School of Marine and Atmospheric Sciences
Stony Brook University
239 Montauk Hwy
Southampton, NY 11968
Oceanography, Zooplankton Ecology
Scattering of sound by biological and physical oceanographic processes,
Predator-prey relationships in zooplankton ecosystems,
Acoustic surveys of marine life, Biological and physical factors
affecting zooplankton ecosystems, Antarctic krill ecosystem, Ocean
observation systems.Zooplankton and nekton behavior and ecology.
Survey design and technology. Application of
underwater acoustics to oceanographic problems. Use of sound
by marine animals.
| Harvey Mudd College -
B.S. Engineering with Honors,
| MIT/WHOI Joint
Program - Ph.D. Applied Ocean Sciences, 2001
Recent Lab Publications
K. Owen, A. S. Kavanagh,
J.D. Warren, M.J.
Noad, D. Donnelly, A.W. Goldizen, R.A. Dunlop. 2016. Potential energe gain by whales outside fo the
Antarctic: prey preferences and consumption rates of migrating humpback
whales (Megaptera Novaeangliae).
Polar Biology. doi:10.1007/s00300-016-1951-9 [.pdf
S.S. Urmy, C.E. Williamson, T.H. Leach, S.G. Schladow, E.P. Overholt, J.D. Warren. 2016. Vertical
redistribution of zooplankton in an oligotrophic lake associated with
reduction in ultraviolet radiation by wildfire smoke. Geophysical Research Letters. doi:10.1002/2016GL068533 [.pdf]
C.E. Williamson, E.P. Overholt, J.A. Brentrup, R.M. Pilla, T.H. Leach, S.G. Schladow, J.D. Warren, S.S. Urmy, S. Sadro, S. Chandra, P.J. Neale. 2016. Sentinel responses to droughts, wildfires, and floods: Ultraviolet
radiation and the consequences for lakes and their ecosystem services. Frontiers in Ecology and Environment. 14(2): 102-109. doi:10.1002/fee.1228 [.pdf]
J.D. Warren, T.H. Leach, and C.E. Williamson. 2016. Measuring the distribution, abundance, and biovolume of zooplankton in
an oligotrophic freshwater lake with a 710 kHz scientific echosounder. Limnology & Oceanography: Methods. doi:10.1002/lom3.10084 [.pdf]
K. Owen, J.D. Warren, M.J. Noad, D. Donnelly, A.W. Goldizen, and R.A. Dunlop. (2015) The effect of prey type on the fine-scale feeding behaviour of migrating east Australian humpback whales. Marine Ecology Progress Series. 541: 231-244 doi:10.3354/meps11551 [.pdf]
K.N. Becker and J.D. Warren. 2015. Material properties of Pacific hake, Humboldt squid, and two species of myctophids in the California Current. Journal of the Acoustical Society of America. 137(5): 2522-2532. doi: 10.1121/1.4919308. [.pdf]
K.N. Becker and J.D. Warren. 2014. Material properties of Northeast Pacific zooplankton. ICES Journal of Marine Science. 71(9): 2550-2563. doi: 10.1093/icesjms/fsu109. [.pdf]
J.D. Warren. 2012. Counting critters in the sea using active acoustics. Acoustics Today. Volume 8. Issue 3. 25-34.
doi: 10.1121/1.4753914 [.pdf] [lay-language article]
|Are you interested in joining the lab ?
We have openings for undergraduates, graduate students, and post-docs.
Our projects generally involve
or fish ecology.
Please read this
for more information.
Lots of field work for the lab this summer including: surveys of
Atlantic menhaden (bunker) in the local bays and estuaries of Long
Island; passive acoustic monitoring of soniforous animals in Shinnecock
Bay and elsewhere; Brandyn and Joe's Excellent Bering Sea Krill
Adventure; and much more.
Congratulations to Ph.D. student Sam Urmy on the publication
in Geophysical Research Letters of his first ALES research paper. This
project was in collaboration with colleagues at Miami University (OH),
UC Davis, and TERC. It was part of a NSF RAPID award to study the
effect of wildfire smoke on aquatic ecosystems.
has been on sabbatical for the 2015-2016 academic year -- which so far
has involved lots of field work (humpback whale and herring in SE
Alaska, deep sea fish and zooplankton in the Gulf of Mexico, benthic
habitat and passive acoustics in Jamaica, blue whale and krill foraging
in the Gulf of Corcovado, Chile, more deep sea fishes in the Gulf of
Mexico) and even more field work planned for this summer (Bering Sea in
June, California trips in July and August). Plus the lab is
continuing our local New York area fish and zooplankton survey work.
Joe presented work from our winter-term travel course in Tropical
Marine Ecology at this year's Benthic Ecology Meeting in Portland,
Maine in March 2016. Graduate students Maija Niemisto and Brandyn Lucca
recently presented their research at the NY AFS meeting in February
2016. Joe presented work from the Gulf of Mexico on the identity of the
fish responsible for a specific deep sea scattering layer at the GOMRI
meeting in Tampa, FL in February 2016.
is gearing up for another busy field season with projects this summer
involving: Tern foraging around Great Gull Island, surveys of
artificial reefs south of Long Island, collecting mesopelagic acoustic
backscatter data as part of the DEEPEND project in the Gulf of Mexico,
and a variety of laboratory and estuary experiments involving passive
and active acoustics.
spent a few days in the Sierra Nevada continuing our portion of a NSF
RAPID research study on the effects of the 2013 Yosemite Rimfire on
lake ecosystems in the region. Beautiful weather, great group of folks
from UC Davis / TERC, and lots of acoustic survey data!
