Progress and Future Directions for Passive Acoustic Monitoring: Listening Out for New Conservation Opportunities

Post provided by Ammie Kalan (Post-doctoral researcher at the Max Planck Institute for Evolutionary Anthropology, Department of Primatology)

A Primate Call in a Forest is like a ‘Needle in a Haystack’

An ARU powered by solar energy recording in the Taï national park, Côte d’Ivoire. ©Ammie Kalan
A solar-powered ARU recording in the Taï national park, Côte d’Ivoire.
©Ammie Kalan

Finding a call of a particular primate species within hours and hours of audio recordings of a forest is no easy task; like finding a ‘needle in a haystack’ so to speak. Automated acoustic monitoring relies on the ability of researchers to easily locate and isolate acoustic signals produced by species of interest from all other sources of noise in the forest, i.e. the background noise. This can be much harder than it sounds. Think about whenever you have to use any kind of voice recognition system: seeking out a quiet room will greatly improve the chances you are understood by the robot-like voice on the other end of the phone. If you ever set foot in a rainforest the first thing you’ll notice is that it is anything but quiet. In fact characterizing and quantifying soundscapes has become a marker for the complexity of the biodiversity present in a given environment.

Primate monitoring programmes can learn a great deal from cetacean research where Passive Acoustic Monitoring (PAM) is the norm (since individuals are rarely observable visually). Research on bats and birds can provide excellent examples to follow as well. Automated algorithm approaches including machine learning techniques, spectral cross-correlation, Gaussian mixture models, and random forests have been used in these fields to be able to detect and classify audio recordings using a trained automated system. Such automated approaches are often investigated for a single species but impressive across-taxa efforts have also been initiated within a framework of real-time acoustic monitoring. Implementing these in other research fields could lead to significant advances. Continue reading “Progress and Future Directions for Passive Acoustic Monitoring: Listening Out for New Conservation Opportunities”

Issue 6.10

Issue 6.10 is now online!

The October issue of Methods is now online!

This month’s issue contains two Applications articles and one Open Access article, all of which are freely available.

letsR: A package for the R statistical computing environment, designed to handle and analyse macroecological data such as species’ geographic distributions and environmental variables. It also includes functions to obtain data on species’ habitat use, description year and current as well as temporal trends in conservation status.

Cleaning Oil from Seabirds: The authors assess the efficacy of sea water as an alternative to fresh water for cleaning oil from seabirds’ feathers. Results indicate that for oiled feathers, a sea water wash/rinse produced clean, low BAI/unclumped feathers with minimal particulate residue.

Stefano Canessa et al. provide this month’s only Open Access article. In ‘When do we need more data? A primer on calculating the value of information for applied ecologists‘ the authors guide readers through the calculation of Value of Information (VoI) using two case studies and illustrate the use of Bayesian updating to incorporate new information. Collecting information can require significant investments of resources; VoI analysis assists managers in deciding whether these investments are justified. The authors also wrote a blog post on VoI which you can find here.

Our October issue also features articles on Niche Modelling, Population Ecology, Spatial Ecology, Conservation, Monitoring and much more. Continue reading “Issue 6.10”

New Associate Editors

Over the next few weeks we will be welcoming three new Associate Editors to Methods in Ecology and Evolution. Susan Johnston (University of Edinburgh, UK) became a member of the Associate Editor Board on Monday 5 October. She will be joined on 19 October by Natalie Cooper (Natural History Museum, London, UK) and finally by Luísa Carvalheiro (University of Brasília, Brazil) on 2 November. You can find out … Continue reading New Associate Editors

National Wildlife Day 2015

Happy National Wildlife Day everyone!

Today is 10th National Wildlife Day. As we have done for a few awareness days this year (Bats, Biodiversity and Bees so far) we are marking the day by highlighting some of our favourite Methods in Ecology and Evolution articles on the subject. Obviously ‘wildlife’ is a pretty big topic, so we have narrowed our focus (slightly) to monitoring wildlife (with one or two additional papers that we didn’t want to leave out).

This list is certainly not exhaustive and there are many more wonderful articles on these topics in the journal. You can see more of them on the Wiley Online Library.

