Stable isotope data as reef food-web descriptors in a dynamic tropical environment

PhD ThesisDespite the increasing use of stable isotope data as diet and trophic position descriptors in food-web ecology, their generic value relies on basic assumptions of constant trophic step enrichment, steady state conditions and accuracy of isotopic analyses for the estimation of trophic level (TL). This thesis explores the implications of these assumptions for understanding reef community trophodynamics in Oman, where upwelling events produce seasonal patterns among potential food sources. Nitrogen isotopes (δ15N) revealed 3-4 TL’s (6.16 to 17.8‰) and the wide range of carbon isotope (δ13C) values (-21.92 to -6.43‰) indicated that there were both benthic and pelagic sources of production. Primary producer and primary consumer δ15N fluctuated seasonally by 2.24‰ (9.02-11.26‰) however, this variability was not consistently observed at higher TLs, and therefore the δ15N of high-TL consumers may not accurately reflect their trophic position. Long-lived marine bivalves had no temporal isotopic variability, allowing the trophic position of higher consumers to be estimated using their δ15N as a baseline. Baseline organisms also allowed spatial comparison of part of the trophic structure of two reef communities; Barr al Hickman had δ15N values 2.7‰ enriched compared to a similar community at Bandar Kayran 360km to the north. Across the Western Indian Ocean, macroalgae δ15N values correlated well with differences in underlying nutrient regimes of surrounding waters. Trophic-step fractionation in herbivorous fish was 4.69-5.25‰, higher than the generally accepted value of 3.4‰ and was explained by a dynamic model incorporating feeding rate, diet quality and excretion rate, which are inherently different between herbivorous and carnivorous fish. δ15N was strongly correlated with body size in some fish species but across the entire community body size was a poor descriptor of trophic position. Use of dietspecific trophic-step fractionation values and sulphur isotopes (δ34S) greatly improved the resolution of food-web models.NERC CASE Newcastle University Centre for Environment Fisheries and Aquaculture Sciences (CEFAS

The large-scale removal of mammalian invasive alien species in Northern Europe

Peer reviewedPublisher PD

Offshore pelagic subsidies dominate carbon inputs to coral reef predators

© The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Skinner, C., Mill, A. C., Fox, M. D., Newman, S. P., Zhu, Y., Kuhl, A., & Polunin, N. V. C. Offshore pelagic subsidies dominate carbon inputs to coral reef predators. Science Advances, 7(8), (2021): eabf3792, https://doi.org/10.1126/sciadv.abf3792.Coral reefs were traditionally perceived as productive hot spots in oligotrophic waters. While modern evidence indicates that many coral reef food webs are heavily subsidized by planktonic production, the pathways through which this occurs remain unresolved. We used the analytical power of carbon isotope analysis of essential amino acids to distinguish between alternative carbon pathways supporting four key reef predators across an oceanic atoll. This technique separates benthic versus planktonic inputs, further identifying two distinct planktonic pathways (nearshore reef-associated plankton and offshore pelagic plankton), and revealing that these reef predators are overwhelmingly sustained by offshore pelagic sources rather than by reef sources (including reef-associated plankton). Notably, pelagic reliance did not vary between species or reef habitats, emphasizing that allochthonous energetic subsidies may have system-wide importance. These results help explain how coral reefs maintain exceptional productivity in apparently nutrient-poor tropical settings, but also emphasize their susceptibility to future ocean productivity fluctuations.Sample analysis funding was provided by NERC LSMSF grant BRIS/102/0717 and BRIS/125/1418. C.S. was supported by a Newcastle University SAgE DTA studentship and a cooperative agreement with Banyan Tree

A proposed unified framework to describe the management of biological invasions

Managing the impacts of invasive alien species (IAS) is a great societal challenge. A wide variety of terms have been used to describe the management of invasive alien species and the sequence in which they might be applied. This variety and lack of consistency creates uncertainty in the presentation and description of management in policy, science and practice. Here we expand on the existing description of the invasion process to develop an IAS management framework. We define the different forms of active management using a novel approach based on changes in species status, avoiding the need for stand-alone descriptions of management types, and provide a complete set of potential management activities. We propose a standardised set of management terminology as an emergent feature of this framework. We identified eight key forms of management: (1) pathway management, (2) interception, (3) limits to keeping, (4) secure keeping, (5) eradication, (6) complete reproductive removal, (7) containment and (8) suppression. We recognise four associated terms: prevention; captive management; rapid eradication; and long-term management, and note the use of impact mitigation and restoration as associated forms of management. We discuss the wider use of this framework and the supporting activities required to ensure management is well-targeted, cost-effective and makes best use of limited resources

STUDY ON MARKET PROCESS OF TUNA POLE-AND-LINE FISHERY IN EASTERN INDONESIA: A STUDY CASE IN SORONG, PAPUA BARAT PROVINCE

This research is a study of the way the small-scale pole-and-line tuna fishery in Sorong, Indonesia by examining official records of supply chains; key informant and fishers’ perceptions of marketing; and personal observations of landings and selling. The main finding of the study is that the pole-and-line fishers in Sorong have made strenuous efforts to escape the constrictions of middlemen by direct selling to processors.

