ORCID Profile
0000-0001-9739-5595
Current Organisation
CSIRO Black Mountain Laboratories
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Publisher: Elsevier BV
Date: 02-2010
Publisher: MDPI AG
Date: 23-05-2020
DOI: 10.3390/V12050575
Abstract: The global spread of the parasitic mite Varroa destructor has emphasized the significance of viruses as pathogens of honey bee (Apis mellifera) populations. In particular, the association of deformed wing virus (DWV) with V. destructor and its devastating effect on honey bee colonies has led to that virus now becoming one of the most well-studied insect viruses. However, there has been no opportunity to examine the effects of Varroa mites without the influence of DWV. In Papua New Guinea (PNG), the sister species, V. jacobsoni, has emerged through a host-shift to reproduce on the local A. mellifera population. After initial colony losses, beekeepers have maintained colonies without chemicals for more than a decade, suggesting that this bee population has an unknown mite tolerance mechanism. Using high throughput sequencing (HTS) and target PCR detection, we investigated whether the viral landscape of the PNG honey bee population is the underlying factor responsible for mite tolerance. We found A. mellifera and A. cerana from PNG and nearby Solomon Islands were predominantly infected by sacbrood virus (SBV), black queen cell virus (BQCV) and Lake Sinai viruses (LSV), with no evidence for any DWV strains. V. jacobsoni was infected by several viral homologs to recently discovered V. destructor viruses, but Varroa jacobsoni rhabdovirus-1 (ARV-1 homolog) was the only virus detected in both mites and honey bees. We conclude from these findings that A. mellifera in PNG may tolerate V. jacobsoni because the damage from parasitism is significantly reduced without DWV. This study also provides further evidence that DWV does not exist as a covert infection in all honey bee populations, and remaining free of this serious viral pathogen can have important implications for bee health outcomes in the face of Varroa.
Publisher: Elsevier BV
Date: 09-2011
Publisher: Wiley
Date: 02-10-2018
DOI: 10.1111/AAB.12461
Publisher: Wiley
Date: 12-10-2009
DOI: 10.1111/J.1755-0998.2009.02759.X
Abstract: This article documents the addition of 512 microsatellite marker loci and nine pairs of Single Nucleotide Polymorphism (SNP) sequencing primers to the Molecular Ecology Resources Database. Loci were developed for the following species: Alcippe morrisonia morrisonia, Bashania fangiana, Bashania fargesii, Chaetodon vagabundus, Colletes floralis, Coluber constrictor flaviventris, Coptotermes gestroi, Crotophaga major, Cyprinella lutrensis, Danaus plexippus, Fagus grandifolia, Falco tinnunculus, Fletcherimyia fletcheri, Hydrilla verticillata, Laterallus jamaicensis coturniculus, Leavenworthia alabamica, Marmosops incanus, Miichthys miiuy, Nasua nasua, Noturus exilis, Odontesthes bonariensis, Quadrula fragosa, Pinctada maxima, Pseudaletia separata, Pseudoperonospora cubensis, Podocarpus elatus, Portunus trituberculatus, Rhagoletis cerasi, Rhinella schneideri, Sarracenia alata, Skeletonema marinoi, Sminthurus viridis, Syngnathus abaster, Uroteuthis (Photololigo) chinensis, Verticillium dahliae, Wasmannia auropunctata, and Zygochlamys patagonica. These loci were cross-tested on the following species: Chaetodon baronessa, Falco columbarius, Falco eleonorae, Falco naumanni, Falco peregrinus, Falco subbuteo, Didelphis aurita, Gracilinanus microtarsus, Marmosops paulensis, Monodelphis Americana, Odontesthes hatcheri, Podocarpus grayi, Podocarpus lawrencei, Podocarpus smithii, Portunus pelagicus, Syngnathus acus, Syngnathus typhle,Uroteuthis (Photololigo) edulis, Uroteuthis (Photololigo) duvauceli and Verticillium albo-atrum. This article also documents the addition of nine sequencing primer pairs and sixteen allele specific primers or probes for Oncorhynchus mykiss and Oncorhynchus tshawytscha these primers and assays were cross-tested in both species.