If you would like to learn more about National Wildlife Day, you may wish to visit the organisation’s website, follow them on Twitter and Facebook or check out today’s hashtag: #NationalWildlifeDay.

Without further ado though, please enjoy our selection of Methods articles for National Wildlife Day:

Integrating Demographic Data

Our National Wildlife Day celebration begins with an article from our EURING Special Feature. Robert Robinson et al. present an approach which allows important demographic parameters to be identified, even if they are not measured directly, in ‘Integrating demographic data: towards a framework for monitoring wildlife populations at large spatial scales‘. Using their approach they were able to retrieve known demographic signals both within and across species and identify the demographic causes of population decline in Song Thrush and Lawping.

 

Continue reading “National Wildlife Day 2015”

Study Finds Black Bears in Yosemite Forage Primarily on Plants and Nuts

Below is a press release about the Methods paper ‘Measuring the realized niches of animals using stable isotopes: from rats to bears‘ taken from the University of California, San Diego:

©PLF73 (Click image to see original)
Animal proteins only make up a small part of a black bear’s diet. ©PLF73 (Click image to see original)

Black bears in Yosemite National Park that don’t seek out human foods subsist primarily on plants and nuts, according to a study conducted by biologists at UC San Diego who also found that ants and other sources of animal protein, such as mule deer, make up only a small fraction of the bears’ annual diet.

Their study, published in Methods in Ecology and Evolution, might surprise bear ecologists and conservationists who had long assumed that black bears in the Sierra Nevada rely on lots of protein from ants and other insects because their remains are frequently found in bear feces. Instead, the researchers believe that bears likely eat ants for nutrient balance. Continue reading “Study Finds Black Bears in Yosemite Forage Primarily on Plants and Nuts”

National Honey Bee Day 2015

Happy National Honey Bee Day everyone!

As you may know, tomorrow (Saturday 22 August) is National Honey Bee Day in the USA. To mark the day we will be highlighting some of the best papers that have been published on bees and pollinators in Methods in Ecology and Evolution.

You can find out more about National Honey Bee Day (and about bees in general) HERE.

Without further ado though, here are a few of the best Methods papers related to Honey Bees:

Wildebeast graze on the cover of MEE 2.5Honey Bee Risk Assessment

Our Honey Bee highlights begin with Hendriksma et al.’s article ‘Honey bee risk assessment: new approaches for in vitro larvae rearing and data analyses‘. Robust laboratory methods for assessing adverse effects on honey bee brood are required for research into the issues contributing to global bee losses. To facilitate this, the authors of this article recommend in vitro rearing of larvae and suggest some appropriate statistical tools for the related data analyses. Together these methods can help to improve the quality of environmental risk assessment studies on honey bees and secure honey bee pollination. As this article was published over two years ago, it can be accessed for free by anyone.

Continue reading “National Honey Bee Day 2015”

Issue 6.7

Issue 6.7 is now online!

The July issue of Methods is now online!

This month’s issue contains two Applications article and one Open Access article, all of which are freely available.

fuzzySim: Binary similarity indices are widely used in ecology. This study proposes fuzzy versions of the binary similarity indices most commonly used in ecology, so that they can be directly applied to continuous (fuzzy) rather than binary occurrence values, producing more realistic similarity assessments. fuzzySim is an open source software package which is also available for R.

 Actave.net: A freely accessible, web-based analysis tool for complex activity data, actave.net provides cloud-based and automatic computation of daily aggregates of various activity parameters based on recorded immersion data. It provides maps and graphs for data exploration, download of processed data for modelling and statistical analysis, and tools for sharing results with other users.

Anna Sturrock et al. provide this month’s Open Access article. In ‘Quantifying physiological influences on otolith microchemistry‘ the authors test relationships between otolith chemistry and environmental and physiological variables. The influence of physiological factors on otolith composition was particularly evident in Sr/Ca ratios, the most widely used elemental marker in applied otolith microchemistry studies. This paper was reported on in the media recently. You can read more about it here.

