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Maritan E, Quagliariello A, Frago E, Patarnello T, Martino ME. The role of animal hosts in shaping gut microbiome variation. Philos Trans R Soc Lond B Biol Sci 2024; 379:20230071. [PMID: 38497257 PMCID: PMC10945410 DOI: 10.1098/rstb.2023.0071] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2023] [Accepted: 10/10/2023] [Indexed: 03/19/2024] Open
Abstract
Millions of years of co-evolution between animals and their associated microbial communities have shaped and diversified the nature of their relationship. Studies continue to reveal new layers of complexity in host-microbe interactions, the fate of which depends on a variety of different factors, ranging from neutral processes and environmental factors to local dynamics. Research is increasingly integrating ecosystem-based approaches, metagenomics and mathematical modelling to disentangle the individual contribution of ecological factors to microbiome evolution. Within this framework, host factors are known to be among the dominant drivers of microbiome composition in different animal species. However, the extent to which they shape microbiome assembly and evolution remains unclear. In this review, we summarize our understanding of how host factors drive microbial communities and how these dynamics are conserved and vary across taxa. We conclude by outlining key avenues for research and highlight the need for implementation of and key modifications to existing theory to fully capture the dynamics of host-associated microbiomes. This article is part of the theme issue 'Sculpting the microbiome: how host factors determine and respond to microbial colonization'.
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Affiliation(s)
- Elisa Maritan
- Department of Comparative Biomedicine and Food Science, University of Padova, 35020 Padova, Italy
| | - Andrea Quagliariello
- Department of Comparative Biomedicine and Food Science, University of Padova, 35020 Padova, Italy
| | - Enric Frago
- CIRAD, UMR CBGP, INRAE, Institut Agro, IRD, Université Montpellier, 34398 Montpellier, France
| | - Tomaso Patarnello
- Department of Comparative Biomedicine and Food Science, University of Padova, 35020 Padova, Italy
| | - Maria Elena Martino
- Department of Comparative Biomedicine and Food Science, University of Padova, 35020 Padova, Italy
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2
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Garrido-Bautista J, Norte AC, Moreno-Rueda G, Nadal-Jiménez P. Ecological determinants of prevalence of the male-killing bacterium Arsenophonus nasoniae. J Invertebr Pathol 2024; 203:108073. [PMID: 38346575 DOI: 10.1016/j.jip.2024.108073] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2023] [Revised: 02/05/2024] [Accepted: 02/06/2024] [Indexed: 02/17/2024]
Abstract
Male-killing bacteria are found in a broad range of arthropods. Arsenophonus nasoniae is a male-killing bacterium, causing a 80% reduction of the male progeny in infected Nasonia vitripennis wasps. Although the discovery of A. nasoniae dates from the early 80's, knowledge about the biology and ecology of this endosymbiont is still scarce. One of these poorly studied features is the ecological factors underlying A. nasoniae incidence on its Nasonia spp. hosts in different geographical locations. Here, we studied the prevalence of A. nasoniae in Iberian wild populations of its host N. vitripennis. This wasp species is a common parasitoid of the blowfly Protocalliphora azurea pupae, which in turn is a parasite of hole-nesting birds, such as the blue tit (Cyanistes caeruleus). We also examined the effects of bird rearing conditions on the prevalence of A. nasoniae through a brood size manipulation experiment (creating enlarged, control and reduced broods). Both the wasp and bacterium presence were tested through PCR assays in blowfly pupae. We found A. nasoniae in almost half (47%) of nests containing blowflies parasitized by N. vitripennis. The prevalence of A. nasoniae was similar in the two geographical areas examined (central Portugal and southeastern Spain) and the probability of infection by A. nasoniae was independent of the number of blowfly pupae in the nest. Experimental manipulation of brood size did not affect the prevalence of A. nasoniae nor the prevalence of its host, N. vitripennis. These results suggest that the incidence of A. nasoniae in natural populations of N. vitripennis is high in the Iberian Peninsula, and the infestation frequency of nests by N. vitripennis carrying A. nasoniae is spatially stable in this geographical region independently of bird rearing conditions.
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Affiliation(s)
- Jorge Garrido-Bautista
- Department of Zoology, Faculty of Sciences, University of Granada, 18071 Granada, Spain.
| | - Ana Cláudia Norte
- University of Coimbra, MARE-Marine and Environmental Sciences Centre, Department of Life Sciences, Calçada Martim de Freitas, 3000-456 Coimbra, Portugal.
| | - Gregorio Moreno-Rueda
- Department of Zoology, Faculty of Sciences, University of Granada, 18071 Granada, Spain.
| | - Pol Nadal-Jiménez
- Institute for Infection, Veterinary and Ecological Sciences, University of Liverpool, L69 7ZB Liverpool, United Kingdom; Departments of Vector Biology, Tropical Disease Biology, and Centre for Neglected Topical Diseases, Liverpool School of Tropical Medicine, Liverpool, United Kingdom.
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3
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Wang YH, Mikaelyan A, Coates BS, Lorenzen M. The Genome of Arsenophonus sp. and Its Potential Contribution in the Corn Planthopper, Peregrinus maidis. INSECTS 2024; 15:113. [PMID: 38392531 PMCID: PMC10889269 DOI: 10.3390/insects15020113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/02/2024] [Revised: 01/26/2024] [Accepted: 01/31/2024] [Indexed: 02/24/2024]
Abstract
The co-evolution between symbionts and their insect hosts has led to intricate functional interdependencies. Advances in DNA-sequencing technologies have not only reduced the cost of sequencing but, with the advent of highly accurate long-read methods, have also enabled facile genome assembly even using mixed genomic input, thereby allowing us to more easily assess the contribution of symbionts to their insect hosts. In this study, genomic data recently generated from Peregrinus maidis was used to assemble the genome of a bacterial symbiont, Pm Arsenophonus sp. This ~4.9-Mb assembly is one of the largest Arsenophonus genomes reported to date. The Benchmarking Universal Single-Copy Orthologs (BUSCO) result indicates that this Pm Arsenophonus assembly has a high degree of completeness, with 96% of the single-copy Enterobacterales orthologs found. The identity of the Pm Arsenophonus sp. was further confirmed by phylogenetic analysis. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis indicates a major contribution by Pm Arsenophonus sp. to the biosynthesis of B vitamins and essential amino acids in P. maidis, where threonine and lysine production is carried out solely by Pm Arsenophonus sp. This study not only provides deeper insights into the evolutionary relationships between symbionts and their insect hosts, but also adds to our understanding of insect biology, potentially guiding the development of novel pest control methods.
