ORCID Profile
0000-0002-5091-261X
Current Organisations
Australian National University
,
Florida International University
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In Research Link Australia (RLA), "Research Topics" refer to ANZSRC FOR and SEO codes. These topics are either sourced from ANZSRC FOR and SEO codes listed in researchers' related grants or generated by a large language model (LLM) based on their publications.
Evolutionary Impacts of Climate Change | Microbial Ecology | Population, Ecological and Evolutionary Genetics | Genetics
Ecosystem Adaptation to Climate Change | Rehabilitation of Degraded Forest and Woodlands Environments | Essential Oil Crops (e.g. Tea Tree, Eucalyptus, Lavender, Peppermint, Boronia, Sandalwood) |
Publisher: Springer Science and Business Media LLC
Date: 18-08-2021
DOI: 10.1038/S41396-021-01082-X
Abstract: Bacteria have highly flexible pangenomes, which are thought to facilitate evolutionary responses to environmental change, but the impacts of environmental stress on pangenome evolution remain unclear. Using a landscape pangenomics approach, I demonstrate that environmental stress leads to consistent, continuous reduction in genome content along four environmental stress gradients (acidity, aridity, heat, salinity) in naturally occurring populations of Bradyrhizobium diazoefficiens (widespread soil-dwelling plant mutualists). Using gene-level network and duplication functional traits to predict accessory gene distributions across environments, genes predicted to be superfluous are more likely lost in high stress, while genes with multi-functional roles are more likely retained. Genes with higher probabilities of being lost with stress contain significantly higher proportions of codons under strong purifying and positive selection. Gene loss is widespread across the entire genome, with high gene-retention hotspots in close spatial proximity to core genes, suggesting Bradyrhizobium has evolved to cluster essential-function genes (accessory genes with multifunctional roles and core genes) in discrete genomic regions, which may stabilise viability during genomic decay. In conclusion, pangenome evolution through genome streamlining are important evolutionary responses to environmental change. This raises questions about impacts of genome streamlining on the adaptive capacity of bacterial populations facing rapid environmental change.
Publisher: University of Chicago Press
Date: 11-2010
DOI: 10.1086/656512
Publisher: Cold Spring Harbor Laboratory
Date: 11-01-2018
DOI: 10.1101/246611
Abstract: A major goal in microbial ecology is to understand the factors that structure bacterial communities across space and time. For microbes that have symbiotic relationships with plants, an important factor that may influence their communities is host size or age, yet this has received little attention. Using tree diameter size as a proxy for age, we quantified the ersity of rhizobia that associate with an endemic legume, Acacia acuminata , of variable size across a climate gradient in southwest Australia. We examined the 16S rRNA ersity (V1-V3 hypervariable region) of rhizobia at the taxonomic level and at higher sequence level ersity within taxonomic groups. We identified 3 major taxonomic clades that associated with Acacia acuminata: Bradyrhizobiaceae, Rhizobiaceae, and Burkholderiaceae. Within these groups, we found extensive genetic variability, especially within Bradyrhizobiaceae. Using binomial multivariate statistical models that controlled for other factors that affect plant size and rhizobia community structure (climate and local soil characteristics), we determined that soil s led at the base of larger Acacia trees was much more likely to contain a greater number of taxonomic clades and cryptic genetic variants within the Rhizobiaceae clade. Despite strong influences of climate and highly heterogeneous soil conditions on rhizobial ersity, our results show that host tree size is a prominent factor in structuring nitrogen-fixing symbionts ersity across a large landscape. The identification of a positive relationship between plant host size and microbial ersity raise interesting questions about the role of plant host size in driving ecological processes that govern microbial community assembly. Specifically, our results suggest that hosts may modify the habitat of their surrounding soil to enhance growth (niche construction hypothesis) or that symbiotic microbes have large differences in dispersal capability. Our results also suggest that host plants may be analogous to ‘islands’, where larger legume hosts may accumulate ersity over time, through migration opportunities or in situ ersification. From a practical perspective, including plant size as an additional variable may assist s ling and analyses designs of future soil microbial studies.