Publisher: Microbiology Society
Date: 06-2018
DOI: 10.1099/JGV.0.001073
Abstract: The viral landscape of the honey bee (Apismellifera) has changed as a consequence of the global spread of the parasitic mite Varroa destructor and accompanying virulent strains of the iflavirus deformed wing virus (DWV), which the mite vectors. The presence of DWV in honey bee populations is known to influence the occurrence of other viruses, suggesting that the current known virome of A. mellifera may be undercharacterized. Here we tested this hypothesis by examining the honey bee virome in Australia, which is uniquely free of parasitic mites or DWV. Using a high-throughput sequencing (HTS) approach, we examined the RNA virome from nine pools of A. mellifera across Australia. In addition to previously reported honey bee viruses, several other insect viruses were detected, including strains related to aphid lethal paralysis virus (ALPV) and Rhopalosiphum padi virus (RhPV), which have recently been identified as infecting honey bees in the USA, as well as several other viruses recently found in Drosophila spp. A further 42 putative novel insect virus genomes spanning the order Picornavirales were assembled, which significantly increases the known viral ersity in A. mellifera. Among these novel genomes, we identified several that were similar (but different) to key A. mellifera viruses, such as DWV, that warrant further investigation. We propose that A. mellifera may be preferentially infected with viruses of the order Picornavirales and that a erse population of these viruses may be representative of a Varroa-free landscape.
Publisher: Elsevier BV
Date: 05-2014
DOI: 10.1016/J.JIP.2014.03.001
Abstract: This study has characterised a novel serotype of Sacbrood virus (SBV) infecting Apis mellifera in New Guinea that has emerged in the presence of the introduced European and Asian serotypes, which infect A. mellifera and Apis cerana, respectively. The New Guinea serotype appears to have evolved through mutation of the European serotype with no evidence of recombination between known strains, although recombination was detected in other SBV isolates from Asia. SBV was also confirmed for the first time causing disease in Apis dorsata (giant Asian honeybee) in Indonesia and found to be infected by the Asian serotype.
Publisher: Wiley
Date: 22-04-2015
DOI: 10.1111/MEC.13185
Abstract: Host shifts are a key mechanism of parasite evolution and responsible for the emergence of many economically important pathogens. Varroa destructor has been a major factor in global honeybee (Apis mellifera) declines since shifting hosts from the Asian honeybee (Apis cerana) > 50 years ago. Until recently, only two haplotypes of V. destructor (Korea and Japan) had successfully host shifted to A. mellifera. In 2008, the sister species V. jacobsoni was found for the first time parasitizing A. mellifera in Papua New Guinea (PNG). This recent host shift presents a serious threat to world apiculture but also provides the opportunity to examine host shifting in this system. We used 12 microsatellites to compare genetic variation of V. jacobsoni on A. mellifera in PNG with mites on A. cerana in both PNG and surrounding regions. We identified two distinct lineages of V. jacobsoni reproducing on A. mellifera in PNG. Our analysis indicated independent host shift events have occurred through small numbers of mites shifting from local A. cerana populations. Additional lineages were found in the neighbouring Papua and Solomon Islands that had partially host shifted to A. mellifera, that is producing immature offspring on drone brood only. These mites were likely in transition to full colonization of A. mellifera. Significant population structure between mites on the different hosts suggested host shifted V. jacobsoni populations may not still reproduce on A. cerana, although limited gene flow may exist. Our studies provide further insight into parasite host shift evolution and help characterize this new Varroa mite threat to A. mellifera worldwide.
