscipes is medically the most famous rove beetle, which causes dermatitis or conjunctivitis in humans, as well as gastrointestinal toxicosis in livestock, via releasing toxic hemolymph containing pederin. Pedrin biosynthesis genes have been identified in uncultured Pseudomonas-like endosymbionts that are speculated to be acquired through a horizontal transfer. However, the composition of the P. fuscipes microbial community, especially of the gut and genital microbiome, remains unclear. This study was aimed to characterize the structure and diversity of P. fuscipes-associated bacterial communities in terms of gender, organ, and location using the Illumina HiSeq platform in the southern littorals of Caspian Sea. RESULTS The OTUs identified from P. fuscipes specimens were collapsed into 40 phyla, 112 classes, 249 orders, 365 families, 576 genera, and 106 species. The most abundant families were Pseudomonadaceae, Spiroplasmataceae, Weeksellaceae, Enterococcaceae, and Rhizobiaceae, respectively. Thirty top genera made up > 94% of the P. fuscipes microbiome, with predominating Pseudomonas, followed by the Spiroplasma, Apibacter, Enterococcus, Dysgonomonas, Sebaldella, Ruminococcus, and Wolbachia. Interesting dissimilarities were also discovered within and between the beetle microbiomes in terms of genders and organs. Analyses showed that Spiroplasma / Apibacter as well as Pseudomonas / Pseudomonas were the most abundant in the genitals / intestines of male and female beetles, respectively. Bacterial richness did not display any significant difference in the three provinces but was higher in male beetles than in females and more in the genitals than intestines. CONCLUSIONS The present study identified Pseudomonas-like endobacterium as a common symbiont of P. fuscipes beetles; this bacterium begins its journey from gut and genitalia of females to reach the male rove beetles. Additionally, male and female rove beetles were characterized by distinctive microbiota in different organs, likely reflecting different functions and/or adaptation processes. Evidence of the extension of P. fuscipes microbiome from the environmental paradigm to the pathobiome was also presented herein. A comprehensive survey of P. fuscipes microbiome components may eventually lead to ecological insights into the production and utilization of defensive compound of pederin and also the management of linear dermatitis with the use of available antibiotics against bacterial pathogens released by the beetles. Video Abstract.
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Affiliation(s)
- Bahar Chamankar
- Department of Parasitology, Pasteur Institute of Iran, Tehran, Iran
- Departments of Zoology Biosystematics, Payame Noor University, East Tehran Centre, Tehran, Iran
| | | | - Mohsen Karami
- Infectious Diseases and Tropical Medicine Research Center, Health Research Institute, Babol University of Medical Sciences, Babol, Iran
| | | | - Fateh Karimian
- Department of Parasitology, Pasteur Institute of Iran, Tehran, Iran
| | - Sabah Naeimi
- Department of Parasitology, Pasteur Institute of Iran, Tehran, Iran
| | - Nayyereh Choobdar
- Department of Medical Entomology and Vector Control, School of Public Health, Tehran University of Medical Sciences, Tehran, Iran
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Zhang ZJ, Zheng H. Bumblebees with the socially transmitted microbiome: A novel model organism for gut microbiota research. INSECT SCIENCE 2022; 29:958-976. [PMID: 35567381 DOI: 10.1111/1744-7917.13040] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2022] [Revised: 03/07/2022] [Accepted: 03/21/2022] [Indexed: 06/15/2023]
Abstract
Eusocial bumble and honey bees are important pollinators for global ecology and the agricultural economy. Although both the bumble and honey bees possess similar and host-restricted gut microbiota, they differ in aspects of morphology, autonomy, physiology, behavior, and life cycle. The social bee gut bacteria exhibit host specificity that is likely a result of long-term co-evolution. The unique life cycle of bumblebees is key for the acquisition and development of their gut microbiota, and affects the strain-level diversity of the core bacterial species. Studies on bumblebee gut bacteria show that they retain less functional capacity for carbohydrate metabolism compared with that of the honeybee. We discuss the potential roles of the bumblebee gut microbiota against pathogenic threats and the application of host-specific probiotics for bumblebees. Given the advantages of the bumblebee microbiome, including the simple structure and host specificity, and the ease of manipulating bumblebee colonies, we propose that bumblebees may provide a valuable system for understanding the general principles of host-microbe interactions, gut-brain axis, and vertical transmission.
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Affiliation(s)
- Zi-Jing Zhang
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Hao Zheng
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
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Carpenter Bees ( Xylocopa) Harbor a Distinctive Gut Microbiome Related to That of Honey Bees and Bumble Bees. Appl Environ Microbiol 2022; 88:e0020322. [PMID: 35758673 PMCID: PMC9275229 DOI: 10.1128/aem.00203-22] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
Eusocial corbiculate bees, including bumble bees and honey bees, maintain a socially transmitted core gut microbiome that contributes to digestion and pathogen defense. In contrast, solitary bees, which have fewer opportunities for direct interhost transmission, typically have less consistent microbiomes dominated by bacteria associated with pollen and food reserves. Carpenter bees (genus Xylocopa) are long-lived bees that are not eusocial but that often live in shared nesting sites. We characterized gut microbiomes for Xylocopa micans, X. mexicanorum, X. tabaniformis parkinsoniae, and X. virginica and for five solitary bee species from other genera (Andrena, Habropoda, Megachile, and Svastra), sampled in the same localities in central Texas. Unexpectedly, all four Xylocopa species had microbiomes dominated by bacterial lineages previously known only from social bees or other insect groups. Microbiomes were similar across three Xylocopa species and included lineages in the families Bifidobacteriaceae, Orbaceae, Lactobacillaceae, Pseudomonadaceae, and Enterobacteriaceae. In contrast, X. virginica had a distinct microbiome dominated by the genus Bombilactobacillus, a group abundant in guts of eusocial bees. Phylogenetic analyses support a past transfer of bacterial lineages into Xylocopa from bumble bees or honey bees. Gut microbiome compositions of Xylocopa species were distinct from those of other co-occurring solitary bees that had variable gut microbiomes dominated by bacteria from environmental sources. IMPORTANCE Gut microbiomes from social bees, such as honey bees and bumble bees, are conserved and consist of host-restricted bacteria that are transmitted among sterile female workers within a colony and that are important to the health of these key insect pollinators. In contrast, solitary bee species typically have more erratic, environmentally acquired microbiomes. Carpenter bees (genus Xylocopa) can be solitary as they lack a worker caste, and each female can excavate nests and raise offspring alone, although females are often social share nests at least in some species. This study showed that the gut microbiomes of four Xylocopa species have distinctive and consistent compositions and are dominated by bacterial lineages previously known from honey bees and bumble bees. Thus, eusociality is not required for bees to maintain a specialized, host-restricted gut microbiome. These findings suggest that gut bacteria are transmitted at shared nesting sites and that they play a role in host ecology.
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Wang Q, Wang C, Wei Y, Yao W, Lei Y, Sun Y. Soil Microbes Drive the Flourishing Growth of Plants From Leucocalocybe mongolica Fairy Ring. Front Microbiol 2022; 13:893370. [PMID: 35668763 PMCID: PMC9164162 DOI: 10.3389/fmicb.2022.893370] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2022] [Accepted: 05/04/2022] [Indexed: 11/13/2022] Open
Abstract
Fairy ring is a natural phenomenon in which fungal fruiting bodies occur as a ring on a spot. This ring is produced due to spore ejection by Basidiomycetous fungi and forms a lush growing plant belt. However, the drivers for such formations and the potential plant growth-promoting rhizobacteria in fairy ring soils remain unknown. Fairy rings formed by Leucocalocybe mongolica were selected in this study. Soil characteristics and microbial (bacteria and fungi) community structures between beneath and outside the fairy rings were compared through high-throughput sequencing. Beneficial bacterial resources were excavated using dependent culturable methods. Soil electrical conductivity and available potassium were higher in the soil beneath the ring than outside it. These parameters were positively correlated with the dominant microbial community, but microbial diversity was lower. In the soil beneath the fairy ring, Bacteroidetes and Basidiomycota were more abundant, whereas Verrucomicrobia was less prevalent. Bacillus pumilus (strain BG-5) was isolated from the soil beneath the ring. Strain BG-5 can solubilize phosphorus and produce indole-3-acetic acid, NH4 +, and siderophores. Furthermore, strain BG-5 enhanced salt tolerance and promoted the growth of Arabidopsis thaliana, wheat (Triticum aestivum), and cotton (Gossypium hirsutum) seedlings. This study indicated the presence of abundant beneficial microbes driving the flourishing growth of plants in the fairy ring soil and provided bio-resources for agricultural growth-promoting agents.
