 @warren.bioacoustics.lab
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Joseph
D. Warren
Associate Professor
School of Marine and Atmospheric
Sciences
Stony Brook University
239 Montauk Hwy
Southampton, NY 11968
631-632-5045,
joe.warren@stonybrook.edu
 @warren_lab
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Research: Bioacoustical
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.
Education
| Harvey Mudd College -
B.S. Engineering with Honors,
1994 |
| MIT/WHOI Joint
Program - Ph.D. Applied Ocean
Sciences, 2001 |
Recent Lab Publications (full
list with links on Google
Scholar, please contact me if a pdf
is needed)
S.S. Urmy and J.D. Warren (2019) Seasonal
changes in the biomass, distribution,
and patchiness of zooplankton and fish
in four lakes in the Sierra Nevada,
California. Freshwater Biology.
doi:10.1111/fwb.13362
B.M. Lucca and J.D. Warren. (2019) Fishery-independent
observations of Atlantic menhaden
abundance in the coastal waters south of
New York Fisheries Research 218:
229-236. doi:10.1016/j.fishres.2019.05.016
C. Wirth and J.D. Warren. (2019) Overlapping
use of an artificial reef by humans and
an apex predator (Tursiops truncatus) in
the New York Bight. Marine Mammal
Science 35(1): 271-283.
doi:10.1111/mms.12515 [first published
online: May 2018]
C. Wirth and J.D. Warren. (2018) Spatial
and temporal variation in toadfish
(Opsanus tau) and cusk eel (Ophidion
marginatum) mating choruses in eelgrass
(Zostera marina) beds in a shallow,
temperate estuary. Bioacoustics.
doi: 10.1080/09524622.2018.1542631
P.S. Segre, A. Bocconcelli, L.S. Hickmott,
G. Howes, J.D. Warren, and G. Chiang.
(2018) Offshore
hummingbird sightings in Chilean
Patagonia. The Wilson Journal of
Ornithology, 130(3): 796-799. doi:
10.1676/17-066.1
B.M. Lucca and J.D. Warren. (2018) Acoustically-measured
distribution and abundance of Atlantic
menhaden (Brevoortia tyrannus) in a
shallow estuary in Long Island, NY
Estuaries and Coasts.
doi:10.1007/s12237-018-0367-x
S.S. Urmy and J.D. Warren (2018) Foraging
hotspots of common and roseate terns:
the influence of tidal currents,
bathymetry, and prey density.
Marine Ecology Progress Series. 590:
227-245. doi:10.3354/meps12451
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 [lay-language
article that gives a good background on
some of the research my lab does]
Announcements
Are
you interested in joining the
lab ?
We have openings for
undergraduates,
graduate students, and
post-docs.
Our projects generally involve
bioacoustics, zooplankton
or fish ecology.
Please read
this for more
information.
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2019
This year's publications include: Brandyn
Lucca's 2nd chapter from his MS thesis
estimating forage fish abundance using
acoustics in NY's coastal waters and the
final publication from the NSF RAPID award we were a part of
investigating wildfire effects on lake
ecosystems was published in Freshwater Biology.
We have the usual amount of fieldwork
scheduled for this year: Jamaica, Chile,
New York (X4), Antarctica, California, and
the SE Coast of US. (I think I'm not
forgetting anything). We had a full
lab this summer with 3 grad students and 7
undergrads working on processing samples
and analyzing data. They even got some lab
swag -- which was easy to acquire given a
presidential candidate shares my last
name.
2018
The year began with the departure of Dr.
Sam Urmy who graduated (in Dec 2017) and began
a post-doc at MBARI. But we accepted a new
MS student (Marie Todey) who will be
working on zooplankton and larval fish of
the offshore waters of NY. Colin
Wirth defended his MS thesis and had two
of his chapters get published in the same
year! We had a slightly odd entry in my
pub list: a short note detailing
hummingbird observations that were made
during a project studying the foraging
behavior of blue whales in Patagonian
Chile. That's right - a study of the
biggest animal on the planet produced a
paper on one of the smallest animals! A
heavy load of fieldwork continued for the
group with research in: Fiji, South
America, New York, Philippines, and the SE
coast of the US.
 
2017
Several papers from the lab came out
online this year (although they all ended
up with 2018 publication dates for the
print version) including: Brandyn Lucca's
first MS thesis chapter in Estuaries and
Coasts and Sam Urmy's second PhD thesis
chapter in MEPS Brandyn also successfully
defended his MS thesis (in 2016) and
decided to continue his work in the lab as
a doctoral student and our ALES lab field
trip produced a great group shot if the
lab members ever decide to form an
alternative rock band.
 
2016
Congratulations to Ph.D. student Sam Urmy
on the publication
in Methods in Ecology and Evolution of his
first doctoral thesis
research chapter on using a marine radar
to quantify the movement,
abundance, and distribution of seabirds.
Congratulations to Maija Niemisto who
completed her MS thesis
investigating the fish and zooplankton of
the Hudson River estuary this
fall. Maija submitted her thesis to Stony
Brook University two days
before giving birth to her 2nd child!
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.
Joe
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.
2015 Adventures
ALES
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.
Joe
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.
Summer
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
sticks).
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.
Congratulations
to
former lab
member, Joy Smith whose paper
in
the ICES Journal of Marine Science about
developing a target strength
model for Bering Sea euphausiids is the
2nd published paper from her
Masters thesis.
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
week-long graduate
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).
Check
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
delicious.
Congratulations
to
former lab
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.
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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.
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Check out some
summaries of what
folks are
currently
working on as well as past projects.
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