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Affiliation(s)
- Yu-Hui Wang
- Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC 27695, USA
| | - Aram Mikaelyan
- Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC 27695, USA
| | - Brad S Coates
- USDA-ARS, Corn Insects & Crop Genetics Research Unit, Ames, IA 50011, USA
| | - Marcé Lorenzen
- Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC 27695, USA
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4
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Davison HR, Crozier J, Pirro S, Kampen H, Werner D, Hurst GDD. 'Candidatus Tisiphia' is a widespread Rickettsiaceae symbiont in the mosquito Anopheles plumbeus (Diptera: Culicidae). Environ Microbiol 2023; 25:3064-3074. [PMID: 37658745 PMCID: PMC10947512 DOI: 10.1111/1462-2920.16486] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Accepted: 08/08/2023] [Indexed: 09/05/2023]
Abstract
Symbiotic bacteria can alter host biology by providing protection from natural enemies, or alter reproduction or vectoral competence. Symbiont-linked control of vector-borne disease in Anopheles has been hampered by a lack of symbioses that can establish stable vertical transmission in the host. Previous screening found the symbiont 'Candidatus Tisiphia' in Anopheles plumbeus, an aggressive biter and potential secondary vector of malaria parasites and West Nile virus. We screened samples collected over 10-years across Germany and used climate databases to assess environmental influence on incidence. We observed a 95% infection rate, and that the frequency of infection did not fluctuate with broad environmental factors. Maternal inheritance is indicated by presence in the ovaries through FISH microscopy. Finally, we assembled a high-quality 1.6 Mbp draft genome of 'Ca. Tisiphia' to explore its phylogeny and potential metabolic competence. The infection is closely related to strains found in Culicoides biting midges and shows similar patterns of metabolism, providing no evidence of the capacity to synthesize B-vitamins. This infection offers avenues for onward research in anopheline mosquito symbioses. Additionally, it provides future opportunity to study the impact of 'Ca. Tisiphia' on natural and transinfected hosts, especially in relation to reproductive fitness and vectorial competence and capacity.
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Affiliation(s)
- Helen R. Davison
- Institute of Infection, Veterinary and Ecological Sciences (IVES)University of LiverpoolLiverpoolUK
| | - Jessica Crozier
- Institute of Infection, Veterinary and Ecological Sciences (IVES)University of LiverpoolLiverpoolUK
| | | | - Helge Kampen
- Institute of Infectology (IMED)Friedrich‐Loeffler‐Institut, Federal Research Institute for Animal HealthGreifswaldIsle of RiemsGermany
| | - Doreen Werner
- Land Use and GovernanceLeibniz Centre for Agricultural Landscape Research (ZALF)MünchebergGermany
| | - Gregory D. D. Hurst
- Institute of Infection, Veterinary and Ecological Sciences (IVES)University of LiverpoolLiverpoolUK
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5
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Ogata S, Umemiya-Shirafuji R, Kusakisako K, Kakisaka K, Chatanga E, Hayashi N, Taya Y, Ohari Y, Pandey GS, Abdelbaset AE, Qiu Y, Matsuno K, Nonaka N, Nakao R. Investigation of vertical and horizontal transmission of Spiroplasma in ticks under laboratory conditions. Sci Rep 2023; 13:13265. [PMID: 37582809 PMCID: PMC10427632 DOI: 10.1038/s41598-023-39128-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2023] [Accepted: 07/20/2023] [Indexed: 08/17/2023] Open
Abstract
Many arthropods harbour bacterial symbionts, which are maintained by vertical and/or horizontal transmission. Spiroplasma is one of the most well-known symbionts of ticks and other arthropods. It is still unclear how Spiroplasma infections have spread in tick populations despite its high prevalence in some tick species. In this study, Ixodes ovatus, which has been reported to harbour Spiroplasma ixodetis at high frequencies, was examined for its vertical transmission potential under experimental conditions. Next, two isolates of tick-derived Spiroplasma, S. ixodetis and Spiroplasma mirum, were experimentally inoculated into Spiroplasma-free Haemaphysalis longicornis colonies and the presence of Spiroplasma in their eggs and larvae was tested. Our experimental data confirmed that S. ixodetis was transmitted to eggs and larvae in a vertical manner in the original host I. ovatus. In the second experiment, there was no significant difference in engorged weight, egg weight, and hatching rate between Spiroplasma-inoculated and control H. longicornis groups. This suggested that Spiroplasma infection does not affect tick reproduction. Spiroplasma DNA was only detected in the eggs and larvae derived from some individuals of S. ixodetis-inoculated groups. This has demonstrated the potential of horizontal transmission between different tick species. These findings may help understand the transmission dynamics of Spiroplasma in nature and its adaptation mechanism to host arthropod species.
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Affiliation(s)
- Shohei Ogata
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
- Laboratory of Molecular Targeted Therapeutics, School of Pharmacy, Nihon University, Chiba, 274-8555, Japan
- Division of International Research Promotion, International Institute for Zoonosis Control, Hokkaido University, Sapporo, 001-0020, Japan
| | - Rika Umemiya-Shirafuji
- National Research Center for Protozoan Diseases, Obihiro University of Agriculture and Veterinary Medicine, Obihiro, 080-8555, Japan
| | - Kodai Kusakisako
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
- Laboratory of Veterinary Parasitology, School of Veterinary Medicine, Kitasato University, Towada, 034-8628, Japan
| | - Keita Kakisaka
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
| | - Elisha Chatanga
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
- Department of Veterinary Pathobiology, Faculty of Veterinary Medicine, Lilongwe University of Agriculture and Natural Resources, P.O. Box 219, Lilongwe, Malawi
| | - Naoki Hayashi
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
| | - Yurie Taya
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
| | - Yuma Ohari
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
- School of Veterinary Medicine, Rakuno Gakuen University, Ebetsu, 069-8501, Japan
| | - Gita Sadaula Pandey
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
| | - Abdelbaset Eweda Abdelbaset
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
- Department of Animal Medicine, Clinical Laboratory Diagnosis, Faculty of Veterinary Medicine, Assiut University, Assiut, 71515, Egypt
| | - Yongjin Qiu
- Division of International Research Promotion, International Institute for Zoonosis Control, Hokkaido University, Sapporo, 001-0020, Japan
- Department of Virology-I, National Institute of Infectious Diseases, Shinjuku-ku, Tokyo, 162-8640, Japan
- Management Department of Biosafety, Laboratory Animal, and Pathogen Bank, National Institute of Infectious Diseases, Shinjuku-ku, Tokyo, 162-8640, Japan
| | - Keita Matsuno
- Division of Risk Analysis and Management, International Institute for Zoonosis Control, Hokkaido University, Sapporo, 001-0020, Japan
- One Health Research Center, Hokkaido University, Sapporo, 001-0020, Japan
- International Collaboration Unit, International Institute for Zoonosis Control, Hokkaido University, Sapporo, 001-0020, Japan
| | - Nariaki Nonaka
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan
| | - Ryo Nakao
- Laboratory of Parasitology, Department of Disease Control, Graduate School of Infectious Diseases, Faculty of Veterinary Medicine, Hokkaido University, Sapporo, 060-0818, Japan.