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Affiliation(s)
- Qiqi Wang
- College of Life Sciences/Xinjiang Production and Construction Corps Key Laboratory of Oasis Town and Mountain-Basin System Ecology, Shihezi University, Shihezi, China
| | - Chong Wang
- Ürümqi Customs Technique Center, Ürümqi, China
| | - Yumei Wei
- College of Life Sciences/Xinjiang Production and Construction Corps Key Laboratory of Oasis Town and Mountain-Basin System Ecology, Shihezi University, Shihezi, China
| | - Weiqin Yao
- Ürümqi Customs Technique Center, Ürümqi, China
| | - Yonghui Lei
- Department of Plant protection, College of Agriculture, Shihezi University, Shihezi, China
| | - Yanfei Sun
- College of Life Sciences/Xinjiang Production and Construction Corps Key Laboratory of Oasis Town and Mountain-Basin System Ecology, Shihezi University, Shihezi, China
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Zhang W, Zhang X, Su Q, Tang M, Zheng H, Zhou X. Genomic features underlying the evolutionary transitions of Apibacter to honey bee gut symbionts. INSECT SCIENCE 2022; 29:259-275. [PMID: 33811731 DOI: 10.1111/1744-7917.12912] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2020] [Revised: 01/20/2021] [Accepted: 02/21/2021] [Indexed: 05/16/2023]
Abstract
The gut bacteria of honey bee recognized as a mutualistic partner with the insect host might have originated from a free-living or parasitic lifestyle. However, little is known about the genomic features underlying this lifestyle transition. Here we compared the genomes of bee gut bacteria Apibacter with their close relatives living in different lifestyles. We found that despite general reduction in the Apibacter genome, genes involved in amino acid synthesis and monosaccharide detoxification were retained, which is putatively beneficial to the host. Interestingly, the microaerobic Apibacter species specifically acquired genes encoding for the nitrate respiration (NAR). These together with nitrate transporter and enzymatic cofactor synthesis genes were found clustered in the genomes. The NAR system is also conserved in the cohabitating bee gut microbe Snodgrassella, although with a different structure. This convergence suggests a key role of respiratory nitrate reduction for microaerophilic microbiomes to colonize bee gut epithelium. Genes involved in lipid, histidine degradation were found partially or completely lost in Apibacter. Particularly, genes encoding for the conversion to the toxic intermediates in phenylacetate degradation, as well as other potential virulence factors, are specifically lost in Apibacter group. Antibiotic resistance genes are only sporadically distributed among Apibacter species, but are prevalent in their relatives, which may be related to the remotely living feature and less exposure to antibiotics of their bee hosts. Collectively, this study advanced our knowledge of genomic features specialized to bee gut symbionts.
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Affiliation(s)
- Wenjun Zhang
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Xue Zhang
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Qinzhi Su
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Min Tang
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
| | - Hao Zheng
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Xin Zhou
- Department of Entomology, College of Plant Protection, China Agricultural University, Beijing, China
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Zhao K, Wu H, Hou R, Wu J, Wang Y, Huang S, Cheng D, Xu H, Zhang Z. Effects of sublethal azadirachtin on the immune response and midgut microbiome of Apis cerana cerana (Hymenoptera: Apidae). ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2022; 229:113089. [PMID: 34929506 DOI: 10.1016/j.ecoenv.2021.113089] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Revised: 12/10/2021] [Accepted: 12/13/2021] [Indexed: 06/14/2023]
Abstract
As a wildly used plant-derived insecticide, azadirachtin (AZA) is commonly reported as harmless to a range of beneficial insects. However, with the research on the effect of AZA against pollinators in recent years, various negative physiological effects on other Apidae species have been demonstrated. Thus to explore the safety of azadirachtin to Apis cerana cerana, the different physiological effects of sublethal concentration of azadirachtin on worker bees A.c.cerana has been studied. With the exposure of 5 mg·L-1 and 10 mg·L-1 azadirachtin for 5 d, the relative expression of Apidaecin, Abaecin and Lysosome genes in workers has decreased significantly at 1, 2,3 and 5 d, and the mRNA levels of Defensin 2 and Hymenoptaecin were also significantly inhibited by 10 mg·L-1 azadirachtin at each check point. Besides, the activity of midgut antioxidant enzymes Superoxide Dismutase (SOD) and Catalase (CAT) which are the first line of defence in antioxidant systems was not affected by AZA, the activity of Peroxidase (POD) showed a fluctuating pattern at 24 h and 48 h, while the activity of polyphenol oxidase (PPO) has significantly inhibited by AZA. However, through 16sRNA analysis it was observed that 5 mg·L-1 AZA did not affect the midgut microbiome colony composition and relative abundance, as well as its main function. Therefore, to a certain extent, azadirachtin is safe for workers, but we should pay more attention to the sublethal effect of AZA that also detrimental to the healthy development of the honeybee colony.
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Affiliation(s)
- Kunyu Zhao
- Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China
| | - Hao Wu
- Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China
| | - Ruiquan Hou
- Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China
| | - Jiyingzi Wu
- Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China
| | - Yongqing Wang
- Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China
| | - Suqing Huang
- Zhongkai University of Agriculture and Engineering, Guangzhou 510225, China
| | - Dongmei Cheng
- Zhongkai University of Agriculture and Engineering, Guangzhou 510225, China
| | - Hanhong Xu
- Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China.
| | - Zhixiang Zhang
- Key Laboratory of Natural Pesticide and Chemical Biology, Ministry of Education, South China Agricultural University, Guangzhou 510642, China.
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11
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Li F, Zhao W, Hong Q, Shao Q, Song J, Yang S. Faecalibacter bovis sp. nov., isolated from cow faeces. Int J Syst Evol Microbiol 2021; 71. [PMID: 34788211 DOI: 10.1099/ijsem.0.005104] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, non-spore-forming, yellow-pigmented, aerobic, pleomorphic rod-shaped bacterium, designated ZY171143T, was isolated from faeces of a cow with diarrhoea in Wenshan, Yunnan Province, south-west China and its taxonomic position was studied. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain ZY171143T belonged to the family Weeksellaceae and was most closely related to the only species of the genus Faecalibacter, Faecalibacter macacae CCTCC AB 2016016T with a sequence similarity of 97.8 %. The genomic OrthoANI and digital DNA-DNA hybridization values between the strain and F. macacae CCTCC AB 2016016T were 86.2 and 30.5 %, respectively. The genomic G+C content was 31.1 mol%. The predominant fatty acids (>5 %) were C15 : 0 iso, C17 : 0 iso 3OH, C16 : 0, C16 : 1 ω5c and summed feature 3 (C16 : 1 ω7c and/or 16 : 1 ω6c). The major polar lipids were phosphatidylethanolamine, triacylglycerol and sulfonolipid. The sole respiratory quinone was MK-6. These chemotaxonomic characterizations also revealed that strain ZY171143T was a member of the genus Faecalibacter. Based on the phenotypic, chemotaxonomic and genotypic data, strain ZY171143T represents a novel species within the genus Faecalibacter, for which the name Faecalibacter bovis sp. nov. is proposed. The type strain is ZY171143T (=CGMCC 1.13663T=KCTC 62642T).