Publisher: Springer Science and Business Media LLC
Date: 15-01-2022
DOI: 10.1186/S12985-022-01740-2
Abstract: In 1977, a s le of diseased adult honeybees ( Apis mellifera ) from Egypt was found to contain large amounts of a previously unknown virus, Egypt bee virus, which was subsequently shown to be serologically related to deformed wing virus (DWV). By sequencing the original isolate, we demonstrate that Egypt bee virus is in fact a fourth unique, major variant of DWV (DWV-D): more closely related to DWV-C than to either DWV-A or DWV-B. DWV-A and DWV-B are the most common DWV variants worldwide due to their close relationship and transmission by Varroa destructor . However, we could not find any trace of DWV-D in several hundred RNA sequencing libraries from a worldwide selection of honeybee, varroa and bumblebee s les. This means that DWV-D has either become extinct, been replaced by other DWV variants better adapted to varroa-mediated transmission, or persists only in a narrow geographic or host range, isolated from common bee and beekeeping trade routes.
Publisher: Cold Spring Harbor Laboratory
Date: 19-12-2019
DOI: 10.1101/2019.12.17.880393
Abstract: Apiculture in the Pacific nation of Papua New Guinea (PNG) is under significant pressure from emerging parasitic mites, Varroa jacobsoni and Tropilaelaps mercedesae . While numerous mite control products exist, beekeepers in Papua New Guinea have limited access and resources for these products and their effectiveness under local conditions is untested. Here we determined the effectiveness of two brood manipulation strategies – queen caging and queen removal – for managing V. jacobsoni and T. mercedesae in comparison to the chemical miticide Bayvarol ® . Our results found Bayvarol ® was the most effective control strategy for V. jacobsoni , maintaining high efficacy ( %) over four months with significantly reduced mean numbers of V. jacobsoni compared to untreated control hives. In contrast, mean numbers of T. mercedesae were significantly reduced by the brood manipulation strategies over two months, but not by Bayvarol ® compared to the controls. These results highlight that a combination of different strategies is likely needed to effectively manage both mite pests in PNG. We discuss how these strategies could be optimised and adopted to achieve better mite management for PNG beekeepers.
Publisher: Informa UK Limited
Date: 2013
Publisher: Springer Science and Business Media LLC
Date: 10-2019
DOI: 10.1038/S42003-019-0606-0
Abstract: Multispecies host-parasite evolution is common, but how parasites evolve after speciating remains poorly understood. Shared evolutionary history and physiology may propel species along similar evolutionary trajectories whereas pursuing different strategies can reduce competition. We test these scenarios in the economically important association between honey bees and ectoparasitic mites by sequencing the genomes of the sister mite species Varroa destructor and Varroa jacobsoni . These genomes were closely related, with 99.7% sequence identity. Among the 9,628 orthologous genes, 4.8% showed signs of positive selection in at least one species. Divergent selective trajectories were discovered in conserved chemosensory gene families (IGR, SNMP), and Halloween genes (CYP) involved in moulting and reproduction. However, there was little overlap in these gene sets and associated GO terms, indicating different selective regimes operating on each of the parasites. Based on our findings, we suggest that species-specific strategies may be needed to combat evolving parasite communities.
Publisher: Scientific Societies
Date: 03-2023
DOI: 10.1094/PHYTO-08-22-0295-R
Abstract: Avocado is one of the world's fastest growing tropical fruit industries, and the pathogen avocado sunblotch viroid (ASBVd) is a major threat to both production and access to international export markets. ASBVd is seed transmissible, with infection possible via either the male (pollen) or female gametes. Surveillance for ASBVd across commercial orchards is a major logistical task, particularly when aiming to meet the stringent standards of evidence required for a declaration of pest freedom. As with many fruit crops, insect pollination is important for high avocado yields, and honey bee ( Apis mellifera) hives are typically moved into orchards for paid pollination services. Exploiting the foraging behavior of honey bees can provide a complementary strategy to traditional surveillance methods. High-throughput sequencing (HTS) of bee s les for plant viruses shows promise, but this surveillance method has not yet been tested for viroids or in a targeted plant biosecurity context. Here, we tested s les of bees and pollen collected from pollination hives in two ASBVd orchard locations, one in Australia, where only four trees in a block were known to be infected, and a second in South Africa, where the estimated incidence of infection was 10%. Using real-time RT-PCR and HTS (total RNA-seq and small RNA-seq), we demonstrated that ASBVd can be confidently detected in bees and pollen s les from hives within 100 m of infected trees. The potential for using this approach in ASBVd surveillance for improved orchard management and supporting market access is discussed.
