Monitoring Marine Mammals from Autonomous Underwater Vehicles

Lead Research Organisation: University of St Andrews
Department Name: Biology

Abstract

Shelf exchange creates the main supply of nutrients onto the continental shelf and is therefore vital to the health of on-shelf ecosystems. The FASTNEt programme will study shelf exchange mechanisms at a higher spatial resolution than has been previously possible and also throughout all seasons of the year. This will allow the development of high resolution models of shelf edge processes.
Much of the FASTNEt data will be collected using Autonomous Underwater Gliders carrying sensors measuring standard oceanographic parameters. Using additional data, our proposed program of work will enable us for the first time to investigate relationships between these low level processes and their effect on animals feeding at higher trophic levels which are ultimately dependent on these exchange processes.

Cetaceans are traditionally surveyed using visual line transect methods. These are expensive to implement and can generally only be conducted during the summer months. Passive acoustic monitoring (PAM) offers a real alternative because many species make distinctive calls. Recent advances in PAM technology also mean that it is now possible to produce sensor packages which are ideally suited to glider deployment, being small and able to carry their own power pack for deployments of weeks or even months.

Modelling techniques are well-established for estimating cetacean abundance and, to a lesser extent, for investigating habitat use. Covariate data used for this modelling are generally not collected at the same time and place as the whale abundance data. In addition, oceanographic data are typically limited to the upper few cm of the ocean (e.g. sea surface temperature), whereas the animals are feeding at depth. For the species we propose to study here, we can not only identify calls to species, but we can identify sounds associated with foraging. These data identifying locations where animals are actually feeding can be used to fine-tune habitat models. We hypothesise that models of cetacean abundance that incorporate parameters measured at the same depth and the same time as the cetacean data will show a marked improvement over current surface data only models.

We will deploy sensor packages for gliders capable of measuring the presence and abundance of cetaceans using PAM. These will be based on low power animal borne sensors developed by two of the project proposers Johnson and Tyack. During the first year we will make use of existing sensors but over the course of the year, we expect the next generation of PAM devices to become available with lower power and enhanced on board processing capability.

When combined with other oceanographic and biochemical parameters measured on the Ocean Shelf Exchange programme this will lead to greater understanding of how shelf exchange directly affects biological activity at high trophic levels. By using the vocalisations (calls) of whales and dolphins, instead of visual observations, as measures of their presence and abundance, and by fitting models to fine scale in situ data on their environment, we aim to develop more detailed species-habitat models that will improve our understanding of cetacean ecology.

Understanding the processes that influence the distribution and behaviour of whales and dolphins is important both because cetaceans form a major predator group that potentially has a large impact on the structure of the marine environment through top-down forcing, and because their slow life histories make them particularly vulnerable to human activities. Determining the most appropriate conservation measures for these species depends crucially on knowledge of how they utilise the available habitat.

Planned Impact

The Scientific benefits of our proposed research are laid out in the Academic Beneficiaries section. Here we concentrate on the benefits to the UK in terms of government policy and public engagement.

Policy

As a signatory to the EU habitats directive, the UK is required to attempt to maintain and to report on the favourable conservation status of marine mammals in our waters. In support of this, large scale vessel based abundance surveys have been conducted by the University of St Andrews in 1994, 2005 and 2007. These decadal scale surveys were designed to minimise bias and maximise precision of abundance estimates to provide the best context for assessing the impact of anthropogenic activities, such as fisheries bycatch. They are expensive and were not designed for monitoring short term or small spatial scale changes in abundhttps://je-s.rcuk.ac.uk/JeS2WebSite/secure/DocEdit/ResourceSummary.aspx?did=1094452&sdcid=1854ance. Passive acoustic monitoring provides a tool for collecting data at reduced cost and can therefore directly contribute to our ability to meet these regulatory requirements within a limited budget. By combining cetacean abundance data with oceanographic parameters we may also be able to develop improved tools to predict cetacean presence in un-surveyed areas. Predictive habitat modelling is being used as a tool for mitigating against the known harmful effects of military sonar on some cetacean species by ensuring that military sonar exercises are conducted in area of likely low cetacean density. Improving these models will improve our capabilities to perform marine spatial planning, such as defining the appropriate locations and seasons to conduct necessary exercises with minimum impact to the environment.

Public Engagement

Whales and dolphins have always been an easy way to engage the general public in science. At a time when many people are either bored or disillusioned with both science and scientists it essential that we employ everything at our disposal to inform the public on important scientific issues. Our project provides an excellent way to engage the public in the overall aims of the FASTNEt programme and in the wider world of ocean and climate science.

Publications

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Atkins J (2016) A Low-Cost Open-Source Acoustic Recorder for Bioacoustics Research. in Advances in experimental medicine and biology

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Caillat M (2013) The effects of acoustic misclassification on cetacean species abundance estimation. in The Journal of the Acoustical Society of America

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Johnson M (2013) Low complexity lossless compression of underwater sound recordings. in The Journal of the Acoustical Society of America

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Macaulay J (2017) Passive acoustic methods for fine-scale tracking of harbour porpoises in tidal rapids. in The Journal of the Acoustical Society of America

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Marques TA (2013) Estimating animal population density using passive acoustics. in Biological reviews of the Cambridge Philosophical Society

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Merchant ND (2015) Measuring acoustic habitats. in Methods in ecology and evolution

 
Description Two miniature DTAG-based sound recorders have been developed for this project. A recorder was installed in a Seaglider for a test deployment in November. Results from this deployment were reported in a phone conference with FastNet collaborators.