Publisher: The Royal Society
Date: 10-03-2021
Abstract: Priority effects occur when the order of species arrival affects the final community structure. Mutualists often interact with multiple partners in different orders, but if or how priority effects alter interaction outcomes is an open question. In the field, we paired the legume Medicago lupulina with two nodulating strains of Ensifer bacteria that vary in nitrogen-fixing ability. We inoculated plants with strains in different orders and measured interaction outcomes. The first strain to arrive primarily determined plant performance and final relative abundances of rhizobia on roots. Plants that received effective microbes first and ineffective microbes second grew larger than plants inoculated with the same microbes in the opposite order. Our results show that mutualism outcomes can be influenced not just by partner identity, but by the interaction order. Furthermore, hosts receiving high-quality mutualists early can better tolerate low-quality symbionts later, indicating that priority effects may help explain the persistence of ineffective symbionts.
Publisher: Springer Science and Business Media LLC
Date: 26-06-2007
Publisher: Proceedings of the National Academy of Sciences
Date: 06-07-2021
Abstract: Predicting the effects of anthropogenic nutrient enrichment on plant communities is critical for managing implications for bio ersity and ecosystem services. Plant functional types that fix atmospheric nitrogen (e.g., legumes) may be at particular risk of nutrient-driven global decline, yet global-scale evidence is lacking. Using an experiment in 45 grasslands across six continents, we showed that legume cover, richness, and biomass declined substantially with nitrogen additions. Although legumes benefited from phosphorus, potassium, and other nutrients, these nutrients did not ameliorate nitrogen-induced legume decline. Given global trends in anthropogenic nutrient enrichment, our results indicate the potential for global decline in grassland legumes, with likely consequences for bio ersity, food webs, soil health, and genetic improvement of protein-rich plant species for food production.
Publisher: PeerJ
Date: 08-10-2015
DOI: 10.7717/PEERJ.1291
Abstract: Fertilizer application is a common anthropogenic alteration to terrestrial systems. Increased nutrient input can impact soil microbial ersity or function directly through altered soil environments, or indirectly through plant-microbe feedbacks, with potentially important effects on ecologically-important plant-associated mutualists. We investigated the impacts of plant fertilizer, containing all common macro and micronutrients on symbiotic nitrogen-fixing bacteria (rhizobia), a group of bacteria that are important for plant productivity and ecosystem function. We collected rhizobia nodule isolates from natural field soil that was treated with slow-release plant fertilizer over a single growing season and compared phenotypic traits related to free-living growth and host partner quality in these isolates to those of rhizobia from unfertilized soils. Through a series of single inoculation assays in controlled glasshouse conditions, we found that isolates from fertilized field soil provided legume hosts with higher mutualistic benefits. Through growth assays on media containing variable plant fertilizer concentrations, we found that plant fertilizer was generally beneficial for rhizobia growth. Rhizobia isolated from fertilized field soil had higher growth rates in the presence of plant fertilizer compared to isolates from unfertilized field soil, indicating that plant fertilizer application favoured rhizobia isolates with higher abilities to utilize fertilizer for free-living growth. We found a positive correlation between growth responses to fertilizer and mutualism benefits among isolates from fertilized field soil, demonstrating that variable plant fertilizer induces context-dependent genetic correlations, potentially changing the evolutionary trajectory of either trait through increased trait dependencies. Our study shows that short-term application is sufficient to alter the composition of rhizobia isolates in the population or community, either directly though changes in the soil chemistry or indirectly through altered host legume feedbacks, and is potentially a strong selective agent acting on natural rhizobia populations.
Publisher: Springer Science and Business Media LLC
Date: 09-01-2008
Publisher: Wiley
Date: 30-10-2018
Publisher: The Royal Society
Date: 13-09-2023
Publisher: Cold Spring Harbor Laboratory
Date: 02-11-2020
DOI: 10.1101/2020.10.31.363267
Abstract: Priority effects occur when the order of species arrival affects final community structure. Mutualists often interact with multiple partners in different orders, but if or how priority effects alter interaction outcomes is an open question. In the field, we paired the legume Medicago lupulina with two nodulating strains of Ensifer bacteria that vary in nitrogen-fixing ability. We inoculated plants with strains in different orders and measured interaction outcomes. The first strain to arrive primarily determined plant performance and final relative abundances of rhizobia on roots. Plants that received effective microbes first and ineffective microbes second grew larger than plants inoculated with the same microbes in opposite order. Our results show that mutualism outcomes can be influenced not just by partner identity, but by interaction order. Furthermore, hosts receiving high-quality mutualists early can better tolerate low-quality symbionts later, indicating priority effects may help explain the persistence of ineffective symbionts.