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Affiliation(s)
- Fuxiang Li
- Yunnan Tropical and Subtropical Animal Virus Diseases Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, PR China
| | - Wenhua Zhao
- Yunnan Tropical and Subtropical Animal Virus Diseases Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, PR China
| | - Qionghua Hong
- Yunnan Provincial Meat Caprine Engineering Research Center, Yunnan Animal Science and Veterinary Institute, Kunming, PR China
| | - Qingyong Shao
- Yunnan Provincial Meat Caprine Engineering Research Center, Yunnan Animal Science and Veterinary Institute, Kunming, PR China
| | - Jianling Song
- Yunnan Tropical and Subtropical Animal Virus Diseases Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, PR China
| | - Shibiao Yang
- Yunnan Tropical and Subtropical Animal Virus Diseases Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, PR China
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12
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Panjad P, Yongsawas R, Sinpoo C, Pakwan C, Subta P, Krongdang S, In-on A, Chomdej S, Chantawannakul P, Disayathanoowat T. Impact of Nosema Disease and American Foulbrood on Gut Bacterial Communities of Honeybees Apis mellifera. INSECTS 2021; 12:insects12060525. [PMID: 34204079 PMCID: PMC8227250 DOI: 10.3390/insects12060525] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Revised: 06/02/2021] [Accepted: 06/03/2021] [Indexed: 12/21/2022]
Abstract
Honeybees, Apis mellifera, are important pollinators of many economically important crops. However, one of the reasons for their decline is pathogenic infection. Nosema disease and American foulbrood (AFB) disease are the most common bee pathogens that propagate in the gut of honeybees. This study investigated the impact of gut-propagating pathogens, including Nosema ceranae and Paenibacillus larvae, on bacterial communities in the gut of A. mellifera using 454-pyrosequencing. Pyrosequencing results showed that N. ceranae was implicated in the elimination of Serratia and the dramatic increase in Snodgrassella and Bartonella in adult bees' guts, while bacterial communities of P. larvae-infected larvae were not affected by the infection. The results indicated that only N. ceranae had an impact on some core bacteria in the gut of A. mellifera through increasing core gut bacteria, therefore leading to the induction of dysbiosis in the bees' gut.
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Affiliation(s)
- Poonnawat Panjad
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.P.); (R.Y.); (C.S.); (C.P.); (P.S.); (S.C.); (P.C.)
| | - Rujipas Yongsawas
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.P.); (R.Y.); (C.S.); (C.P.); (P.S.); (S.C.); (P.C.)
| | - Chainarong Sinpoo
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.P.); (R.Y.); (C.S.); (C.P.); (P.S.); (S.C.); (P.C.)
| | - Chonthicha Pakwan
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.P.); (R.Y.); (C.S.); (C.P.); (P.S.); (S.C.); (P.C.)
| | - Phakamas Subta
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.P.); (R.Y.); (C.S.); (C.P.); (P.S.); (S.C.); (P.C.)
| | - Sasiprapa Krongdang
- Faculty of Science and Social Sciences, Burapha University Sakaeo Campus, Sakaeo 27160, Thailand;
| | - Ammarin In-on
- Bioinformatics & Systems Biology Program, King Mongkut’s University of Technology Thonburi (Bang Khun Thian Campus), Bang Khun Thian, Bangkok 10150, Thailand;
| | - Siriwadee Chomdej
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.P.); (R.Y.); (C.S.); (C.P.); (P.S.); (S.C.); (P.C.)
- Center of Excellence in Bioresources for Agriculture, Industry and Medicine, Chiang Mai University, Chiang Mai 50200, Thailand
| | - Panuwan Chantawannakul
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.P.); (R.Y.); (C.S.); (C.P.); (P.S.); (S.C.); (P.C.)
- Center of Excellence in Bioresources for Agriculture, Industry and Medicine, Chiang Mai University, Chiang Mai 50200, Thailand
| | - Terd Disayathanoowat
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.P.); (R.Y.); (C.S.); (C.P.); (P.S.); (S.C.); (P.C.)
- Center of Excellence in Bioresources for Agriculture, Industry and Medicine, Chiang Mai University, Chiang Mai 50200, Thailand
- Center of Excellence in Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai 50200, Thailand
- Correspondence: ; Tel.: +66-81-7249624
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13
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Nowak A, Szczuka D, Górczyńska A, Motyl I, Kręgiel D. Characterization of Apis mellifera Gastrointestinal Microbiota and Lactic Acid Bacteria for Honeybee Protection-A Review. Cells 2021; 10:cells10030701. [PMID: 33809924 PMCID: PMC8004194 DOI: 10.3390/cells10030701] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2021] [Revised: 03/17/2021] [Accepted: 03/19/2021] [Indexed: 12/15/2022] Open
Abstract
Numerous honeybee (Apis mellifera) products, such as honey, propolis, and bee venom, are used in traditional medicine to prevent illness and promote healing. Therefore, this insect has a huge impact on humans’ way of life and the environment. While the population of A. mellifera is large, there is concern that widespread commercialization of beekeeping, combined with environmental pollution and the action of bee pathogens, has caused significant problems for the health of honeybee populations. One of the strategies to preserve the welfare of honeybees is to better understand and protect their natural microbiota. This paper provides a unique overview of the latest research on the features and functioning of A. mellifera. Honeybee microbiome analysis focuses on both the function and numerous factors affecting it. In addition, we present the characteristics of lactic acid bacteria (LAB) as an important part of the gut community and their special beneficial activities for honeybee health. The idea of probiotics for honeybees as a promising tool to improve their health is widely discussed. Knowledge of the natural gut microbiota provides an opportunity to create a broad strategy for honeybee vitality, including the development of modern probiotic preparations to use instead of conventional antibiotics, environmentally friendly biocides, and biological control agents.
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Affiliation(s)
- Adriana Nowak
- Department of Environmental Biotechnology, Lodz University of Technology, Wólczańska 171/173, 90-924 Łódź, Poland; (D.S.); (I.M.); (D.K.)
- Correspondence:
| | - Daria Szczuka
- Department of Environmental Biotechnology, Lodz University of Technology, Wólczańska 171/173, 90-924 Łódź, Poland; (D.S.); (I.M.); (D.K.)
| | - Anna Górczyńska
- Faculty of Law and Administration, University of Lodz, Kopcińskiego 8/12, 90-232 Łódź, Poland;
| | - Ilona Motyl
- Department of Environmental Biotechnology, Lodz University of Technology, Wólczańska 171/173, 90-924 Łódź, Poland; (D.S.); (I.M.); (D.K.)
| | - Dorota Kręgiel
- Department of Environmental Biotechnology, Lodz University of Technology, Wólczańska 171/173, 90-924 Łódź, Poland; (D.S.); (I.M.); (D.K.)
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14
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Heliconius Butterflies Host Characteristic and Phylogenetically Structured Adult-Stage Microbiomes. Appl Environ Microbiol 2020; 86:AEM.02007-20. [PMID: 33008816 DOI: 10.1128/aem.02007-20] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2020] [Accepted: 09/22/2020] [Indexed: 12/13/2022] Open
Abstract
Lepidoptera (butterflies and moths) are diverse and ecologically important, yet we know little about how they interact with microbes as adults. Due to metamorphosis, the form and function of their adult-stage microbiomes might be very different from those of microbiomes in the larval stage (caterpillars). We studied adult-stage microbiomes of Heliconius and closely related passion-vine butterflies (Heliconiini), which are an important model system in evolutionary biology. To characterize the structure and dynamics of heliconiine microbiomes, we used field collections of wild butterflies, 16S rRNA gene sequencing, quantitative PCR, and shotgun metagenomics. We found that Heliconius butterflies harbor simple and abundant bacterial communities that are moderately consistent among conspecific individuals and over time. Heliconiine microbiomes also exhibited a strong signal of the host phylogeny, with a major distinction between Heliconius and other butterflies. These patterns were largely driven by differing relative abundances of bacterial phylotypes shared among host species and genera, as opposed to the presence or absence of host-specific phylotypes. We suggest that the phylogenetic structure in heliconiine microbiomes arises from conserved host traits that differentially filter microbes from the environment. While the relative importance of different traits remains unclear, our data indicate that pollen feeding (unique to Heliconius) is not a primary driver. Using shotgun metagenomics, we also discovered trypanosomatids and microsporidia to be prevalent in butterfly guts, raising the possibility of antagonistic interactions between eukaryotic parasites and colocalized gut bacteria. Our discovery of characteristic and phylogenetically structured microbiomes provides a foundation for tests of adult-stage microbiome function, a poorly understood aspect of lepidopteran biology.IMPORTANCE Many insects host microbiomes with important ecological functions. However, the prevalence of this phenomenon is unclear because in many insect taxa, microbiomes have been studied in only part of the life cycle, if at all. A prominent example is butterflies and moths, in which the composition and functional role of adult-stage microbiomes are largely unknown. We comprehensively characterized microbiomes in adult passion-vine butterflies. Butterfly-associated bacterial communities are generally abundant in guts, consistent within populations, and composed of taxa widely shared among hosts. More closely related butterflies harbor more similar microbiomes, with the most dramatic shift in microbiome composition occurring in tandem with a suite of ecological and life history traits unique to the genus Heliconius Butterflies are also frequently infected with previously undescribed eukaryotic parasites, which may interact with bacteria in important ways. These findings advance our understanding of butterfly biology and insect-microbe interactions generally.