Congratulations to recent Master's graduate Kaylyn Becker on the publication of her first paper
from her thesis research: a study on the material properties of many
different types of zooplankton from the NE Pacific. These data are
critical inputs for acoustic scattering models.
2014 research is off to a busy start. Graduate student Sam Urmy is
spending several weeks on Great Gull Island (off the tip of the North
Fork of Long Island) studying the foraging ecology of terns and their
prey. He's even got his advisor doing field sampling for him (wait a
minute, that's not how the advisor-student relationship is supposed to
work, is it ?). Sam makes observations from a tower (below left) of
terns (below middle) and concurrently, echosounder surveys are done in
the area (below right) to assess prey densities -- which in this case
are a good number of bluefish or schoolies (young striped bass) in The
Race. Sampling in a small boat in an area with very strong tidal
currents can be quite fun (and wet). And in the next few months, we
have work trips to Virginia, Yosemite, The Poconos, Molokai, and
additional local sampling here on Long Island.
Spring 2014 fieldwork in the lab began with the SV Clearwater
getting back in the water and collecting acoustic data as it moves up
and down the Hudson River. Sam Urmy continued our fieldwork as part of
a NSF-RAPID study examining the effects of the Yosemite Rimfire on lake
ecology by treking into Yosemite in April. This busy spring in the lab
was capped off by trips to the Acoustical Society of America meeting in
Providence, RI and the ICES Working Group on Fisheries Acoustics,
Science, and Technology in New Bedford, MA in early May. We presented
five talks between the two meetings so congrats to Kaylyn Becker (who
made Joe give her talk since she decided to go on her honeymoon instead
of attending the meetings) and Sam Urmy (who gave two talks with no
overlap in content -- something his advisor didn't do).
ALES has branched into the world of passive acoustic monitoring in
2014. We deployed a passive acoustic recorder at two different reef
sites on the north coast of Jamaica during Stony Brook University's
winter-term Tropical Marine Ecology course. We'll be looking at whether
there are differences in the two locations in terms of fish activity as
well as human activity (fishing boats). You can also check out videos
of this year's best student photos and some student (and faculty) invasive species removal activities (i.e. spearfishing lionfish).
Congratulations to Kaylyn Becker who received her Master's degree in
December. Kaylyn collected the first measurements on the material
properties (density and sound speed) of Humboldt squid, Pacific hake,
two species of myctophids, and several different zooplankton
species. These data are critically important inputs into acoustic
scattering models which are used by fisheries scientists to estimate
standing stock of commercially important species like Pacific hake
(which most people have eaten as a fast food fish sandwich or fish
Kaylyn's thesis has produced two manuscripts and both have
already been submitted to journals for publication -- way to go Kaylyn!
The spring ALES lab
outing to the Long Island Ducks game was a quacking success (except for
those who had to study for finals. The Ducks didn't win, but we
have a new Titration Helmet (which came with popcorn in it) for the
lab. Thanks to all the undergrads and grad students for a great
semester of research.
I wrote a lay-language article for Acoustics Today
[15 MB file!] about how active acoustics is used to assess fish and
zooplankton. For those interested in a general overview to my research
field, this is a great place to start.
member, Joy Smith whose paper
the ICES Journal of Marine Science about developing a target strength
model for Bering Sea euphausiids is the 2nd published paper from her
The ALES group is
back in NY getting ready for our next set of projects and working on analyzing data from our recent projects in
Australia (working with the SURFAH group), Alaska, the NE Pacific, and Antarctica, catching up on sample
processing, paper and report writing, and -maybe- sneaking in some surf
if we get some decent waves here in Long Island. Joe recently traveled to Penn State
to teach the active acoustics section of the SeaBASS
course in bioacoustics.
Prof. Peterson and I had another great group
of students in our winter term course MAR
388: Tropical Marine Ecology (read all about it in this
year's course blog).
out our lab blog
from our past several research cruises in the Pacific Ocean (Aug 2012) and in Antarctica (Nov/Dec 2010 and 2011).
Recent presentations by members of our lab include: 2012 Ocean Sciences
meeting in Salt Lake City, Utah (February 2012);
ICES WGFAST meeting in Reykjavik, Iceland and shortly afterwards to the
Acoustic Challenges in Aquatic Ecosystem Assessment Workshop sponsored
by the Acoustical Society of America and the American Fisheries Society
in Seattle, WA (both May 2011); the 5th
International Zooplankton Production Symposium in Pucon, Chile (March 2011). It was a great
meeting with ~ 300 zooplankton scientists from around the globe in
attendance. I also found a local bakery which made alfajores which were
member, Joy Smith whose work for her Masters thesis on the
variability of material properties of Bering Sea zooplankton was published in
the Journal of the Acoustical Society of America.
Congratulations to former lab
member, Krissy Forman whose work for her Masters thesis on the
variability of material properties of zooplankton and nekton was published in
the ICES Journal of Marine Science.
Attention Stony Brook
undergraduate MAR/MVB/ENS majors:
I am looking for students to
assist in the analysis of zooplankton samples from Cape Cod and
Antarctica. You will be
able to receive academic credit or pay for working in my lab. If
interested, please contact me.
Check out some summaries of what
folks are currently
working on as well as past projects.