The PhD student has used recordings of echolocation clicks recorded from beaked whales to model the detection process, comparing different potential cues. She is comparing which cues provide the most reliable estimate of the number of animals present. She is also modeling the optimal glider deployment characteristics for detecting beaked whales assuming even distribution, clumped distribution, or the actual distribution of dives at the AUTEC naval range in the Tongue of the Ocean, Bahamas.
Exploitation Route Findings on detections of calls of marine mammals might be used for monitoring marine mammal populations, for mitigation of impacts of intense sound sources, and for studying effects of anthropogenic sound on marine life. The work on passive acoustic detection of beaked whales is particularly important for monitoring these difficult to sight species which are particularly sensitive to anthropogenic noise. The PhD student has graduated and submitted several proposal for using the results to improve our abilities to estimate the abundance of beaked whales and other species using passive acoustic monitoring.
Sectors Aerospace, Defence and Marine,Energy,Environment

 
Description There is growing interest on the part of offshore energy and naval sectors in developing methods for passive acoustic monitoring of marine life using novel platforms such as gliders. Douglas Gillespie has co-authored two reports entitled "UNDERSTANDING THE CURRENT STATE OF AUTONOMOUS TECHNOLOGIES TO IMPROVE/EXPAND OBSERVATION AND DETECTION OF MARINE SPECIES" and "LOW VISIBILITY REAL-TIME MONITORING TECHNIQUES REVIEW" delivered to the Joint Industry Program on E&P Sound and Marine Life of the International Association of Oil and Gas Producers. Doug Gillespie, Mark Johnson and Peter Tyack are part of a successful bid for a contract from the Joint Industry Program on E&P Sound and Marine Life of the International Association of Oil and Gas Producers to suggest methods for using fixed passive acoustic monitoring to study the distribution and abundance of marine mammals over the life span of offshore energy projects. Popi Gkikopoulou and Tyack have had a white paper to the Office of Naval Research approved for submission of a full proposal to develop models for effectiveness of PAM on a variety of platforms including gliders. Tyack was asked in 2017 by the NATO Centre for Maritime Research and Exploration about developing collaborative programs to measure biological sounds from ocean gliders. Gillespie and Tyack were invited to attend the Fifth Workshop on Military Applications of Underwater Glider Technology at the NATO lab and we have submitted a proposal to the US ONR to take part in a Joint Research Program using gliders to record ambient sound and sounds produced by marine life in the high latitudes of the N Atlantic.
First Year Of Impact 2017
Sector Aerospace, Defence and Marine,Construction,Energy,Environment
Impact Types Societal,Economic,Policy & public services

 
Description Membership on the GESAMP Task Team on Pollution of the Open Ocean
Geographic Reach Multiple continents/international 
Policy Influence Type Membership of a guideline committee
Impact I was asked to join the GESAMP Task Team on Pollution of the Open Ocean (Group of Experts on the Scientific Aspects of Marine Environmental Protection (GESAMP) is an advisory body, established in 1969, that advises the United Nations). I helped to write the GESAMP study 91 on Pollution in the Open Oceans 2009-2013.
URL http://www.gesamp.org/publications/gesamp-reports-and-studies-91---100/reports-and-studies-91
 
Description ACCURATE - ACoustic CUe RATEs for passive acoustics density estimation
Amount $1,777,887 (USD)
Organisation US Navy 
Sector Public
Country United States
Start 09/2019 
End 12/2023
 
Description ACouME
Amount £12,180 (GBP)
Organisation University of St Andrews 
Sector Academic/University
Country United Kingdom
Start 01/2020 
End 01/2021
 
Description CAPOD
Amount £150 (GBP)
Organisation University of St Andrews 
Sector Academic/University
Country United Kingdom
Start 03/2015 
End 03/2015
 
Description Ken Murray Endowment Fund
Amount £500 (GBP)
Organisation University of St Andrews 
Sector Academic/University
Country United Kingdom
Start 03/2016 
End 03/2016
 
Title Data from: Discrimination of fast click series produced by tagged Risso's dolphins (Grampus griseus) for echolocation or communication 
Description  
Type Of Material Database/Collection of data 
Year Produced 2016 
Provided To Others? Yes  
 
Description Use of vocal period data from Blainville's beaked whale at AUTEC 
Organisation Naval Sea Systems Command
Department Naval Undersea Warfare Center Newport
Country United States 
Sector Academic/University 
PI Contribution The PhD student working on this project will use the beaked whale vocal period data to model detection probabilities of a glider moving through the field.
Collaborator Contribution The marine mammal bioacoustics team of the US Naval Undersea Warfare Center (Newport RI) has provided data on the times and locations when beaked whales were detected making foraging dives on the AUTEC naval training range in the Tongue of the Ocean in the Bahamas.
Impact A chapter of the PhD student's thesis will result from this collaboration.
Start Year 2016
 
