Nabble - Bio.net - Celegans

To Dear professor Leon Avery,

2009-10-12T22:49:43Z

Dear professor Leon Avery,

Thanks for your time for reading the letter. I really appreciate it. ^_^

I have read your paper “Dietary choice behavior in Caenorhabditis elegans” published on J Exp Biol. Your discovery is a breakthrough in C.elegans dietary choice behavior research and has inspired us a lot.

Recently our task is also associated with the dietary choice behavior of C.elegans. The five kinds of bacterial strains mentioned in the article (which are high quality food: Comamonas sp.and E. coli strain HB101, mediocre food: E. coli DA837 and B. simplex, poor food: B. megaterium) is of great importance to our research. But we cannot find an access to get these strains of bacterial but turn to you for help.

We sincerely hope you could give us a hand, by sending some these bacterial strains to us for our further study or giving us some advises on how to get them. We really appreciate for your help.

At last, thanks again for your time and kindness. We are sincerely looking forward to your response. : )

Thanks,

Yidong Li

PS. Please send the mail to the following address:

Yidong Li

D11-309, Institute of Biophysics and Biochemistry,
College of life Science &Technology ,
Huazhong University of Science and Technology,
Wuhan, P. R. China, 430074

Tel: +86-27-87792025
Fax: +86-27-87792024
E-mail: 61291175@...
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Single worm reverse-transcriptase (RT) PCR

2009-09-11T04:20:12Z

Dear colleagues,
I'm advised that putative positives from RNA-interference (RNAi) experiments (using feeding strains from Geneservice {Fraser et al [2000]. Nature 408 (6810) 325-30}) can be checked by RT-PCR. This requires reverse transcriptase reaction on single worms.
Single worm PCR lysis buffer doesn't seem amenable to reverse transcriptase reaction {?}
Does anyone have a method/protocol for single worm RT-PCR ?
G. Joshua.

G.W.P.Joshua
London School of Hygiene and Tropical Medicine
Dept. Infectious and Tropical Diseases,
Keppel St.,
London WC1E 7HT.
Tel: (+44) (0)20 7927 2028
FAX: (+44) (0)20 7637 4314
E-mail: g.joshua@...
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quick platinum wire question

2009-08-17T12:56:52Z

I am trying to find Pt. wire (.020") for repair of electrophoresis modules. Do you (or do you know of a company that does) supply Pt. wire. I would probably be interested in relatively small quantities, such as 20" or so.

Bill Barnes
Coordinator,
Electronics Support Facility
Division of Agriculture
Oklahoma State University
405-744-6563
bill.barnes@...

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Re: Microinjection frustration (Jane Whittingham)

2009-06-16T12:35:53Z

> Date: Mon, 15 Jun 2009 20:42:04 +0000 (GMT)
> From: Jane Whittingham <ikklejaneo@...>
> Subject: [Celegans] Microinjection frustration
> To: celegans@...
> Message-ID: <213261.65125.qm@...>
> Content-Type: text/plain; charset=iso-8859-1
>
> I am desparately in need of some help with c. elegans
> microinjection. ... from what I
> can tell, my problem is the recovery of the worms. I
> use M9 buffer for recovery and they initially seem to
> recover really well, thrashing about in the M9, but once the
> M9 is absorbed into the plate and the worm adheres to the
> bacterial lawn, the head is still moving around a lot, but
> the back end of the worm seems almost paralysed and after a
> day or so the worm dies.

Jane, I forwarded your message to our local microinjection expert (Jacob Varkey) and he suggested a different buffer than M9:

"Even though it is not necessary, in some cases, I have asked students to use a recovery buffer. There are different formulations of it. One is given below.

3mM HEPES (pH7.2), 3 mM CaCl2, 66mM NaCl, 2.4mM KCl, 4% glucose, 0.1% salmon sperm DNA.

Some people simply add 4% glucose to M9.

In either case, incubating the worms at 16 C for couple of hrs in recovery buffer (in a moist chamber) before transferring to a seeded plate is recommended."