Publisher: American Society for Microbiology
Date: 13-05-2021
DOI: 10.1128/MRA.00229-21
Abstract: Bradyrhizobium sp. strains were isolated from root nodules of the Australian legume, Acacia acuminata (Fabaceae). Here, we report the complete genome sequences of four strains using a hybrid long- and short-read assembly approach. The genome sizes range between ∼7.1 Mbp and ∼8.1 Mbp, each with one single circular chromosome. Whole-genome alignments show extensive structural rearrangement.
Publisher: Cold Spring Harbor Laboratory
Date: 03-03-2022
DOI: 10.1101/2022.03.01.482489
Abstract: Both mutualism and polyploidy are thought to influence invasion success in plants but few studies have tested their joint effects. Mutualism can limit range expansion when plants cannot find a compatible partner in a novel habitat, or facilitate range expansion when mutualism increases a plant’s niche breadth. Polyploids are also expected to have greater niche breadth because of greater self-compatibility and phenotypic plasticity, increasing invasion success. For 839 legume species, we compiled data from published sources to estimate ploidy, symbiotic status with rhizobia, specificity on rhizobia, and the number of introduced ranges. We found that diploid species have had limited spread around the globe regardless of whether they are symbiotic or how many partners of rhizobia they can host. Polyploids, in contrast, have been successfully introduced to many new ranges, but interactions with rhizobia constrain their range expansion. In a hidden state model of trait evolution, we also found evidence of a high rate of re-diploidization in symbiotic legume lineages, suggesting that symbiosis and ploidy may interact at macroevolutionary scales. Overall, our results suggest that symbiosis with rhizobia affects range expansion only in polyploid legumes.
Publisher: Wiley
Date: 12-2022
DOI: 10.1111/NPH.18579
Abstract: Both mutualism and polyploidy are thought to influence invasion success in plants, but few studies have tested their joint effects. Mutualism can limit range expansion when plants cannot find a compatible partner in a novel habitat, or facilitate range expansion when mutualism increases a plant's niche breadth. Polyploids are also expected to have greater niche breadth because of greater self‐compatibility and phenotypic plasticity, increasing invasion success. For 847 legume species, we compiled data from published sources to estimate ploidy, symbiotic status with rhizobia, specificity on rhizobia, and the number of introduced ranges. We found that diploid species have had limited spread around the globe regardless of whether they are symbiotic or how many rhizobia partners they can host. Polyploids, by contrast, have been successfully introduced to many new ranges, but interactions with rhizobia constrain their range expansion. In a hidden state model of trait evolution, we also found evidence of a high rate of re‐diploidization in symbiotic legume lineages, suggesting that symbiosis and ploidy may interact at macroevolutionary scales. Overall, our results suggest that symbiosis with rhizobia limits range expansion when legumes are polyploid but not diploid.
Publisher: Wiley
Date: 02-2020
DOI: 10.1002/AJB2.1432
Publisher: Wiley
Date: 14-10-2019
DOI: 10.1111/ELE.13389
Abstract: A pervasive challenge in microbial ecology is understanding the genetic level where ecological units can be differentiated. Ecological differentiation often occurs at fine genomic levels, yet it is unclear how to utilise ecological information to define ecotypes given the breadth of environmental variation among microbial taxa. Here, we present an analytical framework that infers clusters along genome-based microbial phylogenies according to shared environmental responses. The advantage of our approach is the ability to identify genomic clusters that best fit complex environmental information whilst characterising cluster niches through model predictions. We apply our method to determine climate-associated ecotypes in populations of nitrogen-fixing symbionts using whole genomes, explicitly s led to detect climate differentiation across a heterogeneous landscape. Although soil and plant host characteristics strongly influence distribution patterns of inferred ecotypes, our flexible statistical method enabled us to identify climate-associated genomic clusters using environmental data, providing solid support for ecological specialisation in soil symbionts.