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6
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Rose C, Lund MB, Søgård AM, Busck MM, Bechsgaard JS, Schramm A, Bilde T. Social transmission of bacterial symbionts homogenizes the microbiome within and across generations of group-living spiders. ISME COMMUNICATIONS 2023; 3:60. [PMID: 37330540 PMCID: PMC10276852 DOI: 10.1038/s43705-023-00256-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2022] [Revised: 04/12/2023] [Accepted: 05/12/2023] [Indexed: 06/19/2023]
Abstract
Disentangling modes and fidelity of symbiont transmission are key for understanding host-symbiont associations in wild populations. In group-living animals, social transmission may evolve to ensure high-fidelity transmission of symbionts, since non-reproducing helpers constitute a dead-end for vertical transmission. We investigated symbiont transmission in the social spider Stegodyphus dumicola, which lives in family groups where the majority of females are non-reproducing helpers, females feed offspring by regurgitation, and individuals feed communally on insect prey. Group members share temporally stable microbiomes across generations, while distinct variation in microbiome composition exists between groups. We hypothesized that horizontal transmission of symbionts is enhanced by social interactions, and investigated transmission routes within (horizontal) and across (vertical) generations using bacterial 16S rRNA gene amplicon sequencing in three experiments: (i) individuals were sampled at all life stages to assess at which life stage the microbiome is acquired. (ii) a cross-fostering design was employed to test whether offspring carry the microbiome from their natal nest, or acquire the microbiome of the foster nest via social transmission. (iii) adult spiders with different microbiome compositions were mixed to assess whether social transmission homogenizes microbiome composition among group members. We demonstrate that offspring hatch symbiont-free, and bacterial symbionts are transmitted vertically across generations by social interactions with the onset of regurgitation feeding by (foster)mothers in an early life stage. Social transmission governs horizontal inter-individual mixing and homogenization of microbiome composition among nest mates. We conclude that temporally stable host-symbiont associations in social species can be facilitated and maintained by high-fidelity social transmission.
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Affiliation(s)
- Clémence Rose
- Section for Genetics, Ecology and Evolution, Department of Biology, Aarhus University, Aarhus, Denmark.
| | - Marie B Lund
- Section for Microbiology, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Andrea M Søgård
- Section for Genetics, Ecology and Evolution, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Mette M Busck
- Section for Microbiology, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Jesper S Bechsgaard
- Section for Genetics, Ecology and Evolution, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Andreas Schramm
- Section for Microbiology, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Trine Bilde
- Section for Genetics, Ecology and Evolution, Department of Biology, Aarhus University, Aarhus, Denmark
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7
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Nadal-Jimenez P, Frost CL, Cláudia Norte A, Garrido-Bautista J, Wilkes TE, Connell R, Rice A, Krams I, Eeva T, Christe P, Moreno-Rueda G, Hurst GDD. The son-killer microbe Arsenophonus nasoniae is a widespread associate of the parasitic wasp Nasonia vitripennis in Europe. J Invertebr Pathol 2023:107947. [PMID: 37285901 DOI: 10.1016/j.jip.2023.107947] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Revised: 05/20/2023] [Accepted: 05/25/2023] [Indexed: 06/09/2023]
Abstract
Heritable microbes that exhibit reproductive parasitism are common in insects. One class of these are the male-killing bacteria, which are found in a broad range of insect hosts. Commonly, our knowledge of the incidence of these microbes is based on one or a few sampling sites, and the degree and causes of spatial variation are unclear. In this paper, we examine the incidence of the son-killer microbe Arsenophonus nasoniae across European populations of its wasp host, Nasonia vitripennis. In preliminary work, we noticed two female N. vitripennis producing highly female biased sex ratios in a field study from the Netherlands and Germany. When tested, the brood from Germany was revealed to be infected with A. nasoniae. We then completed a broad survey in 2012, in which fly pupal hosts of N. vitripennis were collected from vacated birds' nests from four European populations, N. vitripennis wasps allowed to emerge and then tested for A. nasoniae presence through PCR assay. We then developed a new screening methodology based on direct PCR assays of fly pupae and applied this to ethanol-preserved material collected from great tit (Parus major) nests in Portugal. These data show A. nasoniae is found widely in European N. vitripennis, being present in Germany, the UK, Finland, Switzerland and Portugal. Samples varied in the frequency with which they carry A. nasoniae, from being rare to being present in 50% of the pupae parasitised by N. vitripennis. Direct screening of ethanol-preserved fly pupae was an effective method for revealing both wasp and A. nasoniae infection, and will facilitate sample transport across national boundaries. Future research should examine the causes of variation in frequency, in particular testing the hypothesis that N. vitripennis superparasitism rates drive the variation in A. nasoniae frequency through providing opportunities for infectious transmission.
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Affiliation(s)
- Pol Nadal-Jimenez
- Institute for Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool L69 7ZB, United Kingdom
| | - Crystal L Frost
- Institute for Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool L69 7ZB, United Kingdom
| | - Ana Cláudia Norte
- University of Coimbra, Marine and Environmental Sciences Centre, Department of Life Sciences, Calçada Martim de Freitas, 3000-456 Coimbra, Portugal
| | | | - Timothy E Wilkes
- Institute for Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool L69 7ZB, United Kingdom
| | - Rowan Connell
- Institute for Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool L69 7ZB, United Kingdom
| | - Annabel Rice
- Institute for Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool L69 7ZB, United Kingdom
| | - Indrikis Krams
- Department of Biotechnology, Daugavpils University, Daugavpils 5404, Latvia; Department of Zoology and Animal Ecology, Faculty of Biology, University of Latvia, Riga 1004, Latvia; Institute of Ecology and Earth Sciences, University of Tartu, Tartu 50409, Estonia; Latvian Biomedical Research and Study Centre, Riga 1067, Latvia
| | - Tapio Eeva
- Department of Biology, University of Turku, FI-20014 Turku, Finland
| | - Phillipe Christe
- Department of Ecology and Evolution, University of Lausanne, Biophore - CH-1015 Lausanne, Switzerland
| | - Gregorio Moreno-Rueda
- Department of Zoology, Faculty of Sciences, University of Granada, 18071 Granada, Spain
| | - Gregory D D Hurst
- Institute for Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool L69 7ZB, United Kingdom.
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8
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Nadal-Jimenez P, Parratt SR, Siozios S, Hurst GDD. Isolation, culture and characterization of Arsenophonus symbionts from two insect species reveal loss of infectious transmission and extended host range. Front Microbiol 2023; 14:1089143. [PMID: 36819059 PMCID: PMC9928724 DOI: 10.3389/fmicb.2023.1089143] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2022] [Accepted: 01/09/2023] [Indexed: 02/05/2023] Open
Abstract
Vertically transmitted "Heritable" microbial symbionts represent an important component of the biology and ecology of invertebrates. These symbioses evolved originally from ones where infection/acquisition processes occurred within the environment (horizontal transmission). However, the pattern of evolution that follows transition from horizontal to vertical transmission is commonly obscured by the distant relationship between microbes with differing transmission modes. In contrast, the genus Arsenophonus provides an opportunity to investigate these processes with clarity, as it includes members that are obligate vertically transmitted symbionts, facultative vertically transmitted symbionts, strains with mixed modes of transmission and ones that are purely horizontally transmitted. Significantly, some of the strains are culturable and amenable to genetic analysis. We first report the isolation of Arsenophonus nasoniae strain aPv into culture from the ectoparasitic wasp Pachycrepoideus vindemmiae and characterize the symbiosis. We demonstrate maternal vertical transmission and find no evidence for paternal inheritance, horizontal transmission or reproductive parasitism phenotypes. This leads us to conclude this strain, in contrast to related strains, is a facultative heritable symbiont which is likely to be beneficial. We then report the serendipitous discovery and onward culture of a strain of Arsenophonus (strain aPb) from the blue butterfly, Polyommatus bellargus. This association extends the range of host species carrying Arsenophonus nasoniae/Arsenophonus apicola symbionts beyond the Hymenoptera for the first time. We perform basic metabolic analysis of the isolated strains using Biolog plates. This analysis indicates all strains utilize a restricted range of carbon sources, but these restrictions are particularly pronounced in the A. nasoniae aPv strain that is solely vertically transmitted. Finally, we demonstrate the Arsenophonus sp. strain aPb from the blue butterfly can infect Galleria waxworms, providing a model system for investigating the functional genetics of Arsenophonus-insect interactions. These results are consistent with a model of reduced metabolic competence in strains evolving under vertical transmission only. The data also broadens the range of host species infected with nasoniae/apicola clade strains beyond the Hymenoptera, and indicate the potential utility of the Galleria model for investigation of symbiosis mechanism.