J.Varkey

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Microinjection frustration

2009-06-15T13:42:04Z

I am desparately in need of some help with c. elegans microinjection. I am new to the worm field and have been learning to microinject for about 3 months now and have had absolutely no success whatsoever. I have tried asking other people in the lab to help out and have tried troubleshooting myself from sources on the net or from books on microinjection but nothing has helped. I seem to be doing ok injecting the worms in the right place from what I can tell, my problem is the recovery of the worms. I use M9 buffer for recovery and they initially seem to recover really well, thrashing about in the M9, but once the M9 is absorbed into the plate and the worm adheres to the bacterial lawn, the head is still moving around a lot, but the back end of the worm seems almost paralysed and after a day or so the worm dies. So far the main advice I have had seems to be that there are two main reasons for the worm not recovering: the cuticle is irreparably damaged
during injection or the worm has dried out too much. I have tried to increase my speed of injection, I only inject one worm at a time and having timed myself typically take between 2-3 minutes to inject. I have tried tons of different thicknesses of agarose pad but nothing helped (I use 2% agarose in water). As for the damage to the worm, sometimes I can see this is a problem as the worm explodes after injection, but most of the time they seem absolutely fine, I have tried hundreds of different sizes and lengths of needles, tried breaking the needle straight on and at an angle, turned the worm at an angle to the needle so that only the smallest amount of the needle enters the gonad, but NOTHING has worked. Has anyone ever noticed this kind of thing happening before, I could really use some advice.
Thanks so much!

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Native protein extraction

2009-06-12T03:56:33Z

Hi Dr. Aurelio,

Greetings. I have just seen your request for assistance in native
protein extraction. Am in that dilemma too, so just wondering if you got
a solution yet. I want to do enzyme assay in locusts.

Thanks and kind regards,

Peris

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pmyo2::mcherry line?

2009-01-15T07:57:38Z

Does anyone have an integrated strain expressing mCherry behind the
myo-2 promoter? Our group is interested in using this strain to
investigate the role of toxicant exposure in a motion tracking assay.

Daniel Snyder Phone: (919) 541-2533

Research Assistant Fax: (919) 541-1460

Molecular Toxicology Bldg 101/ Rm E142

NIEHS
P.O. BOX 12233
MD E1-05
RTP, NC 27709

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Real Time PCR

2009-01-08T04:11:07Z

Dear colleagues,
Is there a consensus on best/good housekeeping gene in C. elegans to use
to normalise against in Real Time PCR?
Have tried act-3 (see Park et al (2007) J Mol Biol 372 (2), 331-340) but
find large differences in RNAs from two worm populations (in all replicates).
Best regards,
G. Joshua.

G.W.P.Joshua
London School of Hygiene and Tropical Medicine
Dept. Infectious and Tropical Diseases,
Keppel St.,
London WC1E 7HT.
Tel: (+44) (0)20 7927 2028
FAX: (+44) (0)20 7637 4314
E-mail: g.joshua@...
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Beyond Recognizing Odors, Single Neuron Controls Reactions In Worm

2008-11-29T05:49:45Z

Babies will smile when they catch the scent of vanilla, but a whiff of
rotting meat will send them into fits. From people to mice and flies
to worms, animals of all kinds are born with likes and dislikes thanks
to the evolutionary wisdom collected in their genes. But new research
shows that some preferences are still surprisingly flexible at even
the most basic level — that of the sensory neuron itself — and that
our nervous system may be even more adaptable than we thought.
“When you’re out hiking, you’ll notice that everything tastes really
delicious. That’s one of the best parts about hiking, actually, is how
delicious a peanut butter and raisin sandwich can be,” says Cori
Bargmann, Torsten N. Wiesel Professor and head of the Laboratory of
Neural Circuits and Behavior at The Rockefeller University.
“Conversely, when you are ill, everything tastes bad; everything makes
you nauseous. The question is: What is changing to allow the same
individual to respond to the same stimulus in different ways?”

Dokorek
--------------
Portal to share biological information-data between people
http://biospace.ethz.ch

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Advice regarding long-term liquid culture of C. elegans transgenics

2008-07-21T16:10:44Z

Dear Worm breeders,

We have generated a large number of transgenic worms in an unc-119
background using microparticle bombardment. We need large numbers of
these transgenics and have been growing them in liquid culture to
reach the density required. A few months ago, these strains were
growing really well with a quick generation time. More recently, the
same strains have become extremely slow growing and have not been
reaching the densities needed.

We have tried starting fresh cultures from frozen stocks, making
fresh culture reagents etc, but nothing as improved the growth of
these strains. The same strains have also not grown well when we have
put them on solid media.

Has anyone had any experience with the long-term liquid culture of
transgenics?? Is it perhaps the time of year, as it is now winter in
the Southern hemisphere!

Any help is appreciated.

Thanks in advance.

Julie-Anne

Julie-Anne Fritz, Ph.D.
Nematode Molecular Genetics Group
The School of Biochemistry & Molecular Biology
Faculty of Science
The Australian National University
Canberra, A.C.T., Australia 0200

Ph(office): + 61 2 6125 4941
Ph(lab): + 61 2 6125 5012
Fax: + 61 2 6125 0313
julie-anne.fritz@...

