bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2022,
Volume and Issue:
unknown
Published: April 1, 2022
Abstract
The
black
carpenter
ant
(
Camponotus
pennsylvanicus
)
is
a
pest
species
found
widely
throughout
North
America
east
of
the
Rocky
Mountains.
Its
frequent
infestation
in
human
buildings
justifies
close
genetic
examination
and
its
large
size
small
genome
make
it
ideal
for
individual
sequencing.
From
single
I
used
long-read
nanopore
sequencing
to
assemble
306
Mb,
with
an
N50
565
Kb,
60X
coverage,
quality
assessed
by
97.0%
BUSCO
score,
improving
upon
related
assemblies.
reads
provided
secondary
information
form
parasitic
symbiont
genomes,
as
well
epigenetic
information.
assembled
complete
Wolbachia
bacterial
isolate
1.2
Mb
76X
commensal
bacterium
tribe,
species-specific
Blochmannia
,
at
791
2400X
which
matched
within
200
bp
previously
published
reference.
also
produced
mitochondrial
over
5000X
revealing
minor
rearrangements
first
assembly
this
species.
DNA
methylation
hydroxymethylation
was
measured
simultaneously
whole
genome,
base-pair
resolution
level
from
same
confirmed
extremely
low
levels
seen
Formicidae
family
Hymenoptera.
A
phased
diploid
built,
moderate
heterozygosity,
0.16%
bases
having
biallelic
SNPs
two
parental
haplotypes.
Protein
prediction
yielded
20,209
putative
amino
acid
sequences
annotation
identified
86%
known
proteins.
All
assemblies
were
derived
Minion
flow
cell
generating
20
Gb
sequence
cost
$1047
including
all
consumable
reagents.
Adding
fixed
costs
required
equipment
batch
reagents
brings
ant-sized
less
than
$5000.
Complete
analysis
performed
under
1
week
on
commodity
computer
desktop
64
memory.
Parasite Immunology,
Journal Year:
2022,
Volume and Issue:
44(3)
Published: Feb. 1, 2022
Ophiocordyceps
fungi
manipulate
ant
behaviour
as
a
transmission
strategy.
Conspicuous
changes
in
the
daily
timing
of
disease
phenotypes
suggest
that
and
other
manipulators
could
be
hijacking
host
clock.
We
discuss
available
data
support
notion
clocks
consider
how
altering
behavioural
rhythms
benefit
fungal
infection
cycle.
By
reviewing
time-course
transcriptomics
for
parasite
host,
we
argue
has
light-entrainable
clock
might
drive
expression
candidate
manipulation
genes.
Moreover,
are
seemingly
highly
plastic
involved
division
labour,
which
make
them
susceptible
to
hijacking.
To
provisionally
test
whether
plasticity
rhythmicity
genes
affected
by
manipulation,
performed
gene
co-expression
network
analysis
on
linked
it
data.
found
reside
same
modules
those
during
manipulation.
These
showed
significant
connectivity
with
rhythmic
modules,
suggesting
indirectly
affecting
well.
PLoS Biology,
Journal Year:
2024,
Volume and Issue:
22(4), P. e3002572 - e3002572
Published: April 11, 2024
The
circadian
clock
controls
behavior
and
metabolism
in
various
organisms.
However,
the
exact
timing
strength
of
rhythmic
phenotypes
can
vary
significantly
between
individuals
same
species.
This
is
highly
relevant
for
rhythmically
complex
marine
environments
where
organismal
diversity
likely
permits
occupation
different
microenvironments.
When
investigating
locomotor
Platynereis
dumerilii
,
a
model
system
molecular
chronobiology,
we
found
strain-specific,
high
variability
individual
worms.
patterns
were
maintained
several
weeks.
A
diel
head
transcriptome
comparison
behaviorally
versus
arrhythmic
wild-type
worms
showed
that
24-h
cycling
core
transcripts
identical
both
behavioral
phenotypes.
While
similar
total
number
compared
to
their
counterparts,
annotation
categories
transcripts,
however,
differed
substantially.
Consistent
with
phenotype,
exhibit
an
enrichment
related
neuronal/behavioral
processes.
In
contrast,
increased
metabolism-
physiology-related
transcripts.
prominent
role
neuropeptide
pigment-dispersing
factor
(PDF)
Drosophila
prompted
us
test
possible
functional
involvement
pdf
.