Our July issue also features articles on Monitoring, Remote Sensing, Conservation, Genetics and three papers on Statistics. Continue reading “Issue 6.7”

Statistics in Ecology and Environmental Monitoring: A Look Back at the SEEM 2015 Conference

Post provided by Dr Matt Schofield

Matt is an Associate Editor for Methods in Ecology and Evolution. He was the principle organiser of this year’s SEEM conference. His research interests include Bayesian inference and hierarchical modelling, computational methodology, ecological statistics and much more. Matt is based at the University of Otago.

A photo taken during a lunch break at the conference
A photo taken during a lunch break at the conference

The Statistics in Ecology and Environmental Monitoring (SEEM) conference was held in Queenstown, New Zealand on June 22-26, 2015. Queenstown is a resort town in the Southern Alps of New Zealand that looks out on Lake Wakatipu, surrounded by snow-capped mountains. The venue gave a chance to explore some of the natural beauty of New Zealand, with excursions to local ski fields, wineries and various hiking trails.

SEEM conferences have been organized by members of the Statistics group at the University of Otago since 1993. The first SEEM conference was held in Dunedin, New Zealand and conferences were then held regularly (every 3 years) until 2002. The last SEEM conference, in 2007, also served as the EURING (European Union for Bird Ringing) technical meeting. With nearly ten years passing since 2007, we had a smaller conference of around 50 attendees this year. There was an engaging atmosphere during the meeting and productive discussion followed each of the 40 talks. The SEEM 2015 meeting maintained the tradition of previous SEEM conferences with delegates from across a broad spectrum of statistical ecology coming together to discuss research. Continue reading “Statistics in Ecology and Environmental Monitoring: A Look Back at the SEEM 2015 Conference”

‘Bee soup’ could help understand declines and test remedies

Below is a press release about the Methods paper ‘High-throughput monitoring of wild bee diversity and abundance via mitogenomics‘ taken from the University of East Anglia:

It may sound counter-intuitive, but crushing up bees into a ‘DNA soup’ could help conservationists understand and even reverse their decline – according to University of East Anglia scientists.

Research published today in the journal Methods in Ecology and Evolution shows that collecting wild bees, extracting their DNA, and directly reading the DNA of the resultant ‘soup’ could finally make large-scale bee monitoring programmes feasible.

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©Mibby23 (click image to see original version)

This would allow conservationists to detect where and when bee species are being lost, and importantly, whether conservation interventions are working.

The UK’s National Pollinator Strategy outlines plans for a large-scale bee monitoring programme. Traditional monitoring involves pinning individual bees and identifying them under a microscope. But the number of bees needed to track populations reliably over the whole country makes traditional methods infeasible.

This new research shows how the process could become quicker, cheaper and more accurate. Continue reading “‘Bee soup’ could help understand declines and test remedies”

New Tool to Assess Effects of Powerful Man-Made Underwater Sounds

Below is a press release about the Methods paper ‘An interim framework for assessing the population consequences of disturbance‘ taken from the University of St Andrews:

A team of scientists from the University of St Andrews has developed a new desktop tool for assessing the impact of noise from human disturbance, such as offshore wind development on marine mammal populations.

PCOD_PR_imageThe team, led by Prof. John Harwood, have developed the interim Population Consequences of Disturbance (PCoD) framework for assessing the consequences of human induced noise disturbance on animal populations. The study was published yesterday in the journal Methods in Ecology and Evolution.

Changes in natural patterns of animal behaviour and physiology resulting from animals being disturbed may alter the conservation status of a population if the activity affects the ability of individuals to survive, breed or grow. However, information to forecast population-level consequences of such changes is often lacking. The project team developed an interim framework to assess impacts when empirical information is sparse. Crucially, the model shows how daily effects of being disturbed, which are often straightforward to estimate, can be scaled to the duration of disturbance and to multiple sources of disturbance.

“We have developed a novel framework that can be used to broadly forecast the consequences of anthropogenic disturbance on animal populations, which in principal can be applied to a range of marine and terrestrial species and different types of disturbance.” – Dr Stephanie King

One important application for the interim PCoD framework is in the marine industry. Many industries use practices that involve the generation of underwater noise. These include shipping, oil and gas exploration, defence activities and port, harbour and renewable energy construction. Continue reading “New Tool to Assess Effects of Powerful Man-Made Underwater Sounds”