Publisher: Wiley
Date: 08-2009
Publisher: Wiley
Date: 27-01-2022
DOI: 10.1111/AEN.12587
Abstract: Introduced species are a significant global concern because they can disrupt native ecosystems and cause economic damage to agricultural systems and infrastructure. The mitochondrial DNA (mtDNA) ersity of invasive populations can help to identify the source and number of incursions and reveal whether these populations have maintained standing genetic variation that might allow mitochondrial genomes to adapt to new environments. We investigated mitochondrial ersity in native and invasive populations of the Asian honey bee ( Apis cerana ). We generated 144 sequences of mitochondrial cytochrome c oxidase subunit I (COI) from s les spanning three invasive populations (Australia, New Guinea and Solomon Islands) and three native‐range Indonesian populations (Java, Sulawesi and Flores). We then analysed these sequences together with published COI sequences to evaluate changes in mtDNA ersity associated with the recent spread of A. cerana across the Austral‐Pacific region. Mitochondrial COI ersity was consistent with invasive A. cerana populations having endured severe founder event bottlenecks during colonisation of New Guinea from Java, and then again during colonisation of Australia and the Solomon Islands from New Guinea. Mitochondrial ersity of native‐range Indonesian populations was high (26 COI haplotypes detected), particularly on Java (20 haplotypes), while all s les from invasive populations carried the same COI haplotype. Indeed, the single COI haplotype of invasive A. cerana populations is consistent with invasive populations being founded by just one, or very few, queens, as previously suggested from nuclear markers. Further investigation is needed to understand the fitness effects, if any, of mitochondrial ersity loss in invasive A. cerana populations of the Austral‐Pacific.
Publisher: Hindawi Limited
Date: 11-01-2011
DOI: 10.1017/S0016672310000510
Abstract: The lucerne flea, Sminthurus viridis (Collembola: Sminthuridae) (L.) is a major pest of broadacre agriculture across southern Australia. Few molecular studies have been conducted on S. viridis and none have examined its population genetics, despite the importance for developing effective control strategies. Here, we characterize the genetic structure of Australian populations using three allozyme and eight microsatellite loci, as well as sequencing a fragment of the mitochondrial DNA cytochrome oxidase I gene. We found that S. viridis in Australia are diploid, sexually reproducing and exhibit significant population structure as a result of limited gene flow. Despite significant differentiation between populations, there was very low cytochrome oxidase subunit I (COI) gene sequence variation, indicating the presence of a single species in Australia. The observed structure only marginally complied with an ‘isolation by distance’ model with human-mediated long-distance dispersal likely occurring. Allozymes and microsatellites gave very similar F ST estimates, although differences found for novel alternative estimates of differentiation suggest that the allozymes did not capture the full extent of the population structure. These results highlight that control strategies may need to vary for locally adapted S. viridis populations and strategies aimed at limiting the spread of any future pesticide resistance will need to manage the effects of human-mediated dispersal.
Publisher: Wiley
Date: 20-01-2012
DOI: 10.1002/PS.3247
Abstract: The redlegged earth mite, Halotydeus destructor Tucker, is an important pest of broad-acre farming systems in Australia, New Zealand and South Africa. In 2006, high levels of resistance to synthetic pyrethroids were discovered in this species in Western Australia. Between 2007 and 2010, the authors monitored resistance in field populations and found it had spread considerably within the state of Western Australia. Twenty-six paddocks from 15 in idual properties were identified with resistance, and these paddocks ranged over 480 km. To date, resistance has not been detected in any other Australian state. Resistance in H. destructor appears to be found across the entire pyrethroid group, but not to other chemical classes such as organophosphates and carbamates, or other chemistries with novel modes of action. The high levels of resistance occurring in Western Australia have caused considerable economic losses due to ineffective chemical applications and mortality of crop plants at seedling establishment. These findings highlight the need for a comprehensive resistance surveillance programme to be developed for H. destructor within Australia. Growers need to consider non-chemical approaches for pest control and should be encouraged to implement pesticide resistance management programmes for H. destructor.