Title PAMGUARD 
Description PAMGuard software. PAMGuard is open source software developed by a team lead by Dr Douglas Gillespie, for the detection and classification of cetacean sounds. The PAMGUARD project was set up to provide the world standard software infrastructure for acoustic detection, localisation and classification for mitigation against harm to marine mammals. Since Version 1.14.00 released in September 2015, PAMGuard has included a module specifically designed to unpack data from dTag and Soundtrap devices used for PAM data collection on underwater gliders. The inclusion of this module within the PAMGuard framework makes PAM technologies for gliders more accessible to the wider research community. The most recent version is 1.15.09 from JANUARY 2017. 
Type Of Technology Software 
Year Produced 2015 
Open Source License? Yes  
Impact The President of the International Association of Geophysical Contractors has written the following about impact: IAGC "conservatively estimate that on a global scale, PAMGuard saves hundreds of days of down-time each year, resulting in downtime savings approaching $100 million per year. This estimate does not include the cost that could be incurred if operating licences were withheld due to inability to effectively mitigate potential negative effects from our operations. Indeed there are some circumstances in which the industry would simply be unable to operate effectively without PAMGuard." 
URL http://www.pamguard.org/
 
Description Dundee Sci Ctr 2016 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Animal Day 2016 - In Dundee Science Centre - 13th of February 2016 11am - 3pm as part of Dundee Science Centre's programme of public engagement for 2016, 'Meet the expert' days.

"The Biggest Nose on Earth" saw lab members presenting information on the Sperm Whale, Echolocation, Tags as tools to study whale behaviour, and Conservation. Members of the public were able to see if they could click as loud as a sperm whale, listen to sperm whales, age a sperm whale using the layers in its teeth, and hit a target at different distances using water jets with narrow and broad beam widths to explain why the nose of a sperm whale is so important for generating echolocation clicks and focussing sound. We had a good foot fall and many budding young scientists and their parents enjoyed interacting with the display and lab members.
Year(s) Of Engagement Activity 2016
 
Description European Researchers Night 2015 St Andrews 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact European Researchers Night 2015 Research LIVE St Andrews - 25th of September 2015 in Medical School Building in the North Haugh 7pm - 11pm . "Hunt with sperm whales".

How do marine mammals use sound to find food and communicate? Sperm whale clicks as an example. Different communication sounds from different areas of the world and expose to a "mini foraging dive" of a sperm whale. How do researchers detect those sounds and how do they use them to make inferences about the size of the population? Audience: 5 years old - adults.
Year(s) Of Engagement Activity 2015
 
Description Fife Science Festival 2014 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact 1. Sound & movement Tags team in Fife Science Festival 2014 - 'How Whales sign for their Supper' in Scottish Fisheries Museum. Saturday 15th March 10am-2pm.

During the Fife Science Festival 2014 - sound and movement tag lab participated with different activities regarding the use of sound from marine mammals. Audience of different ages had the opportunity to listen to foraging and social sounds from different marine mammal groups, see generated acoustic signals in the screen and the reflected echoes from different objects, find out how those sounds are recorded and the different platforms of passive acoustic methods for surveying marine mammals.
Year(s) Of Engagement Activity 2014
 
Description Glasgow Science Festival 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Weekend Participation in drop in activities for all ages "Whales, seals and dolphins, oh my".
Year(s) Of Engagement Activity 2017
 
Description MasterClass in Biology (Royal Society of Edinburgh) 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Undergraduate students
Results and Impact Popi taught with two colleagues 20 individuals (of age 18-21) about whale sounds and density estimation from acoustic data.
Year(s) Of Engagement Activity 2018
 
Description Roy Soc Edin Science Masterclass 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Start Science Masterclasses of the Royal Society of Edinburgh, organized a class in St Andrews held by Meriem Kayoueche-Reeve with theme "Mud and Marine Mammals". The Sound and Movement Tag Lab participated with activities related to marine mammals hunting. S1 and S2 students had the opportunity to go through the different feeding strategies of varied marine mammal groups and play with a sound production model describing the basic functions of echolocation.
Year(s) Of Engagement Activity 2015
 
Description Science Discovery Day 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact Create and Run activity about the acoustic production of cetaceans and methods for estimating density "Calling and Counting: Learning about whales and dolphins from their sounds" at the University of St Andrews.
Year(s) Of Engagement Activity 2018
 
Description Sinclairtown Primary School 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact As part of three different teams Popi taught ca. 150 students (of age 7-11) about bioacoustics, biologging, anatomy and physiology of marine mammals.
Year(s) Of Engagement Activity 2018
 
Description Working with the British Museum of Natural History in the development of their Whale Exhibit 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Working with the British Museum of Natural History in the development of their Whale Exhibit. This will
Year(s) Of Engagement Activity 2015,2016
URL http://www.nhm.ac.uk/