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Affiliation(s)
| | | | | | - Gregory D. D. Hurst
- Institute of Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool, United Kingdom
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9
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Zhang Y, Cai T, Yuan M, Li Z, Jin R, Ren Z, Qin Y, Yu C, Cai Y, Shu R, He S, Li J, Wong ACN, Wan H. Microbiome variation correlates with the insecticide susceptibility in different geographic strains of a significant agricultural pest, Nilaparvata lugens. NPJ Biofilms Microbiomes 2023; 9:2. [PMID: 36635299 PMCID: PMC9837087 DOI: 10.1038/s41522-023-00369-5] [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: 01/12/2022] [Accepted: 01/04/2023] [Indexed: 01/14/2023] Open
Abstract
Microbiome-mediated insecticide resistance is an emerging phenomenon found in insect pests. However, microbiome composition can vary by host genotype and environmental factors, but how these variations may be associated with insecticide resistance phenotype remains unclear. In this study, we compared different field and laboratory strains of the brown planthopper Nilaparvata lugens in their microbiome composition, transcriptome, and insecticide resistance profiles to identify possible patterns of correlation. Our analysis reveals that the abundances of core bacterial symbionts are significantly correlated with the expression of several host detoxifying genes (especially NlCYP6ER1, a key gene previously shown involved in insecticides resistance). The expression levels of these detoxifying genes correlated with N. lugens insecticide susceptibility. Furthermore, we have identified several environmental abiotic factors, including temperature, precipitation, latitude, and longitude, as potential predictors of symbiont abundances associated with expression of key detoxifying genes, and correlated with insecticide susceptibility levels of N. lugens. These findings provide new insights into how microbiome-environment-host interactions may influence insecticide susceptibility, which will be helpful in guiding targeted microbial-based strategies for insecticide resistance management in the field.
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Affiliation(s)
- Yunhua Zhang
- grid.35155.370000 0004 1790 4137State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070 China ,grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Tingwei Cai
- grid.35155.370000 0004 1790 4137State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070 China ,grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Maojun Yuan
- grid.35155.370000 0004 1790 4137State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070 China ,grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Zhao Li
- grid.35155.370000 0004 1790 4137State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070 China ,grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Ruoheng Jin
- grid.35155.370000 0004 1790 4137State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070 China ,grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Zhijie Ren
- grid.35155.370000 0004 1790 4137State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070 China ,grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Yao Qin
- grid.35155.370000 0004 1790 4137State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070 China ,grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Chang Yu
- grid.35155.370000 0004 1790 4137State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070 China ,grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Yongfeng Cai
- grid.35155.370000 0004 1790 4137State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070 China ,grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Runhang Shu
- grid.15276.370000 0004 1936 8091Department of Entomology and Nematology, University of Florida, Gainesville, Florida 32611 USA
| | - Shun He
- grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Jianhong Li
- grid.35155.370000 0004 1790 4137Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070 China
| | - Adam C. N. Wong
- grid.15276.370000 0004 1936 8091Department of Entomology and Nematology, University of Florida, Gainesville, Florida 32611 USA
| | - Hu Wan
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, China. .,Hubei Insect Resources Utilization and Sustainable Pest Management Key Laboratory, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China.
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10
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Chen R, Luo J, Zhu X, Wang L, Zhang K, Li D, Gao X, Niu L, Huangfu N, Ma X, Ji J, Cui J. Dynamic changes in species richness and community diversity of symbiotic bacteria in five reproductive morphs of cotton aphid Aphis gossypii Glover (Hemiptera: Aphididae). Front Microbiol 2023; 13:1086728. [PMID: 36713208 PMCID: PMC9877530 DOI: 10.3389/fmicb.2022.1086728] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2022] [Accepted: 12/21/2022] [Indexed: 01/13/2023] Open
Abstract
Introduction Reproductive polymorphism and symbiotic bacteria are commonly observed in aphids, but their interaction remains largely unclear. In polymorphic aphid species (Aphis gossypii), offspring of parthenogenetic females (PFs) develops into sexuparae which produces gynoparae and males successively. Gynoparae further produces sexual females (SFs), and these sexual females mate with males to produce offspring. Methods In this study, we investigated the dynamic changes of symbiotic bacteria during the above-mentioned five reproductive morph switch in A. gossypii via 16S rRNA sequencing technology. Results The results showed that species richness and community diversity of symbiotic bacteria in males were the highest. Proteobacteria was absolutely dominant bacterial phylum (with relative abundance of more than 90%) in the five reproductive morphs of A. gossypii, and Buchnera was absolutely dominant genus (with relative abundance of >90%), followed by Rhodococcus, Pseudomonas, and Pantoea. Male-killing symbiont Arsenophonus presented the highest relative abundance in gynoparae, a specific morph whose offsprings were exclusively sexual females. Both principal component analysis (PCA) and clustering analysis showed trans-generation similarity in microbial community structure between sexuparae and sexual females, between PFs and gynoparae. PICRUSt 2 analysis showed that symbiotic bacteria in the five reproductive morphs were mainly enriched in metabolic pathways. Discussion Reproductive morph switch induced by environmental changes might be associated with bacterial community variation and sexual polymorphism of aphids. This study provides a new perspective for further deciphering the interactions between microbes and reproductive polymorphism in host aphids.