Publisher: CSIRO Publishing
Date: 10-10-2022
DOI: 10.1071/FP22173
Abstract: When leaves exceed their thermal threshold during heatwaves, irreversible damage to the leaf can accumulate. However, few studies have explored short-term acclimation of leaves to heatwaves that could help plants to prevent heat damage with increasing heatwave intensity. Here, we studied the heat tolerance of PSII (PHT) in response to a heatwave in Acacia species from across a strong environmental gradient in Australia. We compared PHT metrics derived from temperature-dependent chlorophyll fluorescence response curves (T–F0) before and during a 4-day 38°C heatwave in a controlled glasshouse experiment. We found that the 15 Acacia species displayed surprisingly large and consistent PHT acclimation responses with a mean tolerance increase of 12°C (range, 7.7–19.1°C). Despite species originating from erse climatic regions, neither maximum temperature of the warmest month nor mean annual precipitation at origin were clear predictors of PHT. To our knowledge, these are some of the largest measured acclimation responses of PHT from a controlled heatwave experiment. This remarkable capacity could partially explain why this genus has become more erse and common as the Australian continent became more arid and suggests that the presence of Acacia in Australian ecosystems will remain ubiquitous with climate change.
Publisher: Wiley
Date: 16-01-2014
DOI: 10.1111/NPH.12668
Abstract: A common empirical observation in mutualistic interactions is the persistence of variation in partner quality and, in particular, the persistence of exploitative phenotypes. For mutualisms between hosts and symbionts, most mutualism theory assumes that exploiters always impose fitness costs on their host. We exposed legume hosts to mutualistic (nitrogen‐fixing) and exploitative (non‐nitrogen‐fixing) symbiotic rhizobia in field conditions, and manipulated the presence or absence of insect herbivory to determine if the costly fitness effects of exploitative rhizobia are context‐dependent. Exploitative rhizobia predictably reduced host fitness when herbivores were excluded. However, insects caused greater damage on hosts associating with mutualistic rhizobia, as a consequence of feeding preferences related to leaf nitrogen content, resulting in the elimination of fitness costs imposed on hosts by exploitative rhizobia. Our experiment shows that herbivory is potentially an important factor in influencing the evolutionary dynamic between legumes and rhizobia. Partner choice and host sanctioning are theoretically predicted to stabilize mutualisms by reducing the frequency of exploitative symbionts. We argue that herbivore pressure may actually weaken selection on choice and sanction mechanisms, thus providing one explanation of why host‐based discrimination mechanisms may not be completely effective in eliminating nonbeneficial partners.
Publisher: The Royal Society
Date: 22-12-2014
Abstract: Many models of mutualisms show that mutualisms are unstable if hosts lack mechanisms enabling preferential associations with mutualistic symbiotic partners over exploitative partners. Despite the theoretical importance of mutualism-stabilizing mechanisms, we have little empirical evidence to infer their evolutionary dynamics in response to exploitation by non-beneficial partners. Using a model mutualism—the interaction between legumes and nitrogen-fixing soil symbionts—we tested for quantitative genetic variation in plant responses to mutualistic and exploitative symbiotic rhizobia in controlled greenhouse conditions. We found significant broad-sense heritability in a legume host's preferential association with mutualistic over exploitative symbionts and selection to reduce frequency of associations with exploitative partners. We failed to detect evidence that selection will favour the loss of mutualism-stabilizing mechanisms in the absence of exploitation, as we found no evidence for a fitness cost to the host trait or indirect selection on genetically correlated traits. Our results show that genetic variation in the ability to preferentially reduce associations with an exploitative partner exists within mutualisms and is under selection, indicating that micro-evolutionary responses in mutualism-stabilizing traits in the face of rapidly evolving mutualistic and exploitative symbiotic bacteria can occur in natural host populations.
Publisher: Wiley
Date: 10-11-2014
DOI: 10.1002/ECE3.1312
Start Date: 06-2018
End Date: 08-2021
Amount: $365,058.00
Funder: Australian Research Council
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