Publisher: Springer Science and Business Media LLC
Date: 31-07-2017
DOI: 10.1038/S41598-017-07290-W
Abstract: Honeybee ( Apis mellifera ) health is threatened globally by the complex interaction of multiple stressors, including the parasitic mite Varroa destructor and a number of pathogenic viruses. Australia provides a unique opportunity to study this pathogenic viral landscape in the absence of V. destructor . We analysed 1,240 A. mellifera colonies across Australia by reverse transcription-polymerase chain reaction (RT-PCR) and next-generation sequencing (NGS). Five viruses were prevalent: black queen cell virus (BQCV), sacbrood virus (SBV), Israeli acute paralysis virus (IAPV) and the Lake Sinai viruses (LSV1 and LSV2), of which the latter three were detected for the first time in Australia. We also showed several viruses were absent in our s ling, including deformed wing virus (DWV) and slow bee paralysis virus (SBPV). Our findings highlight that viruses can be highly prevalent in A. mellifera populations independently of V. destructor . Placing these results in an international context, our results support the hypothesis that the co-pathogenic interaction of V. destructor and DWV is a key driver of increased colony losses, but additional stressors such as pesticides, poor nutrition, etc. may enable more severe and frequent colony losses to occur.
Publisher: Cold Spring Harbor Laboratory
Date: 31-07-2020
DOI: 10.1101/2020.07.30.228320
Abstract: Host switching allows parasites to expand their niches. However, successful switching may require suites of adaptations and also may decrease performance on the old host. As a result, reductions in gene flow accompany many host switches, driving speciation. Because host switches tend to be rapid, it is difficult to study them in real-time and their demographic parameters remain poorly understood. As a result, fundamental factors that control subsequent parasite evolution, such as the size of the switching population or the extent of immigration from the original host, remain largely unknown. To shed light on the host switching process, we explored how host switches occur in independent host shifts by two ectoparasitic honey bee mites ( Varroa destructor and V. jacobsoni ). Both switched to the western honey bee ( Apis mellifera ) after it was brought into contact with their ancestral host ( Apis cerana ), ∼70 and ∼12 years ago, respectively. Varroa destructor subsequently caused worldwide collapses of honey bee populations. Using whole-genome sequencing on 63 mites collected in their native ranges from both the ancestral and novel hosts, we were able to reconstruct the known temporal dynamics of the switch. We further found multiple previously undiscovered mitochondrial lineages on the novel host, along with the genetic equivalent of tens of in iduals that were involved in the initial host switch. Despite being greatly reduced, some gene flow remains between mites adapted to different hosts. Our findings suggest that while reproductive isolation may facilitate the fixation of traits beneficial for exploitation of the new host, ongoing genetic exchange may allow genetic amelioration of inbreeding effects.
Publisher: Elsevier BV
Date: 03-2021
Publisher: Wiley
Date: 27-12-2022
DOI: 10.1111/MEC.16322
Abstract: Host switching allows parasites to expand their niches. However, successful switching may require suites of adaptations and also may decrease performance on the old host. As a result, reductions in gene flow accompany many host switches, driving speciation. Because host switches tend to be rapid, it is difficult to study them in real-time, and their demographic parameters remain poorly understood. As a result, fundamental factors that control subsequent parasite evolution, such as the size of the switching population or the extent of immigration from the original host, remain largely unknown. To shed light on the host switching process, we explored how host switches occur in independent host shifts by two ectoparasitic honey bee mites (Varroa destructor and V. jacobsoni). Both switched to the western honey bee (Apis mellifera) after being brought into contact with their ancestral host (Apis cerana), ~70 and ~12 years ago, respectively. Varroa destructor subsequently caused worldwide collapses of honey bee populations. Using whole-genome sequencing on 63 mites collected in their native ranges from both the ancestral and novel hosts, we were able to reconstruct the known temporal dynamics of the switch. We further found multiple previously undiscovered mitochondrial lineages on the novel host, along with the genetic equivalent of tens of in iduals that were involved in the initial host switch. Despite being greatly reduced, some gene flow remains between mites adapted to different hosts. Our findings suggest that while reproductive isolation may facilitate the fixation of traits beneficial for exploiting the new host, ongoing genetic exchange may allow genetic amelioration of inbreeding effects.