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Biolistic transformation

2008-04-21T08:51:47Z

Hi All,

I am looking for the names of groups and/or individuals that have
successfully used biolistic transformation to introduce GFP-based
reporter genes into C. elegans. We want to general a large collection
of integrated lines of C. elegans using this technology and would like
to talk to people that have gotten it to consistently work.

Thanks

Jon.F.

"You're just jealous because the little voices talk only to me"

Jonathan H. Freedman, Ph.D.

Investigator, Laboratory of Molecular Toxicology

Environmental Toxicology Program

Division of Intramural Research, National Institute of Environmental
Health Sciences

National Institute of Health
919-541-7899

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coating membranes

2008-03-28T18:48:05Z

Hi,

I am looking for an efficient way to coat cell surfaces with1-2 micron
beads. We have used in the past carboxilated-modified 0.2-1micron beads and
they do bind, but I need this binding to be extremely strong and efficient.
I was wondering whether anyone is aware of an antibody that recognizes
membrane proteins presented on embryonic cells, and if there is any
experience with attaching beads to these antibodies.

Thanks,

Gidi

Gidi Shemer, PhD

Goldstein lab

Dep. of Biology

UNC- University of North Carolina at Chapel Hill

Phone: (919) 843-8576

Fax: (919) 9621625

Mailing address:

CB#3280, Coker Hall,

The University of North Carolina at Chapel Hill

Chapel Hill, NC 27599-3280, USA

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Lactose RNAi induction

2008-03-24T06:52:31Z

Dear Eric,

Have you had continued success using Lactose with NGM-lite instead of
IPTG for RNAi induction? I saw a 2003 report that it works well for you
and wondered if this has held up since then.

Thank you,

Bruce

Bruce Nash

nash@...

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Lab climate control

2008-03-06T01:56:05Z

Dear colleagues,

Our photonics institute (ICFO, Barcelona) is increasing in size and a
new biolab is being created. In this lab we will work (within other
model organisms and cells) with C. elegans.

Currently we are planing the climate control for this lab and I would
like to have the best conditions possible for the culture of our soil
worms.

Can anyone give me specific advise on optimal requirements (in terms
of temperature, humidity, air filtration systems, etc.) to work with
C. elegans.

In case someone has been through the same process, can you give me
some advise for effective climate control equipment.

Any input (as small as it may seam) will be most welcome.

Thank you in advance.

Best

Susana

--
Susana Santos, PhD
ICFO-Institut de Ciencies Fotoniques
Mediterranean Technology Park
08860 Castelldefels (Barcelona)
Spain
Tel: +34 93 55 34 050
Fax: +34 93 55 34 000
Email: susana.santos@...
http://www.icfo.es

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Eppendorf Patchman NP2 vs Injectman NI2 equipment for C. elegans injection

2008-03-03T03:59:34Z

Dear worm fellows

I will appreciate to know whether anyone has compared the efficiency of
Eppendorf Patchman NP2 versus the Injectman NI2 equipment for C.
elegans injection

The price difference is about 3.000 euros and we want the equipment
exclusively for C. elegans injection so we initially would go for a
Patchman equipment unless someone advices us on the opposite.

Thank you very much in advance
Looking forward to your reply
All the best
Antonio

///////////////////////////////////////////////////////////////////////
///////////////////////////////

Antonio Miranda Vizuete, PhD.
Centro Andaluz de Biología del Desarrollo (CABD-CSIC)
Dpto. de Fisiología, Anatomía y Biología Celular
Universidad Pablo de Olavide
Carretera de Utrera Km. 1
41013 Sevilla
ESPAÑA (SPAIN)

Teléfono +34 954 348558
Fax +34 954 349376
email amirviz@...
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Sperm mitochondria fate after fertilization

2008-02-27T09:22:03Z

Hi worm breeders --

Can anyone provide any reference where they describe the fate of worm
sperm mitochondria after fertilization?

Thanks a lot in advance
Antonio

///////////////////////////////////////////////////////////////////////
///////////////////////////////

Antonio Miranda Vizuete, PhD.
Centro Andaluz de Biología del Desarrollo (CABD-CSIC)
Dpto. de Fisiología, Anatomía y Biología Celular
Universidad Pablo de Olavide
Carretera de Utrera Km. 1
41013 Sevilla
ESPAÑA (SPAIN)

Teléfono +34 954 348558
Fax +34 954 349376
email amirviz@...

