From sreenivas from ncbs.res.in Sun Dec 2 02:16:18 2007 From: sreenivas from ncbs.res.in (sreenivas@ncbs.res.in) Date: Sun Dec 2 14:43:57 2007 Subject: [Drosophila] Requesting for project a PhD position. Message-ID: <40575.192.168.1.1.1196579778.squirrel@mail.ncbs.res.in> Respected Professor, SUB: Requesting for project a PhD position. Let me first briefly introduce myself to you, I am P.Sreenivasula Reddy completed my Master?s degree(M.Sc)in Biotechnology, from Reva Institute For Science and Technology, from Bangalore University,Bangalore,INDIA. At, present I am working in National Centre for Biological Sciences(NCBS),Bangalore, India from August 2006 to till date. After my Master?s degree I joined in Advance PG Diploma in Bioinformatics where I learned some basic Bioinformatics tools, Which also includes a project on In silico Analysis of Receptor-Ligand Interaction for Rheumatoid Arthritis from STG soft ware technology group international Ltd. At, present I am working in National Centre for Biological Sciences(NCBS),Bangalore, India, under the guidance of Prof.M.K.Mathew, Biophysics group. Current Working projects are:- (1)Expression, isolation,purification and functional charactization of OsVDAC(Rice Voltage dependent anion chennel). VDAC properties have been extensively studied by using artificial membrane systems: liposomes and planar bilayer lipid membranes (BLM). Voltage dependent behavior of the channel is studied extensively by using the BLM system. VDAC forms high conductance channels in BLMs. The channels are slightly selective for small anions (e. g. Cl-) over small cations (e. g. K+) (Roos et al., 1982). The channel is in its maximum conducting state at 0 mV transmembrane potential. Increase in the transmembrane potential on negative or positive side induces lower or subconductance states of the channel (Schein et al., 1976; Colombini, 1989). VDAC can attain several subconductance states but has never been reported to attain a completely closed state (Colombini, 1989). A subconductance state (commonly called closed state) that has half of open channel conductance is the only well characterized subconductance state of the channel (Colombini, 1989; Benz, 1994). In this subconductance state, the channel becomes cation selective (Benz, 1994). In several published reports the subconductance states of VDAC are referred to as the closed states. (2)Role of VDAC in programmed cell death: VDAC is a critical player in OMM permeabilization and release of apoptogenic proteins from mitochondria. Several Bcl-2 family proteins interact directly with VDAC in artificial membranes and isolated mitochondria. The pore conductance of VDAC is increased in the presence of Bax in artificial membranes and this increase is blocked by Bcl-xL (Shimizu et al., 2000). Contradicting to earlier mentioned findings, Rostovtseva et al. have shown that Bid, but not Bax, interacts with VDAC in BLM and upon interaction with Bid, VDAC conductance is reduced (Rostovtseva et al., 2004). Bcl-xL alters voltage dependence of VDAC in BLM (Shimizu et al., 2000). Bax and Bim interact with VDAC and this leads to the release of cytochrome c, whereas Bcl-xL blocks this release from liposomes and isolated mitochondria (Shimizu et al., 1999; Sugiyama et al., 2002). Further, the release of cytochrome c induced by Bax and Bim is inhibited by antibodies that block VDAC (Shimizu et al., 2001; Sugiyama et al., 2002). Together, these findings indicate that controlling VDAC activity by Bcl-2 family proteins is a very important step in OMM permeabilization and apoptosis. Additionally, VDAC plays an indirect role in apoptosis by participating in mitochondrial calcium and reactive oxygen species (ROS) homeostasis. I have gained enough experience in fields like Basic Molecular Biology, protein chemistry and plant tissue culture. I am aware of the excellent research work, facilities and encouraging study going in your lab under your supervision which motivates me very highly. It would be a great pleasure for me if you give me a chance as a student under you. Joining your institute will be a best starting point for my future research scientific career. In this regard I request you consider me as a student under you. I will be very thankful to you if you evaluate me a chance. I will be sincere, hardworking and will try my best to make you satisfied with my work. Thanking you, Yours faithfully, P.Sreenivasulareddy. From a.sellami from cnic.u-bordeaux1.fr Mon Dec 3 10:31:44 2007 From: a.sellami from cnic.u-bordeaux1.fr (azza sellami) Date: Mon Dec 3 12:19:47 2007 Subject: [Drosophila] mites Message-ID: <14132125.post@talk.nabble.com> hello please can someone help me to irradicate mites thanks -- View this message in context: http://www.nabble.com/mites-tf4937249.html#a14132125 Sent from the Bio.net - Dros mailing