Publisher: Proceedings of the National Academy of Sciences
Date: 20-06-2023
Abstract: Novel transmission routes can allow infectious diseases to spread, often with devastating consequences. Ectoparasitic varroa mites vector a ersity of RNA viruses, having switched hosts from the eastern to western honey bees ( Apis cerana to Apis mellifera ). They provide an opportunity to explore how novel transmission routes shape disease epidemiology. As the principal driver of the spread of deformed wing viruses (mainly DWV-A and DWV-B), varroa infestation has also driven global honey bee health declines. The more virulent DWV-B strain has been replacing the original DWV-A strain in many regions over the past two decades. Yet, how these viruses originated and spread remains poorly understood. Here, we use a phylogeographic analysis based on whole-genome data to reconstruct the origins and demography of DWV spread. We found that, rather than reemerging in western honey bees after varroa switched hosts, as suggested by previous work, DWV-A most likely originated in East Asia and spread in the mid-20th century. It also showed a massive population size expansion following the varroa host switch. By contrast, DWV-B was most likely acquired more recently from a source outside East Asia and appears absent from the original varroa host. These results highlight the dynamic nature of viral adaptation, whereby a vector’s host switch can give rise to competing and increasingly virulent disease pandemics. The evolutionary novelty and rapid global spread of these host–virus interactions, together with observed spillover into other species, illustrate how increasing globalization poses urgent threats to bio ersity and food security.
Publisher: Cold Spring Harbor Laboratory
Date: 07-01-2019
DOI: 10.1101/512988
Abstract: Multispecies host-parasite evolution is common, but how parasites evolve after speciating remains poorly understood. Shared evolutionary history and physiology may propel species along similar evolutionary trajectories whereas pursuing different strategies can reduce competition. We test these scenarios in the economically important association between honey bees and ectoparasitic mites by sequencing the genomes of the sister mite species Varroa destructor and Varroa jacobsoni . These genomes were closely related, with 99.7% sequence identity. Among the 9,628 orthologous genes, 4.8% showed signs of positive selection in at least one species. Divergent selective trajectories were discovered in conserved chemosensory gene families (IGR, SNMP), and Halloween genes (CYP) involved in moulting and reproduction. However, there was little overlap in these gene sets and associated GO terms, indicating different selective regimes operating on each of the parasites. Based on our findings, we suggest that species-specific strategies may be needed to combat evolving parasite communities.
Publisher: Oxford University Press (OUP)
Date: 04-2011
DOI: 10.1603/EC10256
Abstract: The springtail, Sminthurus viridis (L.) (Collembola: Sminthuridae), is an important agricultural pest across southern Australia. We investigated the seasonal abundance patterns and summer diapause response of S. viridis in southeastern Australia by using field and shadehouse (a greenhouse that offers seedlings shade) experiments. Seasonal activity patterns of S. viridis were largely consistent with previous studies, with the pest active from autumn to spring. In addition, the timing and pattern of the summer-diapausing egg stage was established, with multiple generations probably producing diapause eggs. A strong relationship between soil moisture and temperature with autumn emergence also was observed. These results suggest that S. viridis autumn pest pressure can be predicted and indicate that late-season spraying strategies currently used for a sympatric agricultural pest are unlikely to be as effective against S. viridis.
Publisher: Springer Science and Business Media LLC
Date: 27-08-2020
Publisher: Springer Science and Business Media LLC
Date: 07-01-2019
Publisher: Springer Science and Business Media LLC
Date: 18-02-2020
No related grants have been discovered for John Roberts.