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Affiliation(s)
- Ruifang Chen
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China,State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China
| | - Junyu Luo
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China,State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China,Western Agricultural Research Center, Chinese Academy of Agricultural Sciences, Changji, China
| | - Xiangzhen Zhu
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China
| | - Li Wang
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China
| | - Kaixin Zhang
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China,Western Agricultural Research Center, Chinese Academy of Agricultural Sciences, Changji, China
| | - Dongyang Li
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China
| | - Xueke Gao
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China,State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China,Western Agricultural Research Center, Chinese Academy of Agricultural Sciences, Changji, China
| | - Lin Niu
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China
| | - Ningbo Huangfu
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China
| | - Xiaoyan Ma
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China,State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China,Western Agricultural Research Center, Chinese Academy of Agricultural Sciences, Changji, China
| | - Jichao Ji
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China,State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China,Western Agricultural Research Center, Chinese Academy of Agricultural Sciences, Changji, China,*Correspondence: Jichao Ji,
| | - Jinjie Cui
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Zhengzhou, China,State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China,Western Agricultural Research Center, Chinese Academy of Agricultural Sciences, Changji, China,Jinjie Cui,
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11
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Santorelli LA, Wilkinson T, Abdulmalik R, Rai Y, Creevey CJ, Huws S, Gutierrez-Merino J. Beehives possess their own distinct microbiomes. ENVIRONMENTAL MICROBIOME 2023; 18:1. [PMID: 36624518 PMCID: PMC9830898 DOI: 10.1186/s40793-023-00460-6] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Accepted: 01/03/2023] [Indexed: 06/16/2023]
Abstract
BACKGROUND Honeybees use plant material to manufacture their own food. These insect pollinators visit flowers repeatedly to collect nectar and pollen, which are shared with other hive bees to produce honey and beebread. While producing these products, beehives accumulate a considerable number of microbes, including bacteria that derive from plants and different parts of the honeybees' body. Whether bacteria form similar communities amongst beehives, even if located in close proximity, is an ecologically important question that has been addressed in this study. Specific ecological factors such as the surrounding environment and the beekeeping methods used can shape the microbiome of the beehive as a whole, and eventually influence the health of the honeybees and their ecosystem. RESULTS We conducted 16S rRNA meta-taxonomic analysis on honey and beebread samples that were collected from 15 apiaries in the southeast of England to quantify the bacteria associated with different beehives. We observed that honeybee products carry a significant variety of bacterial groups that comprise bee commensals, environmental bacteria and symbionts and pathogens of plants and animals. Remarkably, this bacterial diversity differs not only amongst apiaries, but also between the beehives of the same apiary. In particular, the levels of the bee commensals varied significantly, and their fluctuations correlated with the presence of different environmental bacteria and various apiculture practices. CONCLUSIONS Our results show that every hive possesses their own distinct microbiome and that this very defined fingerprint is affected by multiple factors such as the nectar and pollen gathered from local plants, the management of the apiaries and the bacterial communities living around the beehives. Based on our findings, we suggest that the microbiome of beehives could be used as a valuable biosensor informing of the health of the honeybees and their surrounding environment.
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Affiliation(s)
| | - Toby Wilkinson
- The Roslin Institute, University of Edinburgh, Midlothian, EH25 9RG, UK
- Institute for Molecular Infection Biology, University of Würzburg, Würzburg, Germany
| | - Ronke Abdulmalik
- School of Biosciences, University of Surrey, Guildford, GU2 7XH, UK
| | - Yuma Rai
- School of Biosciences, University of Surrey, Guildford, GU2 7XH, UK
| | - Christopher J Creevey
- School of Biological Sciences, Institute for Global Food Security, Queen's University Belfast, Belfast, BT9 5DL, UK
| | - Sharon Huws
- School of Biological Sciences, Institute for Global Food Security, Queen's University Belfast, Belfast, BT9 5DL, UK
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12
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Gaggìa F, Jakobsen RR, Alberoni D, Baffoni L, Cutajar S, Mifsud D, Nielsen DS, Di Gioia D. Environment or genetic isolation? An atypical intestinal microbiota in the Maltese honey bee Apis mellifera spp. ruttneri. Front Microbiol 2023; 14:1127717. [PMID: 36910174 PMCID: PMC9995969 DOI: 10.3389/fmicb.2023.1127717] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Accepted: 02/06/2023] [Indexed: 02/25/2023] Open
Abstract
Introduction Apis mellifera evolved mainly in African, Asian, and European continents over thousands of years, leading to the selection of a considerable number of honey bees subspecies that have adapted to various environments such as hot semi-desert zones and cold temperate zones. With the evolution of honey bee subspecies, it is possible that environmental conditions, food sources, and microbial communities typical of the colonized areas have shaped the honey bee gut microbiota. Methods In this study the microbiota of two distinct lineages (mitochondrial haplotypes) of bees Apis mellifera ruttneri (lineage A) and Apis mellifera ligustica and carnica (both lineage C) were compared. Honey bee guts were collected in a dry period in the respective breeding areas (the island of Malta and the regions of Emilia-Romagna and South Tyrol in Italy). Microbial DNA from the honey bee gut was extracted and amplified for the V3-V4 regions of the 16S rRNA gene for bacteria and for ITS2 for fungi. Results The analyses carried out show that the Maltese lineage A honey bees have a distinctive microbiota when compared to Italian lineage C honey bees, with the most abundant genera being Bartonellaceae and Lactobacillaceae, respectively. Lactobacillaceae in Maltese Lineage A honey bees consist mainly of Apilactobacillus instead of Lactobacillus and Bombilactobacillus in the lineage C. Lineage A honey bee gut microbiota also harbors higher proportions of Arsenophonus, Bombella, Commensalibacter, and Pseudomonas when compared to lineage C. Discussion The environment seems to be the main driver in the acquisition of these marked differences in the gut microbiota. However, the influence of other factors such as host genetics, seasonality or geography may still play a significant role in the microbiome shaping, in synergy with the environmental aspects.
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Affiliation(s)
- Francesca Gaggìa
- Department of Agricultural and Food Sciences, University of Bologna, Bologna, Italy
| | - Rasmus Riemer Jakobsen
- Section of Microbiology and Fermentation, Department of Food Science, Faculty of Science, University of Copenhagen, Copenhagen, Denmark
| | - Daniele Alberoni
- Department of Agricultural and Food Sciences, University of Bologna, Bologna, Italy
| | - Loredana Baffoni
- Department of Agricultural and Food Sciences, University of Bologna, Bologna, Italy
| | - Simone Cutajar
- Institute of Earth Systems, L-Università tà Malta, Msida, Malta
| | - David Mifsud
- Institute of Earth Systems, L-Università tà Malta, Msida, Malta
| | - Dennis Sandris Nielsen
- Section of Microbiology and Fermentation, Department of Food Science, Faculty of Science, University of Copenhagen, Copenhagen, Denmark
| | - Diana Di Gioia
- Department of Agricultural and Food Sciences, University of Bologna, Bologna, Italy
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13
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Gorrochategui-Ortega J, Muñoz-Colmenero M, Kovačić M, Filipi J, Puškadija Z, Kezić N, Parejo M, Büchler R, Estonba A, Zarraonaindia I. A short exposure to a semi-natural habitat alleviates the honey bee hive microbial imbalance caused by agricultural stress. Sci Rep 2022; 12:18832. [PMID: 36336704 PMCID: PMC9637708 DOI: 10.1038/s41598-022-23287-6] [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: 01/18/2022] [Accepted: 10/28/2022] [Indexed: 11/08/2022] Open
Abstract
Honeybee health and the species' gut microbiota are interconnected. Also noteworthy are the multiple niches present within hives, each with distinct microbiotas and all coexisting, which we termed "apibiome". External stressors (e.g. anthropization) can compromise microbial balance and bee resilience. We hypothesised that (1) the bacterial communities of hives located in areas with different degrees of anthropization differ in composition, and (2) due to interactions between the multiple microbiomes within the apibiome, changes in the community of a niche would impact the bacteria present in other hive sections. We characterised the bacterial consortia of different niches (bee gut, bee bread, hive entrance and internal hive air) of 43 hives from 3 different environments (agricultural, semi-natural and natural) through 16S rRNA amplicon sequencing. Agricultural samples presented lower community evenness, depletion of beneficial bacteria, and increased recruitment of stress related pathways (predicted via PICRUSt2). The taxonomic and functional composition of gut and hive entrance followed an environmental gradient. Arsenophonus emerged as a possible indicator of anthropization, gradually decreasing in abundance from agriculture to the natural environment in multiple niches. Importantly, after 16 days of exposure to a semi-natural landscape hives showed intermediate profiles, suggesting alleviation of microbial dysbiosis through reduction of anthropization.