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cheap scopes summary

2008-01-17T10:29:31Z

Hi again worm breeders --

Here is a summary of suggestions I got for cheap scopes/light sources. My initial query is below,
followed by a summary of the many responses. Thanks so much to everyone for writing!

Liz

Initial query:

Does anyone have a suggestion for a cheap dissecting scope (say, $2000 or thereabouts) that is just good enough for routine maintenance of strains? (i.e, can distinguish L4s and males, light source doesn't fry worms). I thought maybe those of you who use C. elegans in teaching labs might have suggestions, but I'd love to hear from anyone with a bargain! We only need to get one scope, so not likely to be able to get companies to demo their products.

I will be happy to summarize any responses I get back, and repost. Thanks in advance!

Liz Ryder

Liz Ryder
Department of Biology and Biotechnology
Worcester Polytechnic Institute
Worcester, MA 01609
508-831-6011

Responses, in no particular order:

1) Olympus SZ30 system w/ transmitted light stage about $1500 new in 2003
(Morris Maduro)

2) refurbished scope from Vermont Optechs
http://scopeshop.max-it.com/
(but may not be less than $2000; I(Liz) purchased a Wild M5 from John Orens
at Vermont Optechs years ago, and it is great, but even then was >$2000. Dave
got an Olympus with zoom, also >$2000, but cheaper than new
(Dave Reiner, Liz Ryder)

3) Nikon SMZ645s w/ transmitted light stage about $2000
http://www.nikonusa.com/template.php?cat=5&grp=29&productNr=SMZ645
(Andy Golden)

4) Several people suggested trying ebay once you know what kind of scope you would like

5) We have purchased several Leica S6E's for less than $2000 and like them very much.
We set them up with 10X eyepieces, a 0.63 to 4 zoom, and bases that have two positions
for a fiber optic light source (transmitted or reflected light). They work fantastic for and flies.
We use them as both teaching and research stock maintenance scopes.
(Tim Lindblom)

6) Chinese knock-offs of Wild M5A ( Beth De Stasio, David Raizen)
sold by Motic (Motic K400L) about $1000 (but wrong base is shown)
http://www.martinmicroscope.com/MicroscopePages/Stereomicroscopes.htm
I think this is the same scope sold by Tritech Research (they will also sell you a base
for transmitted light with fiber optics, but of course it costs more) about $2500 for scope with some extras
http://tritechresearch.com/cgi-bin/shop/stereoscopes.html
The Motic scope was also mentioned in a previous thread someone pointed out to me:
At 16:47 -0400 4/15/07, Brendan Galvin wrote:

>Dear Everyone,
>
>Thank you for all your suggestions on inexpensive dissecting
>microscopes. My wife ended up buying Motic K400L microscopes
>through VWR. The list price was $1,185.08 but by talking with
>both Motic and VWR we were able to get them for around $862.00.
>These scopes are very similar to the old Wild M5As. The optics are
>great and they have built-in incident and transmitted light
>sources. They are perfect for my wife's lab activities. The only
>concern is that the transmitted light source is built into the base
>such that over extended use it may cause the base to heat up
>somewhat. To what extent this is actually a problem I'm not sure.

7) I bought Olympus under 2000. It's only up to 40x and you need to be careful about their base,
they look different when you look at the worm under the scope. You need to ask them to put a frosted
glass between the light source and the mirror. You can fix it if you can explain your sales rep about the problems.
Olympus
Scope: SZ51
Base: LMS-225W - they have two light sources, which I don't like.
I think it was about 1600 a piece (Myeong Lee)
And here are some interesting suggestions about a cheap light source:

8) More specifically, if you're looking for a cheap, cool light source,
try LED lights. I'm using a $5 9-LED flashlight (about the size of a
roll of quarters) as a light source with a Wild dissecting scope. The
only downside is that the light dims as the batteries run out, and it
needs 3 AAAs ~weekly (depending on how much scope time). I got some
$1.99 12-LED desk lamps but haven't had a chance to test them. They
have an AC adapter and are quite bright, with a flexible neck I hope to
bend into position for the scope.
One nice thing about the white LEDs--they're bluish and counteract the
yellow tint of the agar. I think they're also a lot cooler than
incandescent lights, which is part of why I tried LEDs; I was working
with oxidative stress reporter strains and trying to eliminate
unplanned stresses. (I still couldn't tell the difference between
control and copper-exposed animals, there was so much variability
between individuals. But I really learned how fast you need to look at
your worms after putting on the coverslip! Oxidative stress reporters
are great for detecting handling problems.)
Hope this helps!
(Kathryn Hedges)

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cheap dissectiong scopes

2008-01-14T14:07:25Z

Hi fellow worm breeders --

Does anyone have a suggestion for a cheap dissecting scope (say, $2000 or thereabouts) that is just good enough for routine maintenance of strains? (i.e, can distinguish L4s and males, light source doesn't fry worms). I thought maybe those of you who use C. elegans in teaching labs might have suggestions, but I'd love to hear from anyone with a bargain! We only need to get one scope, so not likely to be able to get companies to demo their products.