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15
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Tola YH, Waweru JW, Hurst GDD, Slippers B, Paredes JC. Characterization of the Kenyan Honey Bee ( Apis mellifera) Gut Microbiota: A First Look at Tropical and Sub-Saharan African Bee Associated Microbiomes. Microorganisms 2020; 8:microorganisms8111721. [PMID: 33153032 PMCID: PMC7692941 DOI: 10.3390/microorganisms8111721] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2020] [Revised: 10/28/2020] [Accepted: 10/29/2020] [Indexed: 12/15/2022] Open
Abstract
Gut microbiota plays important roles in many physiological processes of the host including digestion, protection, detoxification, and development of immune responses. The honey bee (Apis mellifera) has emerged as model for gut-microbiota host interaction studies due to its gut microbiota being highly conserved and having a simple composition. A key gap in this model is understanding how the microbiome differs regionally, including sampling from the tropics and in particular from Africa. The African region is important from the perspective of the native diversity of the bees, and differences in landscape and bee management. Here, we characterized the honey bee gut microbiota in sub-Saharan Africa using 16S rRNA amplicon sequencing. We confirm the presence of the core gut microbiota members and highlight different compositions of these communities across regions. We found that bees from the coastal regions harbor a higher relative abundance and diversity on core members. Additionally, we showed that Gilliamella, Snodgrassella, and Frischella dominate in all locations, and that altitude and humidity affect Gilliamella abundance. In contrast, we found that Lactobacillus was less common compared temperate regions of the world. This study is a first comprehensive characterization of the gut microbiota of honey bees from sub-Saharan Africa and underscores the need to study microbiome diversity in other indigenous bee species and regions.
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Affiliation(s)
- Yosef Hamba Tola
- International Centre of Insect Physiology and Ecology (icipe), Nairobi 30772-00100, Kenya; (Y.H.T.); (J.W.W.)
- Department of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria 0002, South Africa;
| | - Jacqueline Wahura Waweru
- International Centre of Insect Physiology and Ecology (icipe), Nairobi 30772-00100, Kenya; (Y.H.T.); (J.W.W.)
| | - Gregory D. D. Hurst
- Institute of Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool L69 3BX, UK;
| | - Bernard Slippers
- Department of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria 0002, South Africa;
| | - Juan C. Paredes
- International Centre of Insect Physiology and Ecology (icipe), Nairobi 30772-00100, Kenya; (Y.H.T.); (J.W.W.)
- Correspondence:
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16
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Subta P, Yodsuwan P, Yongsawas R, In-on A, Warrit N, Panha S, Khongphinitbunjong K, Chantawannakul P, Attasopa K, Disayathanoowat T. Bacterial Communities in Three Parts of Intestinal Tracts of Carpenter Bees ( Xylocopa tenuiscapa). INSECTS 2020; 11:E497. [PMID: 32756386 PMCID: PMC7469164 DOI: 10.3390/insects11080497] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/01/2020] [Revised: 07/27/2020] [Accepted: 07/30/2020] [Indexed: 11/16/2022]
Abstract
This study investigated different bacterial communities in three intestinal parts (foregut, midgut and hindgut) of Xylocopatenuiscapa to understand the roles of gut bacteria. Our phylogenetic analysis revealed that X. tenuiscapa is closely related to Xylocopa latipes. The 16S rRNA gene in the genomic DNA samples from the gut was examined by illumina (Solexa) and a total of 998 operational taxonomic unit (OTUs) clusters were found. Taxonomic classification identified 16 bacterial phyla and unclassified bacteria. The dominant bacteria taxa in the three parts of X. tenuiscapa gut were Proteobacteria, Firmicutes, Bacteroidetes and Actinobacteria. In the foregut, Lactobacillales and Enterobacteriaceae were predominantly found. The population in the midgut was similar to that in the foregut, with the addition of Gilliamella, which was also abundant. The most dominant bacteria identified in the hindgut were similar to those in the midgut and Lactobacillales, Enterobacteriaceae, Gilliamella, Bifidobacteriaceae and Flavobacteriaceae appeared in abundance. Moreover, our results suggest that a community structure of bacteria in different parts of X. tenuiscapa's gut may be an important indicator of carpenter bees' health. This functional study of bacterial communities revealed significant differences among the three intestinal parts and is the first report of the gut bacteria structure in solitary bees.
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Affiliation(s)
- Phakamas Subta
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.S.); (P.Y.); (R.Y.); (P.C.)
| | - Phongsathon Yodsuwan
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.S.); (P.Y.); (R.Y.); (P.C.)
| | - Rujipas Yongsawas
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.S.); (P.Y.); (R.Y.); (P.C.)
| | - Ammarin In-on
- Bioinformatics & Systems Biology Program, King Mongkut’s University of Technology Thonburi (Bang Khun Thian Campus), Bang Khun Thian, Bangkok 10150, Thailand;
| | - Natapot Warrit
- Center of Excellence in Entomology, Department of Biology, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand;
| | - Somsak Panha
- Department of Biology, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand;
| | | | - Panuwan Chantawannakul
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.S.); (P.Y.); (R.Y.); (P.C.)
| | - Korrawat Attasopa
- Department of Entomology and Plant Pathology, Faculty of Agriculture, Chiang Mai University, Chiang Mai 50200, Thailand;
| | - Terd Disayathanoowat
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand; (P.S.); (P.Y.); (R.Y.); (P.C.)
- Research Center in Bioresources for Agriculture, Industry and Medicine, Chiang Mai University, Chiang Mai 50200, Thailand
- Research Center of Microbial Diversity and Sustainable Utilization, Chiang Mai University, Chiang Mai 50200, Thailand
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17
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Huang Y, Wang X, Yang J, Lu S, Lai XH, Jin D, Pu J, Huang Y, Ren Z, Zhu W, Liang H, Zhou P, Shi Z, Xu J. Apibacter raozihei sp. nov. isolated from bat feces of Hipposideros and Taphozous spp. Int J Syst Evol Microbiol 2020; 70:611-617. [PMID: 31661042 DOI: 10.1099/ijsem.0.003801] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022] Open
Abstract
Strains HY041T and HY039 were oxidase- and Gram-stain-negative, catalase-positive, rod-shaped, non-motile, and facultatively anaerobic bacteria. They were isolated from the feces of bats of the Hipposideros and Taphozous spp. collected from Chongqing City and Guangxi province (PR China), respectively. Phylogenetic analysis based on the 16S rRNA gene and 463 core genes indicated that HY041T and HY039 represent members of the genus Apibacter, forming a clade with Apibacter adventoris wkB301T (95.2 % 16S rRNA gene sequence similarity) and Apibacter mensalis R-53146T (94.0 %). In silico DNA-DNA hybridization (isDDH) and average nucleotide identity (ANI) values of our isolates with the most closely related species were lower than the 70 % and 95-96 % threshold, respectively, in contrast to values above these two thresholds (isDDH value: 89.1 %; ANI value: 98.5 %) between strains HY041T and HY039. The novel isolates could grow on nutrient and MacConkey agar. HY041T and HY039 could produce β-galactosidase and N-acetyl-β-glucosaminidase, and utilize d-adonitol, d-mannose, gentiobiose, glucose and salicin. The major fatty acids (>10.0 %) of HY041T were iso-C17 : 0 3OH, iso-C15 : 0, C16 : 0, summed feature 9 (C16 : 0 10-methyl and/or iso-C17 : 1ω9c) and C16 : 0 3OH. Polar lipids included phosphatidylethanolamine, glycolipid, two unidentified aminolipids and four unidentified lipids. Menaquinone 6 (MK-6) was the sole respiratory quinone. On the basis of all analyses so far, strains HY041T and HY039 represent a novel species of the genus Apibacter, for which the name Apibacter raozihei sp. nov. is proposed. The type strain is HY041T (=CGMCC 1.16567T=JCM 33423T) with a genomic DNA G+C content of 32.2 mol%.