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Affiliation(s)
- June Gorrochategui-Ortega
- grid.11480.3c0000000121671098Department of Genetics, Physical Anthropology and Animal Physiology, University of the Basque Country (UPV/EHU), Barrio Sarriena s/n, 48940 Leioa, Spain
| | - Marta Muñoz-Colmenero
- grid.11480.3c0000000121671098Department of Genetics, Physical Anthropology and Animal Physiology, University of the Basque Country (UPV/EHU), Barrio Sarriena s/n, 48940 Leioa, Spain ,grid.419099.c0000 0001 1945 7711Instituto de Investigaciones Marinas (CSIC)/Institute of Marine Research, Eduardo Cabello 6, 36208 Vigo, Pontevedra Spain
| | - Marin Kovačić
- grid.412680.90000 0001 1015 399XFaculty of Agrobiotechnical Sciences Osijek, Josip Juraj Strossmayer University of Osijek, V.Preloga 1, 31000 Osijek, Croatia
| | - Janja Filipi
- grid.424739.f0000 0001 2159 1688Department of Ecology, Agronomy and Aquaculture, University of Zadar, Trg Kneza Višeslava 9, 23000 Zadar, Croatia
| | - Zlatko Puškadija
- grid.412680.90000 0001 1015 399XFaculty of Agrobiotechnical Sciences Osijek, Josip Juraj Strossmayer University of Osijek, V.Preloga 1, 31000 Osijek, Croatia
| | - Nikola Kezić
- grid.4808.40000 0001 0657 4636Department of Fisheries, Apiculture and Special Zoology, Faculty of Agriculture, University of Zagreb, Svetošimunska Cesta 25, 10000 Zagreb, Croatia
| | - Melanie Parejo
- grid.11480.3c0000000121671098Department of Genetics, Physical Anthropology and Animal Physiology, University of the Basque Country (UPV/EHU), Barrio Sarriena s/n, 48940 Leioa, Spain
| | - Ralph Büchler
- grid.506460.10000 0004 4679 6788Landesbetrieb Landwirtschaft Hessen (LLH), Bieneninstitut, Erlenstraße 9, 35274 Kirchhain, Germany
| | - Andone Estonba
- grid.11480.3c0000000121671098Department of Genetics, Physical Anthropology and Animal Physiology, University of the Basque Country (UPV/EHU), Barrio Sarriena s/n, 48940 Leioa, Spain
| | - Iratxe Zarraonaindia
- grid.11480.3c0000000121671098Department of Genetics, Physical Anthropology and Animal Physiology, University of the Basque Country (UPV/EHU), Barrio Sarriena s/n, 48940 Leioa, Spain ,grid.424810.b0000 0004 0467 2314IKERBASQUE, Basque Foundation for Science, Bilbao, Spain
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14
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Sato Y, Wippler J, Wentrup C, Ansorge R, Sadowski M, Gruber-Vodicka H, Dubilier N, Kleiner M. Fidelity varies in the symbiosis between a gutless marine worm and its microbial consortium. MICROBIOME 2022; 10:178. [PMID: 36273146 PMCID: PMC9587655 DOI: 10.1186/s40168-022-01372-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Accepted: 09/15/2022] [Indexed: 05/30/2023]
Abstract
BACKGROUND Many animals live in intimate associations with a species-rich microbiome. A key factor in maintaining these beneficial associations is fidelity, defined as the stability of associations between hosts and their microbiota over multiple host generations. Fidelity has been well studied in terrestrial hosts, particularly insects, over longer macroevolutionary time. In contrast, little is known about fidelity in marine animals with species-rich microbiomes at short microevolutionary time scales, that is at the level of a single host population. Given that natural selection acts most directly on local populations, studies of microevolutionary partner fidelity are important for revealing the ecological and evolutionary processes that drive intimate beneficial associations within animal species. RESULTS In this study on the obligate symbiosis between the gutless marine annelid Olavius algarvensis and its consortium of seven co-occurring bacterial symbionts, we show that partner fidelity varies across symbiont species from strict to absent over short microevolutionary time. Using a low-coverage sequencing approach that has not yet been applied to microbial community analyses, we analysed the metagenomes of 80 O. algarvensis individuals from the Mediterranean and compared host mitochondrial and symbiont phylogenies based on single-nucleotide polymorphisms across genomes. Fidelity was highest for the two chemoautotrophic, sulphur-oxidizing symbionts that dominated the microbial consortium of all O. algarvensis individuals. In contrast, fidelity was only intermediate to absent in the sulphate-reducing and spirochaetal symbionts with lower abundance. These differences in fidelity are likely driven by both selective and stochastic forces acting on the consistency with which symbionts are vertically transmitted. CONCLUSIONS We hypothesize that variable degrees of fidelity are advantageous for O. algarvensis by allowing the faithful transmission of their nutritionally most important symbionts and flexibility in the acquisition of other symbionts that promote ecological plasticity in the acquisition of environmental resources. Video Abstract.
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Affiliation(s)
- Yui Sato
- Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359, Bremen, Germany.
| | - Juliane Wippler
- Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359, Bremen, Germany
| | - Cecilia Wentrup
- Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359, Bremen, Germany
| | - Rebecca Ansorge
- Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359, Bremen, Germany
- Gut Microbes and Health Programme, Quadram Institute Bioscience, Norwich, NR4 7UQ, UK
| | - Miriam Sadowski
- Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359, Bremen, Germany
| | - Harald Gruber-Vodicka
- Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359, Bremen, Germany
| | - Nicole Dubilier
- Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359, Bremen, Germany.
| | - Manuel Kleiner
- Department of Plant and Microbial Biology, North Carolina State University, Raleigh, NC, 27695, USA.
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15
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Berasategui A, Breitenbach N, García-Lozano M, Pons I, Sailer B, Lanz C, Rodríguez V, Hipp K, Ziemert N, Windsor D, Salem H. The leaf beetle Chelymorpha alternans propagates a plant pathogen in exchange for pupal protection. Curr Biol 2022; 32:4114-4127.e6. [PMID: 35987210 DOI: 10.1016/j.cub.2022.07.065] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Revised: 07/21/2022] [Accepted: 07/22/2022] [Indexed: 12/14/2022]
Abstract
Many insects rely on microbial protection in the early stages of their development. However, in contrast to symbiont-mediated defense of eggs and young instars, the role of microbes in safeguarding pupae remains relatively unexplored, despite the susceptibility of the immobile stage to antagonistic challenges. Here, we outline the importance of symbiosis in ensuring pupal protection by describing a mutualistic partnership between the ascomycete Fusarium oxysporum and Chelymorpha alternans, a leaf beetle. The symbiont rapidly proliferates at the onset of pupation, extensively and conspicuously coating C. alternans during metamorphosis. The fungus confers defense against predation as symbiont elimination results in reduced pupal survivorship. In exchange, eclosing beetles vector F. oxysporum to their host plants, resulting in a systemic infection. By causing wilt disease, the fungus retained its phytopathogenic capacity in light of its symbiosis with C. alternans. Despite possessing a relatively reduced genome, F. oxysporum encodes metabolic pathways that reflect its dual lifestyle as a plant pathogen and a defensive insect symbiont. These include virulence factors underlying plant colonization, along with mycotoxins that may contribute to the defensive biochemistry of the insect host. Collectively, our findings shed light on a mutualism predicated on pupal protection of an herbivorous beetle in exchange for symbiont dissemination and propagation.