I will be happy to summarize any responses I get back, and repost. Thanks in advance!

Liz Ryder

Liz Ryder
Department of Biology and Biotechnology
Worcester Polytechnic Institute
Worcester, MA 01609
508-831-6011

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Fluorescence filter problem

2007-12-23T06:30:50Z

This isn't about C. elegans per se, but I got the filters to view
CFP/YFP in worms, and I know there are a lot of other folks in the C.
elegans community using fluorescence microscopy. I'm probably going to
cross-post this to some photography, C. elegans, and microscopy groups
because I need help quickly.

I bought a set of used dualband fluorescence filters for CFP/YFP
(Chroma 51017) on eBay, installed them in a filter cube per the mfr's
instructions, and put the cube in the scope. (Zeiss Axioplan 2, the
old style with 5 cubes instead of 8.) Instead of seeing a dark field
with just the fluorescent cells glowing cyan or yellow, I saw a solid
yellow-green field. Same thing if I looked at plain glass slide
without anything to autofluoresce, so it isn't just the agarose pad or
something.

The most likely culprit was the dichroic, so I flipped it over in case
I'd installed it wrong. No help. I went through all the combinations
of flipping filters and dichroics, exchanging filters, and the only
thing that happened is that when I exchanged the excitation and
emission filters, the light coming out the lens changed from violet to
yellow. (I'm presuming violet is correct because the excitation
wavelength needs to be shorter than what the fluorophore emits.)

The "outside" face of the exciter looks like someone left a smear when
cleaning it, although when I look through it, it looks fine (so the
coating is probably OK).

Since the set is used, and the seller got it with a used microscope
his store purchased from a customer, there's a possibility the
dichroic isn't the right one. I hope not...

If anyone can help, I'd truly appreciate it. I'm behind schedule for
some research I'm trying to present at Model Organisms on Jan. 5-8
(and I have a batch of dual-color worms ready to observe).

I forgot to mention this in my other versions of this posting, but Jeff
at Chroma has been fantastic. On Thursday I told him about getting this
used filter cube from someone else that didn't fit my scope, and he got
me the right cube by Saturday--and I'm on the opposite coast from
Chroma.

--Kathryn

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Strains with GFP-tagged neurons

2007-12-14T12:52:37Z

Speaking of integrated strains with GFP, I'm looking for strains with
GFP marking subsets of neurons. I already have ST2 (pan-neuronal), UA57
(DA neurons), and EM800 (YFP/CFP in DA/5HT).

I need to check and see if there are plasmids available for RNAi
knockdown of DAT-1 or other NT uptake transporters.

--Kathryn

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pie-1p::gfp

2007-12-13T00:11:30Z

Does anyone have an integrant strain expressing gfp alone driven by the
pie-1 promoter? I would like to use for control.

Yuki

*****************************************************
Yukinobu ARATA, Ph.D
Laboratory for Cell Fate Decision
RIKEN, Center for Developmental Biology (CDB)
2-2-3 Minatojima-minamimachi Chuo-ku,
Kobe 650-0047 Japan
Phone +81-78-306-3199
Fax +81-78-306-3200
*****************************************************

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Help! OP50 Problems!!

2007-10-12T17:32:27Z

Hi

I just read your question about the OP50. I must admit, unfortunately I
don't have an answer. However, I'm one of the college interns working
over at the Dolan DNA Learning Center of Cold Spring Harbor Labs and
I've been involved in our C.elegan project. I've noticed those little
colonies also. No matter how many times I take that one perfect colony
and streak it- I get those little colonies after a week or so.. I was
wondering if you had any suggestions from your post. I was thinking
about searching for other labs that had OP50 and perhaps ordering more.
If you've already tested other OP50's, then maybe that won't work. I
was actually searching for a lab that had OP50 when I stumbled upon
your post.

Thank you for your help

Jenn Aiello

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Microsatellites/STRs in C. elegans

2007-10-03T08:52:11Z

Hi,

I am a PhD student at Aberdeen University and I am interested in doing
some microsateilte work on the nematode Phasmarhabditis hermaphrodita.
I came across your web page while looking on information on C. elegans,
which are closely related to my nematode. I was wondering if you know
of a method for such work. I am hoping to differentiate between a
variety of different strains.