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Affiliation(s)
- Yuyuan Huang
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, PR China.,Guangxi Key Laboratory of AIDS Prevention and Treatment & Guangxi Collaborative Innovation Center for Biomedicine, School of Public Health, Guangxi Medical University, Nanning 530021, Guangxi, PR China
| | - Xiaoxia Wang
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, PR China.,Guangxi Key Laboratory of AIDS Prevention and Treatment & Guangxi Collaborative Innovation Center for Biomedicine, School of Public Health, Guangxi Medical University, Nanning 530021, Guangxi, PR China
| | - Jing Yang
- Research Units of Discovery of Unknown Bacteria and Function, Chinese Academy of Medical Sciences, Beijing 100730, PR China.,Shanghai Institute for Emerging and Re-emerging Infectious Diseases, Shanghai Public Health Clinical Center, Shanghai 201508, PR China.,State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, PR China
| | - Shan Lu
- Research Units of Discovery of Unknown Bacteria and Function, Chinese Academy of Medical Sciences, Beijing 100730, PR China.,Shanghai Institute for Emerging and Re-emerging Infectious Diseases, Shanghai Public Health Clinical Center, Shanghai 201508, PR China.,State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, PR China
| | - Xin-He Lai
- School of Biology and Food Sciences, Shangqiu Normal University, Shangqiu, Henan 476000, PR China
| | - Dong Jin
- Research Units of Discovery of Unknown Bacteria and Function, Chinese Academy of Medical Sciences, Beijing 100730, PR China.,Shanghai Institute for Emerging and Re-emerging Infectious Diseases, Shanghai Public Health Clinical Center, Shanghai 201508, PR China.,State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, PR China
| | - Ji Pu
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, PR China
| | - Ying Huang
- State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, PR China
| | - Zhihong Ren
- Research Units of Discovery of Unknown Bacteria and Function, Chinese Academy of Medical Sciences, Beijing 100730, PR China.,State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, PR China
| | - Wentao Zhu
- Shanghai Institute for Emerging and Re-emerging Infectious Diseases, Shanghai Public Health Clinical Center, Shanghai 201508, PR China
| | - Hao Liang
- Guangxi Key Laboratory of AIDS Prevention and Treatment & Guangxi Collaborative Innovation Center for Biomedicine, School of Public Health, Guangxi Medical University, Nanning 530021, Guangxi, PR China
| | - Peng Zhou
- CAS Key Laboratory of Special Pathogens and Biosafety, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, PR China
| | - Zhengli Shi
- CAS Key Laboratory of Special Pathogens and Biosafety, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, PR China
| | - Jianguo Xu
- Shanghai Institute for Emerging and Re-emerging Infectious Diseases, Shanghai Public Health Clinical Center, Shanghai 201508, PR China.,Guangxi Key Laboratory of AIDS Prevention and Treatment & Guangxi Collaborative Innovation Center for Biomedicine, School of Public Health, Guangxi Medical University, Nanning 530021, Guangxi, PR China.,Research Units of Discovery of Unknown Bacteria and Function, Chinese Academy of Medical Sciences, Beijing 100730, PR China.,State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing 102206, PR China
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Park R, Dzialo MC, Spaepen S, Nsabimana D, Gielens K, Devriese H, Crauwels S, Tito RY, Raes J, Lievens B, Verstrepen KJ. Microbial communities of the house fly Musca domestica vary with geographical location and habitat. MICROBIOME 2019; 7:147. [PMID: 31699144 PMCID: PMC6839111 DOI: 10.1186/s40168-019-0748-9] [Citation(s) in RCA: 53] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Accepted: 09/09/2019] [Indexed: 05/20/2023]
Abstract
House flies (Musca domestica) are widespread, synanthropic filth flies commonly found on decaying matter, garbage, and feces as well as human food. They have been shown to vector microbes, including clinically relevant pathogens. Previous studies have demonstrated that house flies carry a complex and variable prokaryotic microbiota, but the main drivers underlying this variability and the influence of habitat on the microbiota remain understudied. Moreover, the differences between the external and internal microbiota and the eukaryotic components have not been examined. To obtain a comprehensive view of the fly microbiota and its environmental drivers, we sampled over 400 flies from two geographically distinct countries (Belgium and Rwanda) and three different environments-farms, homes, and hospitals. Both the internal as well as external microbiota of the house flies were studied, using amplicon sequencing targeting both bacteria and fungi. Results show that the house fly's internal bacterial community is very diverse yet relatively consistent across geographic location and habitat, dominated by genera Staphylococcus and Weissella. The external bacterial community, however, varies with geographic location and habitat. The fly fungal microbiota carries a distinct signature correlating with the country of sampling, with order Capnodiales and genus Wallemia dominating Belgian flies and genus Cladosporium dominating Rwandan fly samples. Together, our results reveal an intricate country-specific pattern for fungal communities, a relatively stable internal bacterial microbiota and a variable external bacterial microbiota that depends on geographical location and habitat. These findings suggest that vectoring of a wide spectrum of environmental microbes occurs principally through the external fly body surface, while the internal microbiome is likely more limited by fly physiology.
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Affiliation(s)
- Rahel Park
- VIB-KU Leuven Center for Microbiology, Gaston Geenslaan 1, 3001, Leuven, Belgium
- CMPG Laboratory of Genetics and Genomics, Department M2S, KU Leuven, Gaston Geenslaan 1, 3001, Leuven, Belgium
- Leuven Institute for Beer Research (LIBR), Gaston Geenslaan 1, 3001, Leuven, Belgium
| | - Maria C Dzialo
- VIB-KU Leuven Center for Microbiology, Gaston Geenslaan 1, 3001, Leuven, Belgium
- CMPG Laboratory of Genetics and Genomics, Department M2S, KU Leuven, Gaston Geenslaan 1, 3001, Leuven, Belgium
- Leuven Institute for Beer Research (LIBR), Gaston Geenslaan 1, 3001, Leuven, Belgium
| | - Stijn Spaepen
- CMPG Laboratory of Genetics and Genomics, Department M2S, KU Leuven, Gaston Geenslaan 1, 3001, Leuven, Belgium
- Leuven Institute for Beer Research (LIBR), Gaston Geenslaan 1, 3001, Leuven, Belgium
| | - Donat Nsabimana
- Biology Department, School of Science, College of Science and technology, University of Rwanda, RN1, Butare, Rwanda
| | - Kim Gielens
- VIB-KU Leuven Center for Microbiology, Gaston Geenslaan 1, 3001, Leuven, Belgium
- CMPG Laboratory of Genetics and Genomics, Department M2S, KU Leuven, Gaston Geenslaan 1, 3001, Leuven, Belgium
- Leuven Institute for Beer Research (LIBR), Gaston Geenslaan 1, 3001, Leuven, Belgium
| | - Herman Devriese
- Safety, Health & Environment Department, UZ Leuven, Herestraat 49, 3000, Leuven, Belgium
| | - Sam Crauwels
- Leuven Institute for Beer Research (LIBR), Gaston Geenslaan 1, 3001, Leuven, Belgium
- Laboratory for Process Microbial Ecology and Bioinspirational Management (PME&BIM), Department M2S, KU Leuven, Campus De Nayer, Fortsesteenweg 30A, 2860, Sint-Katelijne Waver, Belgium
| | - Raul Y Tito
- VIB-KU Leuven Center for Microbiology, Gaston Geenslaan 1, 3001, Leuven, Belgium
- Bioinformatics and (eco-)systems biology lab, Department of Microbiology and Immunology, Rega institute, KU Leuven, Herestraat 49, 3000, Leuven, Belgium
| | - Jeroen Raes
- VIB-KU Leuven Center for Microbiology, Gaston Geenslaan 1, 3001, Leuven, Belgium
- Bioinformatics and (eco-)systems biology lab, Department of Microbiology and Immunology, Rega institute, KU Leuven, Herestraat 49, 3000, Leuven, Belgium
| | - Bart Lievens
- Leuven Institute for Beer Research (LIBR), Gaston Geenslaan 1, 3001, Leuven, Belgium
- Laboratory for Process Microbial Ecology and Bioinspirational Management (PME&BIM), Department M2S, KU Leuven, Campus De Nayer, Fortsesteenweg 30A, 2860, Sint-Katelijne Waver, Belgium
| | - Kevin J Verstrepen
- VIB-KU Leuven Center for Microbiology, Gaston Geenslaan 1, 3001, Leuven, Belgium.