Patterns of coral-reef finfish species disappearances inferred from fishers' knowledge in global epicentre of marine shorefish diversity

In the Philippines, very high fishing pressure coincides with the globally greatest number of shorefish species, yet no long-term fisheries data are available to explore species-level changes that may have occurred widely in the most species rich and vulnerable marine ecosystem, namely coral reefs. Through 2655 face-to-face interviews conducted between August 2012 and July 2014, we used fishers' recall of past catch rates of reef-associated finfish to infer species disappearances from catches in five marine key biodiversity areas (Lanuza Bay, Danajon Bank, Verde Island Passage, Polillo Islands and Honda Bay). We modeled temporal trends in perceived catch per unit effort (CPUE) based on fishers' reports of typical good days' catches using Generalized Linear Mixed Modelling. Fifty-nine different finfish disappeared from catches between the 1950s and 2014; 42 fish were identified to species level, two to genus, seven to family and eight to local name only. Five species occurring at all sites with the greatest number of fishers reporting zero catches were the green bumphead parrotfish (Bolbometopon muricatum), humphead wrasse (Cheilinus undulatus), African pompano (Alectis ciliaris), giant grouper (Epinephelus lanceolatus) and mangrove red snapper (Lutjanus argentimaculatus). Between the 1950s and 2014, the mean perceived CPUE of bumphead parrotfish declined by 88%, that of humphead wrasse by 82%, African pompano by 66%, giant grouper by 74% and mangrove red snapper by 64%. These declines were mainly associated with excess and uncontrolled fishing, fish life-history traits like maximum body size and socio-economic factors like access to market infrastructure and services, and overpopulation. The fishers' knowledge is indicative of extirpations where evidence for these losses was otherwise lacking. Our models provide information as basis for area-based conservation and regional resource management particularly for the more vulnerable, once common, large, yet wide-ranging reef finfish species

Synthesising 35 years of invasive non-native species research

The growing focus on the threat of invasive non-native species (INNS) in international biodiversity targets highlights a need for targeted research to support effective understanding, legislation, and management. However, the publishing landscape of invasion biology is complex and expanding rapidly, making consolidation of information increasingly challenging. To identify the major research themes in the INNS literature and to understand how these have changed over the last 35 years, we applied a topic modelling approach. We analysed approximately 10,000 peer-reviewed article abstracts to identify 50 key topics being discussed in the literature. We also quantified how publications on these topics changed over time and how commonly different topics interacted within articles as a measure of their connectedness. Topics covering Population genetics, Policy, First records and Insect biocontrol were the most frequent. Topics were grouped into broad themes, with the largest theme related to Ecosystems, followed by Monitoring, then Management and decision-making. Significant overrepresentation for particular geographical regions and taxa in the literature were apparent. Considering relative changes through time, the most prevalent topics in each decade reflected policy influences, and technological developments. When assessing the degree of connectedness- Policy, Population Genetics and Management Strategies showed low levels of co-occurrence with other topics. This is of particular concern for topics focussed on Policy and Management Strategy as it suggests a weakness at the science-policy interface around accessing and exchanging of evidence. If progress towards future global targets is to be made, we argue that more interdisciplinary research must be encouraged, in particular to better incorporate policy and management considerations into the wider research landscape

A proposed unified framework to describe the management of biological invasions

Acknowledgements This paper arose from a workshop of the Invasion Dynamics Network (InDyNet) in Berlin in 2018, funded by the Deutsche Forschungsgemeinschaft (DFG) Grant JE 288/8-1, which included a Mercator Fellowship for DLS. Additional support was received through DFG Grants JE 288/9- 1 and JE 288/9-2 to JMJ, the G.E. Hutchinson Chair to DLS and the project ‘‘Capacity Building Neobiota’’ (Austrian Federal Ministry for Sustainability and Tourism) to WR. AN, PP and JP were supported by long-term research development project no. RVO 67985939, project 17-19025S and EXPRO grant 19-28807X (Czech Science Foundation). IJ was supported by the J. E. Purkyneˇ Fellowship of the Czech Academy of Sciences. We also thank the referees for this paper for their critical and constructive comments.Peer reviewedPublisher PD

Assessing a potential non-invasive method for viral diagnostic purposes in European squirrels.

Viral infections globally threaten wild and captive mammal populations, with surveillance options limited by a lack of non-invasive diagnostics; especially when infection is asymptomatic in nature. We explored the potential for hair samples collected from red (Sciurus vulgaris) and grey (Sciurus carolinensis) squirrels to provide a means of screening for adenovirus (ADV) and squirrelpox virus (SQPV) using evolving polymerase chain reaction (PCR) assays. An initial pilot study phase utilised samples opportunistically harvested from grey squirrels controlled in Gwynedd, United Kingdom (UK). The screening of 319 grey squirrel carcasses revealed 58% spleen ADV DNA qPCR and 69% SQPV antibody enzyme linked immunosorbent assay (ELISA) positives. We developed new nested ADV and SQPV qPCRs and examined tail hair samples from a sub-set of 80 of these 319 sampled squirrels and these assays amplified ADV and SQPV DNA in a higher proportion of animals than the original qPCR (94% and 21% respectively). Tail hair samples obtained from six Cumbrian red squirrels which had died from squirrelpox disease also revealed 100% SQPV and 50% ADV DNA positive by the nested qPCR assays. These findings indicate enhanced sensitivity for the new platform. The integration of this non-invasive approach in assessing viral infection has wide application in epidemiological studies of wild mammal populations, in particular, during conservation translocations, where asymptomatic infections are of concern