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Affiliation(s)
- Aileen Berasategui
- Max Planck Institute for Biology, Mutualisms Research Group, Max-Planck-Ring 5, Tübingen 72076, Germany; University of Tübingen, Cluster of Excellence 'Controlling Microbes to Fight Infections', Auf der Morgenstelle 28, Tübingen 72076, Germany.
| | - Noa Breitenbach
- Max Planck Institute for Biology, Mutualisms Research Group, Max-Planck-Ring 5, Tübingen 72076, Germany
| | - Marleny García-Lozano
- Max Planck Institute for Biology, Mutualisms Research Group, Max-Planck-Ring 5, Tübingen 72076, Germany
| | - Inès Pons
- Max Planck Institute for Biology, Mutualisms Research Group, Max-Planck-Ring 5, Tübingen 72076, Germany
| | - Brigitte Sailer
- Max Planck Institute for Biology, Electron Microscopy Facility, Max-Planck-Ring 5, Tübingen 72076, Germany
| | - Christa Lanz
- Max Planck Institute for Biology, Genome Center, Max-Planck-Ring 5, Tübingen 72076, Germany
| | - Viterbo Rodríguez
- Centro Regional Universitario de Veraguas, Centro de Capacitación, Investigación y Monitoreo de la Biodiversidad en Coiba, Calle Décima, vía San Francisco, Santiago 08001, Republic of Panama
| | - Katharina Hipp
- Max Planck Institute for Biology, Electron Microscopy Facility, Max-Planck-Ring 5, Tübingen 72076, Germany
| | - Nadine Ziemert
- University of Tübingen, Cluster of Excellence 'Controlling Microbes to Fight Infections', Auf der Morgenstelle 28, Tübingen 72076, Germany
| | - Donald Windsor
- Smithsonian Tropical Research Institute, Luis Clement Avenue, Bldg. 401 Tupper, Panama City 0843-03092, Republic of Panama
| | - Hassan Salem
- Max Planck Institute for Biology, Mutualisms Research Group, Max-Planck-Ring 5, Tübingen 72076, Germany.
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16
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Nadal-Jimenez P, Siozios S, Frost CL, Court R, Chrostek E, Drew GC, Evans JD, Hawthorne DJ, Burritt JB, Hurst GDD. Arsenophonus apicola sp. nov., isolated from the honeybee Apis mellifera. Int J Syst Evol Microbiol 2022; 72. [DOI: 10.1099/ijsem.0.005469] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023] Open
Abstract
The genus
Arsenophonus
has been traditionally considered to comprise heritable bacterial symbionts of arthropods. Recent work has reported a microbe related to the type species
Arsenophonus nasoniae
as infecting the honey bee, Apis mellifera. The association was unusual for members of the genus in that the microbe–host interaction arose through environmental and social exposure rather than vertical transmission. In this study, we describe the in vitro culture of ArsBeeUST, a strain of this microbe isolated from A. mellifera in the USA. The 16S rRNA sequence of the isolated strain indicates it falls within the genus
Arsenophonus
. Biolog analysis indicates the bacterium has a restricted range of nutrients that support growth. In vivo experiments demonstrate the strain proliferates rapidly on injection into A. mellifera hosts. We further report the closed genome sequence for the strain. The genome is 3.3 Mb and the G+C content is 37.6 mol%, which is smaller than
A. nasoniae
but larger than the genomes reported for non-culturable
Arsenophonus
symbionts. The genome is complex, with six extrachromosomal elements and 11 predicted intact phage elements, but notably less complex than
A. nasoniae
. Strain ArsBeeUST is clearly distinct from the type species
A. nasoniae
on the basis of genome sequence, with 92 % average nucleotide identity. Based on our results, we propose Arsenophonus apicola sp. nov., with the type strain ArsBeeUST (CECT 30499T=DSM113403T=LMG 32504T).
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Affiliation(s)
- Pol Nadal-Jimenez
- Institute of Infection Veterinary and Ecological Sciences, University of Liverpool, Liverpool, UK
| | - Stefanos Siozios
- Institute of Infection Veterinary and Ecological Sciences, University of Liverpool, Liverpool, UK
| | - Crystal L. Frost
- Institute of Infection Veterinary and Ecological Sciences, University of Liverpool, Liverpool, UK
| | - Rebecca Court
- Institute of Infection Veterinary and Ecological Sciences, University of Liverpool, Liverpool, UK
| | - Ewa Chrostek
- Institute of Infection Veterinary and Ecological Sciences, University of Liverpool, Liverpool, UK
| | - Georgia C. Drew
- Department of Biology, University of Oxford, Oxford, UK
- Institute of Infection Veterinary and Ecological Sciences, University of Liverpool, Liverpool, UK
| | - Jay D. Evans
- USDA, Agricultural Research Service, Bee Research Lab, Beltsville, MD, 20705, USA
| | | | - James B. Burritt
- Department of Biology, University of Wisconsin-Stout, Menomonie, WI, USA
| | - Gregory D. D. Hurst
- Institute of Infection Veterinary and Ecological Sciences, University of Liverpool, Liverpool, UK
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17
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Camus MF, Alexander-Lawrie B, Sharbrough J, Hurst GDD. Inheritance through the cytoplasm. Heredity (Edinb) 2022; 129:31-43. [PMID: 35525886 PMCID: PMC9273588 DOI: 10.1038/s41437-022-00540-2] [Citation(s) in RCA: 27] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2021] [Revised: 04/19/2022] [Accepted: 04/20/2022] [Indexed: 12/11/2022] Open
Abstract
Most heritable information in eukaryotic cells is encoded in the nuclear genome, with inheritance patterns following classic Mendelian segregation. Genomes residing in the cytoplasm, however, prove to be a peculiar exception to this rule. Cytoplasmic genetic elements are generally maternally inherited, although there are several exceptions where these are paternally, biparentally or doubly-uniparentally inherited. In this review, we examine the diversity and peculiarities of cytoplasmically inherited genomes, and the broad evolutionary consequences that non-Mendelian inheritance brings. We first explore the origins of vertical transmission and uniparental inheritance, before detailing the vast diversity of cytoplasmic inheritance systems across Eukaryota. We then describe the evolution of genomic organisation across lineages, how this process has been shaped by interactions with the nuclear genome and population genetics dynamics. Finally, we discuss how both nuclear and cytoplasmic genomes have evolved to co-inhabit the same host cell via one of the longest symbiotic processes, and all the opportunities for intergenomic conflict that arise due to divergence in inheritance patterns. In sum, we cannot understand the evolution of eukaryotes without understanding hereditary symbiosis.