- CMPG Laboratory of Genetics and Genomics, Department M2S, KU Leuven, Gaston Geenslaan 1, 3001, Leuven, Belgium.
- Leuven Institute for Beer Research (LIBR), Gaston Geenslaan 1, 3001, Leuven, Belgium.
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Park R, Dzialo MC, Nsabimana D, Lievens B, Verstrepen KJ. Apibacter muscae sp. nov., a novel bacterial species isolated from house flies. Int J Syst Evol Microbiol 2019; 69:3586-3592. [PMID: 31460862 DOI: 10.1099/ijsem.0.003667] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
We describe the isolation and characterization of three bacterial isolates from the common house fly, Musca domestica, caught in Londerzeel, Belgium and Huye District, Rwanda. Although isolated from distinct geographical locations, the strains show >99 % identical 16S rRNA gene sequences and are <95 % identical to type strains of Apibacter species. Whole-genome sequences were obtained for all three strains. The genomes are 2.4-2.5 Mb with a G+C content of ~30.3 mol%. Bacteriological and biochemical analysis of the strains demonstrate distinctly different characteristics compared to known Apibacter species. Particularly, the three strains investigated in this study can be distinguished from the known Apibacter species (Apibacter mensalisand Apibacter adventoris) through urease and β-glucosidase activities. Whole-cell fatty acid methyl ester analysis shows that the fatty acid composition of the novel strains is also unique. On the basis of phylogenetic, genotypic and phenotypic data, we propose to classify these isolates as representatives of a novel species of the genus Apibacter, Apibacter muscae sp. nov., in reference to its prevalence in house flies, with strain G8T (=LMG 30898T=DSM 107922T) as the type strain.
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Affiliation(s)
- Rahel Park
- Leuven Institute for BeerResearch (LIBR), Gaston Geenslaan 1, 3001 Leuven, Belgium.,CMPG Laboratory of Genetics andGenomics, Department M2S, KU Leuven, Gaston Geenslaan 1, 3001 Leuven, Belgium.,VIB - KU Leuven Center for Microbiology, Gaston Geenslaan 1, 3001 Leuven, Belgium
| | - Maria C Dzialo
- Leuven Institute for BeerResearch (LIBR), Gaston Geenslaan 1, 3001 Leuven, Belgium.,CMPG Laboratory of Genetics andGenomics, Department M2S, KU Leuven, Gaston Geenslaan 1, 3001 Leuven, Belgium.,VIB - KU Leuven Center for Microbiology, Gaston Geenslaan 1, 3001 Leuven, Belgium
| | - Donat Nsabimana
- Biology Department, School of Science, College of Science and Technology, University of Rwanda, Kigali, Rwanda
| | - Bart Lievens
- Laboratory for ProcessMicrobial Ecology and Bioinspirational Management (PME&BIM), DepartmentM2S, KU Leuven, Campus De Nayer, Fortsesteenweg30A, 2860 Sint-Katelijne Waver, Belgium.,Leuven Institute for BeerResearch (LIBR), Gaston Geenslaan 1, 3001 Leuven, Belgium
| | - Kevin J Verstrepen
- VIB - KU Leuven Center for Microbiology, Gaston Geenslaan 1, 3001 Leuven, Belgium.,CMPG Laboratory of Genetics andGenomics, Department M2S, KU Leuven, Gaston Geenslaan 1, 3001 Leuven, Belgium.,Leuven Institute for BeerResearch (LIBR), Gaston Geenslaan 1, 3001 Leuven, Belgium
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20
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Ribière C, Hegarty C, Stephenson H, Whelan P, O'Toole PW. Gut and Whole-Body Microbiota of the Honey Bee Separate Thriving and Non-thriving Hives. MICROBIAL ECOLOGY 2019; 78:195-205. [PMID: 30467713 DOI: 10.1007/s00248-018-1287-9] [Citation(s) in RCA: 37] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2018] [Accepted: 11/06/2018] [Indexed: 05/23/2023]
Abstract
The recent worldwide decline of honey bee colonies is a major ecological problem which also threatens pollinated crop production. Several interacting stressors such as environmental pressures and pathogens are suspected. Recently, the gut microbiota has emerged as a critical factor affecting bee health and fitness. We profiled the bacterial communities associated with the gut and whole body of worker bees to assess whether non-thriving colonies could be separated from thriving hives based on their microbial signature. The microbiota of thriving colonies was characterised by higher diversity and higher relative abundance of bacterial taxa involved in sugar degradation that were previously associated with healthy bees (e.g. Commensalibacter sp. and Bartonella apis). In contrast, the microbiota of non-thriving bees was depleted in health-associated species (e.g. Lactobacillus apis), and bacterial taxa associated with disease states (e.g. Gilliamella apicola) and pollen degradation (e.g. G. apicola and Bifidobacterium asteroides) were present in higher abundance compared to thriving colonies. Gut and whole-body microbiota shared a similar dominant core but their comparison showed differences in composition and relative abundance. More differences in taxon relative abundance between gut and whole body were observed in non-thriving bees, suggesting that microbiota associated with other bee organs might also be different. Thus, microbiota profiling could be used as a diagnostic tool in beekeeping practices to predict hive health and guide hive management.
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Affiliation(s)
- Céline Ribière
- School of Microbiology and APC Microbiome Ireland, Food Science Building, University College Cork, Cork, T12 YN60, Ireland
| | - Claire Hegarty
- School of Microbiology and APC Microbiome Ireland, Food Science Building, University College Cork, Cork, T12 YN60, Ireland
| | - Hannah Stephenson
- School of Microbiology and APC Microbiome Ireland, Food Science Building, University College Cork, Cork, T12 YN60, Ireland
| | - Padraig Whelan
- Apis Protect Limited, Environmental Research Centre, Lee Road, Cork, Ireland
| | - Paul W O'Toole
- School of Microbiology and APC Microbiome Ireland, Food Science Building, University College Cork, Cork, T12 YN60, Ireland.
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21
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Honey bees as models for gut microbiota research. Lab Anim (NY) 2018; 47:317-325. [PMID: 30353179 DOI: 10.1038/s41684-018-0173-x] [Citation(s) in RCA: 163] [Impact Index Per Article: 27.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2018] [Accepted: 08/07/2018] [Indexed: 12/15/2022]
Abstract
The gut microbiota of the honey bee (Apis mellifera) offers several advantages as an experimental system for addressing how gut communities affect their hosts and for exploring the processes that determine gut community composition and dynamics. A small number of bacterial species dominate the honey bee gut community. These species are restricted to bee guts and can be grown axenically and genetically manipulated. Large numbers of microbiota-free hosts can be economically reared and then inoculated with single isolates or defined communities to examine colonization patterns and effects on host phenotypes. Honey bees have been studied extensively, due to their importance as agricultural pollinators and as models for sociality. Because of this history of bee research, the physiology, development, and behavior of honey bees is relatively well understood, and established behavioral and phenotypic assays are available. To date, studies on the honey bee gut microbiota show that it affects host nutrition, weight gain, endocrine signaling, immune function, and pathogen resistance, while perturbation of the microbiota can lead to reduced host fitness. As in humans, the microbiota is concentrated in the distal part of the gut, where it contributes to digestion and fermentation of plant cell wall components. Much like the human gut microbiota, many bee gut bacteria are specific to the bee gut and can be directly transmitted between individuals through social interaction. Although simpler than the human gut microbiota, the bee gut community presents opportunities to understand the processes that govern the assembly of specialized gut communities as well as the routes through which gut communities impact host biology.