Kind Regards

Jenna Ross

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Research Assistant position.

2007-09-25T13:50:51Z

Burnham Institute for Medical Research, an independent, non-profit,
public-benefit basic research organization, located in La Jolla,
California, is seeking a Research Assistant for the newly established
laboratory of Dr. Malene Hansen. Dr. Hansen’s research focuses on
understanding the molecular mechanisms of aging, using Caenorhabditis
elegans as the main model organism. The lab conducts research using
a multidisciplinary approach that integrates genetics, molecular
biology, biochemistry and microscopy to address our research objectives.

Responsibilities of the successful candidate include setting up and
organizing a new research lab, handling laboratory administration,
overseeing equipment installation and maintenance, ordering and
stocking of lab supplies, maintaining various reagent collections,
and inventories, training and supervision of new lab personnel,
assisting with experiments as determined by the PI. Other duties may
include preparing general lab reagents.

Requires a Bachelor of Science degree in science, and a minimum of 3
years of practical laboratory experience in biochemistry, molecular
biology or genetics. Experience with C. elegans is preferred.
Emphasis on responsibility, organization, independency, problem
solving, database management and interpersonal skills,. The lab is
seeking an energetic and highly motivated individual, who is capable
of multi-tasking and team-working. The successful applicant will
work in a stimulating academic and cultural environment, and will
have the opportunity to contribute as an author on manuscripts.

The Burnham Institute for Medical Research offers a competitive
salary and benefit package. To apply, please reference job code
151000907071 and email resume and the names of three references to
Sciencejobs@.... EOE.

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Conference on Nematode Evolution --- Survey

2007-09-05T02:49:38Z

We are conducting a survey to see how many people would likely attend
a major conference on the Evolution & Ecology of Nematodes, which
would be held in 2010 at a site in Europe (tentatively in the UK).
This conference is intended as the successor to the wildly successful
EMBO Workshop on the evolutionary biology of Caenorhabditis held in
Portugal in May, 2006. This meeting would cover the evolution of
Caenorhabditis species and also of other nematodes. Participants
would include basic researchers working in the areas of population
genetics, molecular evolution, genome evolution, experimental
evolution, developmental evolution, biodiversity and phylogenetics,
ecology, and the evolution of parasitism. The meeting would be for
both bioinformaticians and wet-lab biologists. The overall goals are
to bring together people from diverse fields to further develop the
Caenorhabditis system for comparative biology and to better connect
it to the wider context of the phylum Nematoda.

To help our application for funding for the conference, we need to
know how many people would be interested in attending. . If you are
inclined to attend such a conference, please email either of and let
us know:

1. What is your position? (principal investigator/postdoc/graduate
student/other)

2. If not a PI, with what lab are you affiliated? (give name of PI)

3. If a PI, how many people from your lab would attend?

4. If you attended the 2006 meeting, have you initiated any new
collaborations or begun new programs of research as a result? [Note
that we may quote some responses in our application.]

Thanks in advance,

Eric Haag (University of Maryland) ehaag@...

Avril Coghlan (Wellcome Trust Sanger Institute) alc@...

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body size

2007-08-18T21:34:07Z

Hi all, I work with small body size mutant in C elegans. This mutant shrink as it grows from 96 hrs to 120 hrs. 120 hrs worm body size is smaller than that of 96hrs. Can anyone please comment on this? Thank you Thilini
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C. briggsae cDNA library

2007-08-03T11:09:12Z

Ellen,

Did you ever find a C briggsae cDNA library? =larry=

Lawrence B. Salkoff
Professor of Neurobiology and Genetics
Depts of Anatomy & Neurobiology
and Genetics
Washington University School of Medicine
Box 8108
660 S. Euclid Ave.
St. Louis, MO 63110
USA

http://nt-salkoff.wustl.edu/
http://neuroscience.wustl.edu/facultyPages/salkoff.htm
http://neuroscience.wustl.edu/research/index.php?page=dept#82
salkoffL@...

Office:(314) 362-3644
Lab: (314) 362-3677
Fax: (314) 362-3446

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split-ubiquitin y2h response

2007-07-27T14:29:12Z

Greetings All,

I emailed a week ago to ask whether anybody had converted the split-
ubiquitin y2h vectors for Gateway cloning. Apparently, nobody in the
worm community has. I also contacted a company, DualSystems, that
sells a split-ubiquitin y2h kit. The whole kit costs $3500. It
seems they have converted their vectors to Gateway by adding attR
sites. They are in the process of resolving legal issues with
Invitrogen, so I am not sure when these will be on the market.