Differing
from
its
loss
impacts
overall
activity
levels
but
shows
only
indirect
effects
on
rhythmicity.
Our
results
show
given
process
rhythmicity
others.
Across
population,
exist
as
continuum,
no
distinct
“boundaries”
arrhythmicity.
We
suggest
such
rhythm
breadth
important
biodiversity
resource
enabling
species
quickly
adapt
heterogeneous
or
changing
environments.
times
massive
sequencing,
our
work
also
emphasizes
importance
time
series
tests.
Transmission
is
a
crucial
step
in
all
pathogen
life
cycles.
As
such,
certain
species
have
evolved
complex
traits
that
increase
their
chances
to
find
and
invade
new
hosts.
Nucleic Acids Research,
Journal Year:
2022,
Volume and Issue:
51(1), P. 17 - 28
Published: June 21, 2022
The
black
carpenter
ant
(Camponotus
pennsylvanicus)
is
a
pest
species
found
widely
throughout
North
America.
From
single
individual
I
used
long-read
nanopore
sequencing
to
assemble
phased
diploid
genome
of
306
Mb
and
60X
coverage,
with
quality
assessed
by
97.0%
BUSCO
score,
improving
upon
other
assemblies.
mitochondrial
reveals
minor
rearrangements
from
ants.
reads
also
allowed
assembly
parasitic
symbiont
genomes.
include
complete
Wolbachia
bacterial
size
1.2
Mb,
as
well
commensal
Blochmannia
pennsylvanicus,
at
791
kb.
DNA
methylation
hydroxymethylation
were
measured
base-pair
resolution
level
the
same
confirmed
extremely
low
levels
seen
in
Formicidae
family.
There
was
moderate
heterozygosity,
0.16%
bases
being
biallelic
parental
haplotypes.
Protein
prediction
yielded
14
415
amino
acid
sequences
95.8%
score
86%
matching
previously
known
proteins.
All
assemblies
derived
MinION
flow
cell
generating
20
Gb
sequence
for
cost
$1047
including
consumable
reagents.
Adding
fixed
costs
equipment
brings
total
an
ant-sized
less
than
$5000.
analyses
performed
1
week
on
desktop
computer.Creating
reference
animal
genomes
typically
large,
expensive
process.
Here
sequenced
only
$1000
sole
researcher
just
one
week.
Along
nuclear
genome,
assembled
two
bacteria
living
within
ant.
Nanopore
technology
enabled
epigenetic
measurements
replicated
studies
showing
very
methylation.
compared
favorably
continuity
protein
accuracy.
This
method
will
allow
low-resource
labs
create
high
cost.
Hepatology,
Journal Year:
2022,
Volume and Issue:
77(3), P. 1022 - 1035
Published: May 20, 2022
The
mammalian
liver
must
cope
with
various
metabolic
and
physiological
changes
that
normally
recur
every
day
primarily
stem
from
daily
cycles
of
rest‐activity
fasting‐feeding.
Although
a
large
body
evidence
supports
the
reciprocal
regulation
circadian
rhythms
function,
research
on
hepatic
ultradian
have
largely
been
lagging
behind.
However,
advent
more
cost‐effective
high‐throughput
omics
technologies,
high‐resolution
time‐lapse
imaging,
robust
powerful
mathematical
tools,
several
recent
studies
shed
new
light
presence
functions
rhythms.
In
this
review,
we
will
first
very
briefly
discuss
basic
principles
rhythms,
then
cover
in
greater
details
literature
related
to
Specifically,
highlight
prevalence
mechanisms
12‐h
8‐h
which
cycle
at
second
third
harmonics
frequency.
Finally,
also
refer
other
frequencies
examine
limitations
current
approaches
as
well
challenges
identifying
rhythm
addressing
their
molecular
underpinnings.
Communications Biology,
Journal Year:
2023,
Volume and Issue:
6(1)
Published: Oct. 2, 2023
Division
of
labor
(DOL)
is
a
characteristic
trait
insect
societies,
where
tasks
are
generally
performed
by
specialized
individuals.
Inside
workers
focus
on
brood
or
nest
care,
while
others
take
risks
foraging
outside.
Theory
proposes
that
have
different
thresholds
to
perform
certain
when
confronted
with
task-related
stimuli,
leading
specialization
and
consequently
DOL.