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22
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Abstract
Glyphosate, the primary herbicide used globally for weed control, targets the 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) enzyme in the shikimate pathway found in plants and some microorganisms. Thus, glyphosate may affect bacterial symbionts of animals living near agricultural sites, including pollinators such as bees. The honey bee gut microbiota is dominated by eight bacterial species that promote weight gain and reduce pathogen susceptibility. The gene encoding EPSPS is present in almost all sequenced genomes of bee gut bacteria, indicating that they are potentially susceptible to glyphosate. We demonstrated that the relative and absolute abundances of dominant gut microbiota species are decreased in bees exposed to glyphosate at concentrations documented in the environment. Glyphosate exposure of young workers increased mortality of bees subsequently exposed to the opportunistic pathogen Serratia marcescens Members of the bee gut microbiota varied in susceptibility to glyphosate, largely corresponding to whether they possessed an EPSPS of class I (sensitive to glyphosate) or class II (insensitive to glyphosate). This basis for differences in sensitivity was confirmed using in vitro experiments in which the EPSPS gene from bee gut bacteria was cloned into Escherichia coli All strains of the core bee gut species, Snodgrassella alvi, encode a sensitive class I EPSPS, and reduction in S. alvi levels was a consistent experimental result. However, some S. alvi strains appear to possess an alternative mechanism of glyphosate resistance. Thus, exposure of bees to glyphosate can perturb their beneficial gut microbiota, potentially affecting bee health and their effectiveness as pollinators.
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Affiliation(s)
- Erick V S Motta
- Department of Integrative Biology, University of Texas at Austin, Austin, TX 78712
| | - Kasie Raymann
- Department of Integrative Biology, University of Texas at Austin, Austin, TX 78712
| | - Nancy A Moran
- Department of Integrative Biology, University of Texas at Austin, Austin, TX 78712
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23
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Kwong WK, Steele MI, Moran NA. Genome Sequences of Apibacter spp., Gut Symbionts of Asian Honey Bees. Genome Biol Evol 2018; 10:1174-1179. [PMID: 29635372 PMCID: PMC5913662 DOI: 10.1093/gbe/evy076] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/03/2018] [Indexed: 02/07/2023] Open
Abstract
Honey bees have distinct gut microbiomes consisting almost entirely of several host-specific bacterial species. We present the genomes of three strains of Apibacter spp., bacteria of the Bacteroidetes phylum that are endemic to Asian honey bee species (Apis dorsata and Apis cerana). The Apibacter strains have similar metabolic abilities to each other and to Apibacter mensalis, a species isolated from a bumble bee. They use microaerobic respiration and fermentation to catabolize a limited set of monosaccharides and dicarboxylic acids. All strains are capable of gliding motility and encode a type IX secretion system. Two strains and A. mensalis have type VI secretion systems, and all strains encode Rhs or VgrG proteins used in intercellular interactions. The characteristics of Apibacter spp. are consistent with adaptions to life in a gut environment; however, the factors responsible for host-specificity and mutualistic interactions remain to be uncovered.
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Affiliation(s)
- Waldan K Kwong
- Department of Integrative Biology, University of Texas at Austin
| | | | - Nancy A Moran
- Department of Integrative Biology, University of Texas at Austin
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24
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Deepthi KG, Jayasudha R, Girish RN, Manikandan P, Ram R, Narendran V, Prabagaran SR. Polybacterial community analysis in human conjunctiva through 16S rRNA gene libraries. Exp Eye Res 2018; 174:1-12. [PMID: 29772229 DOI: 10.1016/j.exer.2018.05.011] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2018] [Revised: 04/18/2018] [Accepted: 05/10/2018] [Indexed: 10/16/2022]
Abstract
The conjunctival sac of healthy human harbours a variety of microorganisms. When the eye is compromised, an occasional inadvertent spread happens to the adjacent tissue, resulting in bacterial ocular infections. Microbiological investigation of the conjunctival swab is one of the broadly used modality to study the aetiological agent of conjunctiva. However, most of the time such methods yield unsatisfactory results. Hence, the present study intends to identify the bacterial community in human conjunctiva of pre-operative subjects through 16S rRNA gene libraries. Out of 45 samples collected from preoperative patients undergoing cataract surgery, 36 libraries were constructed with bacterial nested-PCR-positive samples. The representative clones with unique restriction pattern were generated through Amplified Ribosomal DNA Restriction Analysis (ARDRA) which were sequenced for phylogenetic affiliation. A total of 211 representative clones were obtained which were distributed in phyla Actinobacteria, Firmicutes, α-Proteobacteria, β-Proteobacteria, γ-Proteobacteria, Bacteroidetes, and Deinococcus-Thermus. Findings revealed the presence of polybacterial community, especially in some cases even though no bacterium or a single bacterium alone was identified through cultivable method. Remarkably, we identified 17 species which have never been reported in any ocular infections. The sequencing data reported 6 unidentified bacteria suggesting the possibility of novel organisms in the sample. Since, polybacterial community has been identified consisting of both gram positive and gram negative bacteria, a broad spectrum antibiotic therapy is advisable to the patients who are undergoing cataract surgery. Consolidated effort would significantly improve a clear understanding of the nature of microbial community in the human conjunctiva which will promote administration of appropriate antibiotic regimen and also help in the development of oligonucleotide probes to screen the predominant pathogens for early predisposition.
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Affiliation(s)
| | | | - Rameshan Nair Girish
- Department of Biotechnology, Bharathiar University, Coimbatore, Tamil Nadu, India
| | - Palanisamy Manikandan
- Aravind Eye Hospital and Postgraduate Institute of Ophthalmology, Coimbatore, Tamil Nadu, India
| | - Rammohan Ram
- Aravind Eye Hospital and Postgraduate Institute of Ophthalmology, Coimbatore, Tamil Nadu, India
| | - Venkatapathy Narendran
- Aravind Eye Hospital and Postgraduate Institute of Ophthalmology, Coimbatore, Tamil Nadu, India
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25
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Raymann K, Moran NA. The role of the gut microbiome in health and disease of adult honey bee workers. CURRENT OPINION IN INSECT SCIENCE 2018; 26:97-104. [PMID: 29764668 PMCID: PMC6010230 DOI: 10.1016/j.cois.2018.02.012] [Citation(s) in RCA: 228] [Impact Index Per Article: 38.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/11/2017] [Revised: 12/13/2017] [Accepted: 02/02/2018] [Indexed: 05/11/2023]
Abstract
The role of the gut microbiome in animal health has become increasingly evident. Unlike most other insects, honey bees possess a highly conserved and specialized core gut microbiome, which consists of nine bacterial species and is acquired mostly through social transmission. Five of these species are ubiquitous in honey bees and are also present in bumble bees. Recent studies have shown that the bee gut microbiome plays a role in metabolism, immune function, growth and development, and protection against pathogens. Disruption of the gut microbiome has also been shown to have detrimental effects on bee health. Overall, evidence suggests that the gut microbiome plays an important role in bee health and disease.
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Affiliation(s)
- Kasie Raymann
- Department of Integrative Biology, University of Texas at Austin, 2506 Speedway. NMS 4.216, Stop C0930, Austin, TX 78712, United States
| | - Nancy A Moran
- Department of Integrative Biology, University of Texas at Austin, 2506 Speedway. NMS 4.216, Stop C0930, Austin, TX 78712, United States.