Johnny

Johnny Fares
Associate Professor
University of Arizona
Department of Molecular and Cellular Biology
Life Sciences South Building, Room 531
1007 East Lowell Street
Tucson, AZ 85721
United States of America
Office Phone (520) 626-3759
Lab Phone (520) 626-5996
Fax (520) 621-3709

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C. elegans diet

2007-07-27T13:39:33Z

Dear Colleagues:

An undergraduate in my laboratory is interested in working with C.
elegans grown in semi-continuous liquid culture. Most published
studies that I have found use monocultures of eubacteria as the
primary food source; one study used yeast cells. I was wondering
whether small unicellular algae (such as the green alga Chlorella)
can successfully be used as an alternative food source as well?

Many thanks for your kind help!

Best regards,
Val

Val H. Smith
Professor
Department of Ecology and Evolutionary Biology
University of Kansas
Lawrence, KS 66045
785-864-4565
FAX: 785-864-5321
e-mail: vsmith@...

Val H. Smith
Professor
Department of Ecology and Evolutionary Biology
University of Kansas
Lawrence, KS 66045
785-864-4565
FAX: 785-864-5321
e-mail: vsmith@...

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split ubiquitin

2007-07-16T11:35:22Z

Greetings all,

I was wondering whether anybody is using the yeast two-hybrid split
ubiquitin system and whether you have converted the vectors to the
Gateway system.

Johnny

Hanna (Johnny) Fares
Associate Professor
University of Arizona
Department of Molecular and Cellular Biology
Life Sciences South Building, Room 531
1007 East Lowell Street
Tucson, AZ 85721
United States of America
Office Phone (520) 626-3759
Lab Phone (520) 626-5996
Fax (520) 621-3709

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Open access to waterflea Daphnia genome

2007-07-11T23:02:38Z

Dear Biologists,

The arthropod crustacean Daphnia pulex (better known as the water
flea) is a unique emerging model organism, straddling the genome
reach of vertebrate model organisms such as Mouse, insects such
as Drosophila, and nematodes such as Caenorhabditis elegans.

Daphnia shares with C. elegans an interesting and rich gene
structure and wealth of gene duplications. It has closest gene
homology to the insects, Apis and Drosophila. However it has
nearly as many unique or strong gene homologies to Mouse as to
insects.

As a model organism for ecology and environmental research for
centuries, Daphnia provides a genome-environment experimental
model unlike any other, where its natural freshwater environments
are readily mimicked in lab, and environmental stresses can be
readily tested in large-scale genomic experiments.

A great example of this genome-environment connection comes from
Daphnia's well known hemoglobin response, called into play as
they rapidly turn blood-red when oxygen is depleted in their
ponds. Among Daphnia's many gene duplications, we find a tandem
cluster of 8 hemoglobin genes
(http://wfleabase.org/genome-summaries/gene-duplicates/).

Whether you work with human or vertebrate genomes, insects, worms
or other eukaryotes, you will find many aspects of interest in
comparing your genomes of interest to this first crustacean draft
genome sequence.

The Daphnia pulex genome will be available on 2007/07/07, in
public early access, with a grand opening scheduled between Fall
2007 and Spring 2008, which will include a Genbank genome
submission and publications. These sequence data were produced
by the US Department of Energy Joint Genome Institute in
collaboration with the Daphnia Genomics Consortium.

This early access release is made available via

Daphnia Genome Consortium, http://daphnia.cgb.indiana.edu/
The DGC website contains Daphnia community documents, analyses,
and summaries of this emerging model organism's value to
genomics, ecology, environmental toxicology, evolution,
and other areas.

JGI Genome Portal, http://genome.jgi-psf.org/Dappu1/
The JGI portal provides gene predictions and homology reports, with
services for search, BLAST, Genome map Browser
genes categorized by GO, KEGG, KOG classifications
and bulk data downloads.

Daphnia genome database at wFleaBase.org provides
Summaries of gene homology, structure, phylogeny
http://wfleabase.org/genome-summaries/
Genome maps, BLAST, Bulk search services at http://wfleabase.org/
Daphnia pulex genome data sets in common bulk formats
http://wfleabase.org/genome/Daphnia_pulex/current/

Although the time and effort to bring Daphnia's genome to public
access has been large, we believe the quality of this genome data
is high and will be valuable to many areas of genome research.
Please note the public release status for publication of the JGI
and Daphnia Genome Consortium's data, and respect their
investment of effort on this new model genome.