Workers
presumed
vary
in
their
response
cues
rather
than
how
they
perceive
such
information.
Here,
we
test
the
hypothesis
DOL
instead
stems
from
varying
efficiency
detect
stimuli
specific
tasks.
We
use
transcriptomics
measure
mRNA
expression
levels
antennae
brain
nurses
foragers
ant
Temnothorax
longispinosus.
find
seven
times
as
many
genes
be
differentially
expressed
between
behavioral
phenotypes
compared
brain.
Moreover,
half
all
odorant
receptors
expressed,
an
overrepresentation
9-exon
gene
family
upregulated
nurses.
Nurses
thus
apparently
differ
perception
olfactory
environment
signals.
Our
study
supports
antennal
sensory
filters
predispose
specialize
Abstract
Social
monogamy
is
a
reproductive
strategy
characterized
by
pair
living
and
defense
of
common
territory.
Pair
bonding,
sometimes
displayed
monogamous
species,
an
affective
construct
that
includes
preference
for
specific
partner,
distress
upon
separation,
the
ability
partner
to
buffer
against
stress.
Many
seahorse
species
show
social
structure
in
wild,
but
their
bond
has
not
been
well
studied.
We
examined
gene
expression
lined
seahorses
(
Hippocampus
erectus
)
during
after
process
pairing
laboratory
as
color
change
(luminance),
potential
form
communication
behavioral
synchrony
between
mates.
When
either
sex
was
interacting
with
its
mate,
changes
luminance
(“brightness”)
were
correlated
larger
than
when
opposite‐sex
stranger.
At
conclusion
testing,
subjects
euthanized,
RNA
extracted
from
whole
brains
analyzed
via
sequencing.
Changes
paired
males
versus
those
unpaired
included
processes
governing
metabolic
activity,
hormones
cilia.
Perhaps
most
interesting
overlap
induced
both
male
prairie
voles,
including
components
hormone
systems
regulating
reproduction.
Because
our
limited
sample
size,
we
consider
results
interpretations
be
preliminary,
prompts
further
exploration.
Future
studies
will
expand
these
findings
investigate
neuroendocrine
genetic
basis
behaviors.
Animal Behaviour,
Journal Year:
2023,
Volume and Issue:
203, P. 225 - 240
Published: July 14, 2023
Coevolutionary
relationships
between
parasites
and
their
hosts
can
lead
to
the
emergence
of
diverse
phenotypes
over
time,
as
seen
in
Ophiocordyceps
fungi
that
manipulate
insect
arachnid
behaviour
aid
fungal
spore
transmission.
The
most
conspicuous
examples
are
found
ants
Camponotini
tribe,
colloquially
known
'zombie
ants'.
While
behaviours
induced
during
infection
well
described,
molecular
underpinnings
remain
unknown.
Recent
genomics
transcriptomics
analyses
camponoti-floridani
have
identified
several
highly
upregulated
biomolecules
produced
by
fungus
Camponotus
floridanus.
Among
them
is
an
ergot
alkaloid
related
mycotoxin
aflatrem,
cause
'staggers
syndrome'
cows.
Staggering,
defined
unsteady
movements
side
side,
also
observed
C.
floridanus
late-stage
infection.
To
test
whether
aflatrem-like
compounds
could
be
responsible,
we
injected
healthy
with
aflatrem
recorded
for
30
min.
Using
both
automated
object-tracking
software
MARGO
manual
behavioural
quantification,
reduced
ant
activity
speed
increased
staggering
behaviours.
examine
underlying
transcriptomic
changes,
performed
RNA-seq
on
heads
aflatrem-injected
ants,
keeping
step
previous
work
Ophiocordyceps-manipulated
ants.
We
261
genes
were
significantly
dysregulated
compared
sham-injected
controls.
When
data
from
groups
shared
113
differentially
regulated
genes.
These
included
sensory
neuron
membrane
protein
genes,
odorant-binding
musculoskeletal
such
titin
obscurin.
Together,
these
results
indicate
affect
neuromuscular
function
conservation
staggers
phenotype
Bos
taurus
suggests
behaviour-manipulating
strategies
exhibited
across
Tree
Life
may
more
similar
approach,
if
not
widely
different
application,
than
realize.