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26
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Microbiome Structure Influences Infection by the Parasite Crithidia bombi in Bumble Bees. Appl Environ Microbiol 2018; 84:AEM.02335-17. [PMID: 29374030 DOI: 10.1128/aem.02335-17] [Citation(s) in RCA: 67] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2017] [Accepted: 01/18/2018] [Indexed: 12/22/2022] Open
Abstract
Recent declines in bumble bee populations are of great concern and have prompted critical evaluations of the role of pathogen introductions and host resistance in bee health. One factor that may influence host resilience when facing infection is the gut microbiota. Previous experiments with Bombus terrestris, a European bumble bee, showed that the gut microbiota can protect against Crithidia bombi, a widespread trypanosomatid parasite of bumble bees. However, the particular characteristics of the microbiome responsible for this protective effect have thus far eluded identification. Using wild and commercially sourced Bombus impatiens, an important North American pollinator, we conducted cross-wise microbiota transplants to naive hosts of both backgrounds and challenged them with a Crithidia parasite. As with B. terrestris, we find that microbiota-dependent protection against Crithidia operates in B. impatiens Lower Crithidia infection loads were experimentally associated with high microbiome diversity, large gut bacterial populations, and the presence of Apibacter, Lactobacillus Firm-5, and Gilliamella spp. in the gut community. These results indicate that even subtle differences between gut community structures can have a significant impact on a microbiome's ability to defend against parasite infections.IMPORTANCE Many wild bumble bee populations are under threat due to human activity, including through the introduction of pathogens via commercially raised bees. Recently, it was found that the bumble bee gut microbiota can help defend against a common parasite, Crithidia bombi, but the particular factors contributing to this protection are unknown. Using both wild and commercially raised bees, we conducted microbiota transplants to show that microbiome diversity, total gut bacterial load, and the presence of certain core members of the microbiota may all impact bee susceptibility to Crithidia infection. Bee origin (genetic background) was also a factor. Finally, by examining this phenomenon in a previously uninvestigated bee species, our study demonstrates that microbiome-mediated resistance to Crithidia is conserved across multiple bumble bee species. These findings highlight how intricate interactions between hosts, microbiomes, and parasites can have wide-ranging consequences for the health of ecologically important species.
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27
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Kwong WK, Medina LA, Koch H, Sing KW, Soh EJY, Ascher JS, Jaffé R, Moran NA. Dynamic microbiome evolution in social bees. SCIENCE ADVANCES 2017; 3:e1600513. [PMID: 28435856 PMCID: PMC5371421 DOI: 10.1126/sciadv.1600513] [Citation(s) in RCA: 278] [Impact Index Per Article: 39.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2016] [Accepted: 02/10/2017] [Indexed: 05/18/2023]
Abstract
The highly social (eusocial) corbiculate bees, comprising the honey bees, bumble bees, and stingless bees, are ubiquitous insect pollinators that fulfill critical roles in ecosystem services and human agriculture. Here, we conduct wide sampling across the phylogeny of these corbiculate bees and reveal a dynamic evolutionary history behind their microbiota, marked by multiple gains and losses of gut associates, the presence of generalist as well as host-specific strains, and patterns of diversification driven, in part, by host ecology (for example, colony size). Across four continents, we found that different host species have distinct gut communities, largely independent of geography or sympatry. Nonetheless, their microbiota has a shared heritage: The emergence of the eusocial corbiculate bees from solitary ancestors appears to coincide with the acquisition of five core gut bacterial lineages, supporting the hypothesis that host sociality facilitates the development and maintenance of specialized microbiomes.
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Affiliation(s)
- Waldan K. Kwong
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT 06511, USA
- Department of Integrative Biology, University of Texas, Austin, Austin, TX 78712, USA
- Corresponding author. (W.K.K.); (N.A.M.)
| | - Luis A. Medina
- Department of Integrative Biology, University of Texas, Austin, Austin, TX 78712, USA
| | - Hauke Koch
- Department of Integrative Biology, University of Texas, Austin, Austin, TX 78712, USA
| | - Kong-Wah Sing
- Institute of Biological Sciences, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Eunice Jia Yu Soh
- Department of Biological Sciences, National University of Singapore, Singapore 117543, Singapore
| | - John S. Ascher
- Department of Biological Sciences, National University of Singapore, Singapore 117543, Singapore
| | - Rodolfo Jaffé
- Vale Institute of Technology, Sustainable Development, 66055-090 Belém PA, Brazil
- Department of Ecology, Universidade de São Paulo, Rua do Matão 321, 05508-090 São Paulo SP, Brazil
| | - Nancy A. Moran
- Department of Integrative Biology, University of Texas, Austin, Austin, TX 78712, USA
- Corresponding author. (W.K.K.); (N.A.M.)
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28
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Abstract
The gut microbiota can have profound effects on hosts, but the study of these relationships in humans is challenging. The specialized gut microbial community of honey bees is similar to the mammalian microbiota, as both are mostly composed of host-adapted, facultatively anaerobic and microaerophilic bacteria. However, the microbial community of the bee gut is far simpler than the mammalian microbiota, being dominated by only nine bacterial species clusters that are specific to bees and that are transmitted through social interactions between individuals. Recent developments, which include the discovery of extensive strain-level variation, evidence of protective and nutritional functions, and reports of eco-physiological or disease-associated perturbations to the microbial community, have drawn attention to the role of the microbiota in bee health and its potential as a model for studying the ecology and evolution of gut symbionts.
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Affiliation(s)
- Waldan K Kwong
- Department of Integrative Biology, University of Texas, Austin, Texas 78712, USA
| | - Nancy A Moran
- Department of Integrative Biology, University of Texas, Austin, Texas 78712, USA
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29
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Praet J, Aerts M, Brandt ED, Meeus I, Smagghe G, Vandamme P. Apibacter mensalis sp. nov.: a rare member of the bumblebee gut microbiota. Int J Syst Evol Microbiol 2016; 66:1645-1651. [PMID: 26813786 DOI: 10.1099/ijsem.0.000921] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Isolates LMG 28357T (=R-53146T) and LMG 28623 were obtained from gut samples of Bombus lapidarius bumblebees caught in Ghent, Belgium. They had identical 16S rRNA gene sequences which were 95.7 % identical to that of Apibacter adventoris wkB301T, a member of the family Flavobacteriaceae. Both isolates had highly similar matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) MS and randomly amplified polymorphic DNA (RAPD) profiles. A draft genome sequence was obtained for strain LMG 28357T (Gold ID Gp0108260); its DNA G+C content was 30.4%, which is within the range reported for members of the family Flavobacteriaceae (27 to 56 mol%) and which is similar to that of the type strain of A. adventoris (29.0 mol%). Whole-cell fatty acid methyl ester analysis of strain LMG 28357T revealed many branched-chain fatty acids, a typical characteristic of bacteria of the family Flavobacteriaceae and a profile that was similar to that reported for A. adventoris wkB301T. MK6 was the major respiratory quinone, again conforming to bacteria of the family Flavobacteriaceae. The isolates LMG 28357T and LMG 28623 could be distinguished from A. adventoris strains through their oxidase activity. On the basis of phylogenetic, genotypic and phenotypic data, we propose to classify both isolates as representatives of a novel species of the genus Apibacter, Apibacter mensalis sp. nov., with LMG 28357T (=DSM 100903T=R-53146T) as the type strain.
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Affiliation(s)
- Jessy Praet
- Laboratory of Microbiology, Department of Biochemistry and Microbiology, Faculty of Sciences, Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium
| | - Maarten Aerts
- Laboratory of Microbiology, Department of Biochemistry and Microbiology, Faculty of Sciences, Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium
| | - Evie De Brandt
- Laboratory of Microbiology, Department of Biochemistry and Microbiology, Faculty of Sciences, Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium
| | - Ivan Meeus
- Laboratory of Agrozoology, Department of Crop Protection, Faculty of Bioscience Engineering, Ghent University, Belgium
| | - Guy Smagghe
- Laboratory of Agrozoology, Department of Crop Protection, Faculty of Bioscience Engineering, Ghent University, Belgium
| | - Peter Vandamme
- Laboratory of Microbiology, Department of Biochemistry and Microbiology, Faculty of Sciences, Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium
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