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Affiliation(s)
- M Florencia Camus
- Department of Genetics, Evolution and Environment, University College London, London, UK.
| | | | - Joel Sharbrough
- Biology Department, New Mexico Institute of Mining and Technology, Socorro, NM, USA
| | - Gregory D D Hurst
- Institute of Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool, England
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18
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Busck MM, Lund MB, Bird TL, Bechsgaard JS, Bilde T, Schramm A. Temporal and spatial microbiome dynamics across natural populations of the social spider Stegodyphus dumicola. FEMS Microbiol Ecol 2022; 98:6526868. [PMID: 35147190 DOI: 10.1093/femsec/fiac015] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2021] [Revised: 01/07/2022] [Accepted: 02/09/2022] [Indexed: 11/13/2022] Open
Abstract
Host symbiont interactions may form obligatory or facultative associations that are context dependent. Long-term studies on microbiome composition from wild populations should assess the temporal and spatial dynamics of host-microbe associations. We characterized the temporal and spatial variation in the bacterial microbiome composition in six populations of the social spider Stegodyphus dumicola for 2.5 years, using 16S rRNA gene amplicon sequencing of whole spiders. Individuals within a nest exhibit highly similar microbiomes, which remain stable over several generations and are not predictably affected by seasonal variation in temperature or humidity. This stability in nest microbiome is likely due to social transmission, whereas drift-like processes during new nest foundations explain variation in host microbiomes between nests. This is supported by the lack of obligate symbionts (i.e. no symbionts are present in all spider individuals). Quantitative PCR analyses showed that the bacterial load of individual spiders is stable in healthy nests but can increase dramatically in perishing nests. These increases are not driven by specific bacterial taxa but likely caused by loss of host immune control under deteriorating conditions. Spider nests show an annual survival rate of approximately 45%, but nest death is not correlated to microbiome composition, and the bacteria found in S. dumicola are not considered to be high virulence pathogens.
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Affiliation(s)
- Mette M Busck
- Section for Microbiology, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Marie B Lund
- Section for Microbiology, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Tharina L Bird
- Department of Biological Sciences and Biotechnology, Botswana International University of Science and Technology (BIUST), Botswana.,Section for Genetics, Ecology and Evolution, Department of Biology, Aarhus University, Aarhus, Denmark.,General Entomology, Ditsong National Museum of Natural History, Pretoria, South Africa.,Department of Zoology and Entomology, University of Pretoria, Pretoria, South Africa
| | - Jesper S Bechsgaard
- Section for Genetics, Ecology and Evolution, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Trine Bilde
- Section for Genetics, Ecology and Evolution, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Andreas Schramm
- Section for Microbiology, Department of Biology, Aarhus University, Aarhus, Denmark
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19
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Pons I, Scieur N, Dhondt L, Renard ME, Renoz F, Hance T. Pervasiveness of the symbiont Serratia symbiotica in the aphid natural environment: distribution, diversity and evolution at a multitrophic level. FEMS Microbiol Ecol 2022; 98:6526308. [PMID: 35142841 DOI: 10.1093/femsec/fiac012] [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] [Received: 10/04/2021] [Revised: 01/05/2022] [Accepted: 02/08/2022] [Indexed: 11/12/2022] Open
Abstract
Symbioses are significant drivers of insect evolutionary ecology. Despite recent findings that these associations can emerge from environmentally derived bacterial precursors, there is still little information on how these potential progenitors of insect symbionts circulate in trophic systems. Serratia symbiotica represents a valuable model for deciphering evolutionary scenarios of bacterial acquisition by insects, as its diversity includes gut-associated strains that retained the ability to live independently of their hosts, representing a potential reservoir for symbioses emergence. Here, we conducted a field study to examine the distribution and diversity of S. symbiotica found in aphid populations, and in different compartments of their surrounding environment. Twenty % of aphids colonies were infected with S. symbiotica, including a wide diversity of strains with varied tissue tropism corresponding to different lifestyle. We also showed that the prevalence of S. symbiotica is influenced by seasonal temperatures. We found that S. symbiotica was present in non-aphid species and in host plants, and that its prevalence in these samples was higher when associated aphid colonies were infected. Furthermore, phylogenetic analyses suggest the existence of horizontal transfers between the different trophic levels. These results provide a new picture of the pervasiveness of an insect symbiont in nature.
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Affiliation(s)
- Inès Pons
- Earth and Life Institute, Biodiversity Research Centre, Université catholique de Louvain, 1348, Louvain-la-Neuve, Belgium
| | - Nora Scieur
- Earth and Life Institute, Biodiversity Research Centre, Université catholique de Louvain, 1348, Louvain-la-Neuve, Belgium
| | - Linda Dhondt
- Earth and Life Institute, Biodiversity Research Centre, Université catholique de Louvain, 1348, Louvain-la-Neuve, Belgium
| | - Marie-Eve Renard
- Earth and Life Institute, Biodiversity Research Centre, Université catholique de Louvain, 1348, Louvain-la-Neuve, Belgium
| | - François Renoz
- Earth and Life Institute, Biodiversity Research Centre, Université catholique de Louvain, 1348, Louvain-la-Neuve, Belgium
| | - Thierry Hance
- Earth and Life Institute, Biodiversity Research Centre, Université catholique de Louvain, 1348, Louvain-la-Neuve, Belgium
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20
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Chang CY, Sun XW, Tian PP, Miao NH, Zhang YL, Liu XD. Plant secondary metabolite and temperature determine the prevalence of Arsenophonus endosymbionts in aphid populations. Environ Microbiol 2022; 24:3764-3776. [PMID: 35129273 DOI: 10.1111/1462-2920.15929] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Revised: 01/24/2022] [Accepted: 01/31/2022] [Indexed: 11/30/2022]
Abstract
Transmission rate and role in hosts contribute to the prevalence of an endosymbiont. However, factors affecting transmission and role of facultative endosymbionts are still not well understood. Here, we illustrated that host plants and environmental temperatures affected the transmission, relative abundance, and role of Arsenophonus in the cotton aphid Aphis gossypii. The transmission rate of this endosymbiont from mother aphids to offspring was relatively lower. High temperatures impeded the transmission, and infection rates declined as aphids were exposed to 30 °C. Contents of amino acids and secondary metabolites were remarkable different among host plants. Aphids feeding on zucchini leaves containing a higher titer of amino acids and lower secondary metabolites harbored a relatively lower abundance of Arsenophonus. Concentrations of an amino acid and a plant secondary metabolite, cucurbitacin B, in aphid diet were not associated with Arsenophonus abundance. However, gossypol, another plant secondary metabolite, was strongly related with the abundance. Arsenophonus imparted a fitness benefit to aphids, and the benefit was dependent on host plants and gossypol concentration. In sum, plant secondary metabolite and environmental temperature affect transmission, relative abundance, and role of Arsenophonus, which determine the endosymbiont prevalence in aphid populations. This article is protected by copyright. All rights reserved.
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Affiliation(s)
- Chun-Yan Chang
- Department of Entomology, Nanjing Agricultural University, Nanjing, 210095, China
| | - Xiao-Wan Sun
- Department of Entomology, Nanjing Agricultural University, Nanjing, 210095, China
| | - Pan-Pan Tian
- Department of Entomology, Nanjing Agricultural University, Nanjing, 210095, China
| | - Ning-Hui Miao
- Department of Entomology, Nanjing Agricultural University, Nanjing, 210095, China
| | - Yu-Lin Zhang
- Department of Entomology, Nanjing Agricultural University, Nanjing, 210095, China
| | - Xiang-Dong Liu
- Department of Entomology, Nanjing Agricultural University, Nanjing, 210095, China
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