Scientists wanting to contribute to the open community-wide
annotation project that is currently ongoing should visit
http://dgc.cgb.indiana.edu

-- Don Gilbert
for Daphnia Genome Consortium

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Postdoctoral Research Associate Position

2007-07-11T11:34:12Z

Please post the following to the C. elegans listserver:

Postdoctoral position - Gene regulatory networks controlling organogenesis
in C. elegans

An NSF-funded postdoctoral position is available in the Mathies lab at North
Carolina State University to study development of the reproductive organs in
C. elegans. The postdoctoral fellow will join an ongoing effort to define
the gene regulatory network controlling somatic gonad development
(http://www.cals.ncsu.edu/genetics/mathies/mathies.html). He/she will employ
a variety of molecular genetic approaches to elucidate the functions of
novel transcriptional regulators and to fit these regulators into a gene
regulatory framework. A Ph.D. in genetics, biology, biochemistry or
equivalent is required and experience with protein/DNA interactions or
developmental biology is desirable.

North Carolina State University is located in the Research Triangle Park
(within a half hour drive of Duke University and UNC - Chapel Hill). This
setting provides excellent opportunities for career development and
synergistic interactions with academic and industrial scientists. In
addition, the Triangle has an active C. elegans community with participants
from all area institutions (http://celegans.bio.unc.edu/).

To apply go to jobs.ncsu.edu/applicants/Central?quickFind=76959 and provide
a curriculum vitae, names, phone numbers and e-mail addresses of three
references.
______________________________________________________
NC State University is an equal opportunity and affirmative action employer.
All qualified applicants will receive consideration for employment without
regard to race, color, national origin, religion, sex, age, veteran status,
or disability. In addition, NC State University welcomes all persons without
regard to sexual orientation. ADA Accommodations: Jeffrey Hawley
(jeff_hawley@...; ph: 919-515-5727; fax: 919-515-3355).

Julie Douglas Pederson

Department of Genetics

North Carolina State University

Raleigh, NC 27695-7614

Tel: 919-515-4248

Fax: 919-515-3355

julie_pederson@...

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C.elegans trans-splicing

2007-07-03T09:06:50Z

Hullo,
can you please send me some brief information about transsplicing in
c-elegans?

Truly,

Dr. Dennis Muhanguzi (MAKERERE UNIVERSITY)
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Postdoc positions in Barr lab: cilia biology

2007-06-22T15:03:25Z

Postdoctoral Associates
Barr Laboratory, Rutgers University

We are looking for one or two postdocs to study neurogenetics or to
model genetic diseases of cilia in C. elegans.

There are four main projects in the Barr laboratory. Project I
studies ciliary trafficking and signaling while simultaneously
modeling autosomal dominant polycystic kidney disease in C. elegans.
Project II, A C. elegans Model for Nephronophthisis (NPHP), is an
extension of the lab's interest in sensory biology and neuronal
development. We recently discovered that the C. elegans NPHP genes
modulate the length and shape of a cilium, enabling exploration of
the mechanisms controlling ciliary morphogenesis. Project III is a
new line of research aimed at understanding the molecular genetic
basis of neural tube defects using the worm as model system. In
Project IV, we focus on the cellular, genetic, and molecular basis of
sexual behaviors.

Requirements include a Ph.D. degree in biological sciences and strong
publication record. While the positions are NIH-funded, candidates
are expected to apply for independent funding.

Please electronically send a CV and three references to

Maureen M. Barr
barr@...
Rutgers University
Department of Genetics/Human Genetics Institute
145 Bevier Road
Piscataway, New Jersey
USA
08854-8082
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C. elegans mutants

2007-05-30T08:26:30Z

Dear Colleagues,
Yersinia pseudotuberculosis (and Yersinia pestis) form a biofilm on C.
elegans (Joshua et al (2003) Microbiol 149, 3221-9). Early in
"infection" and also on specific mutants of Y. pseudotuberculosis,
C.elegans moves in an aberrant fashion ie with markedly
increased flexion, leaving characteristic tracks in the bacterial lawn -
see attached and Ref.
My question is: are there any C. elegans mutants which move in a
similar manner?

G. Joshua

G.W.P.Joshua
London School of Hygiene and Tropical Medicine
Dept. Infectious and Tropical Diseases,
Keppel St.,
London WC1E 7HT.
Tel: (+44) (0)20 7927 2028
FAX: (+44) (0)20 7637 4314
E-mail: g.joshua@...

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