list archive at Nabble.com. From asano from duke.edu Mon Dec 3 13:40:38 2007 From: asano from duke.edu (maki asano) Date: Mon Dec 3 14:24:48 2007 Subject: [bio.dros] [Drosophila] mites In-Reply-To: <14132125.post@talk.nabble.com> Message-ID: Hi, you mean "eradicate"? Pass the flies in vials twice a day for several days and collect embryos from a several hours incubation, wash them in chlorax, then examine them for mites under a microscope, transfer (a dozen of eggs are enough) to a flesh vial and amplify. Good luck, Maki Maki Asano, M.D., Ph.D. Assistant Research Professor Rm389 CARL Bldg P.O. Box 3657 Department of Molecular Genetics and Microbiology Duke University Medical Center Research Dr. Durham, NC27710, USA E-mail address: asano@duke.edu Phone: 1-919-684-2392 Fax: 1-919-681-8984 http://mgm.duke.edu/faculty/asano/index.htm On 12/3/07 10:31 AM, "azza sellami" wrote: > > hello > please can someone help me to irradicate mites > thanks From elena_lenalena from yahoo.com Mon Dec 3 12:39:30 2007 From: elena_lenalena from yahoo.com (_Elena) Date: Mon Dec 3 14:25:15 2007 Subject: [Drosophila] mites In-Reply-To: <14132125.post@talk.nabble.com> References: <14132125.post@talk.nabble.com> Message-ID: <14134740.post@talk.nabble.com> Dr. Erickson lab protocol for get rid of mites (by dechorination): 1) Let flies to lay eggs onto usual vial for overnight or 7 hours. 2) Add 5 ml 50% bleach for 3 min 3) pour out bleach (accurately). Check that eggs are on the surface of the vial. 4) add 10 ml PBS 5) pour out PBS (accurately). Check that eggs are on the surface of the vial 6) add 10 ml PBS 7) pour out PBS (accurately). Check that eggs are on the surface of the vial 8) Let eggs to hatch 37oC 10 days. Protocol#2 (less efficient) 1) Transform flies every day onto new vial. Repeat 4 times. Grow flies from the 4th vial. 2) Repeat the same with the progeny from the 4th vial. azza sellami wrote: > > hello > please can someone help me to irradicate mites > thanks > -- View this message in context: http://www.nabble.com/mites-tf4937249.html#a14134740 Sent from the Bio.net - Dros mailing list archive at Nabble.com. From kim from kimvdlinde.com Mon Dec 3 14:32:51 2007 From: kim from kimvdlinde.com (Kim van der Linde) Date: Mon Dec 3 14:55:11 2007 Subject: [Drosophila] mites In-Reply-To: <14132125.post@talk.nabble.com> References: <14132125.post@talk.nabble.com> Message-ID: <475459E3.3040609@kimvdlinde.com> Our solution was to wait till the first flies start to emerge from the pupae, and wash those using a chloride solution. We try to synchronize the flies within a vial as much as possible, in order to reduce loss of non-pupated larvae. Hope this helps. Kim azza sellami wrote: > hello > please can someone help me to irradicate mites > thanks -- http://www.kimvdlinde.com From payal-ray from northwestern.edu Mon Dec 3 16:38:16 2007 From: payal-ray from northwestern.edu (Payal Ray) Date: Tue Dec 4 09:45:56 2007 Subject: [Drosophila] sarstedt cryovials Message-ID: <20071203213816.73BD835CEB@casbah.it.northwestern.edu> Hi all, Does anybody know how to get the Sarstedt cryovials? They were available till some time back but now I cannot find them through any vendor. I would appreciate any info. Thanks, Payal Ray From gandhisumit from gmail.com Wed Dec 5 21:23:48 2007 From: gandhisumit from gmail.com (Sumit Gandhi) Date: Wed Dec 5 21:34:47 2007 Subject: [Drosophila] Re: mites References: Message-ID: On Dec 3, 8:31 pm, azza sellami wrote: > hello > please can someone help me to irradicate mites > thanks > -- > View this message in context:http://www.nabble.com/mites-tf4937249.html#a14132125 > Sent from the Bio.net - Dros mailing list archive at Nabble.com. HI, The easiest solution would be to use Benzyl benzoate. Dilute 1:2 with methanol and soak cloth or blotting paper in it. Make sure you wear gloves and mask. Let the cloth or paper dry for a few hours. Keep this cloth or paper in the trays where you keep your infected vials. Mites would be gone within a few days. Regards. From rsuyama from embl.de Thu Dec 6 08:22:03 2007 From: rsuyama from embl.de (Ritsuko SUYAMA) Date: Thu Dec 6 11:17:17 2007 Subject: [Drosophila] (no subject) Message-ID: <13da3fe1e87fee986b8cafd2716be5a3@embl.de> Dear All, Does anybody have a pCasper yellow + vector instead of white+ to establish a transgenic flies? If you have it, please let me know. Thanks Ritsuko SUYAMA *+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+ Ritsuko Suyama, phD. Ephrussi /Akhtar Group, Developmental Biology/Gene Expression EMBL Meyerhofstrasse 1, D-69117 Heidelberg Germany *+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+ From labsupply from aol.com Thu Dec 6 13:32:29 2007 From: labsupply from aol.com (marty) Date: Thu Dec 6 13:35:37 2007 Subject: [Drosophila] Re: mites References: Message-ID: <3709bb10-068c-4ffb-92d7-3e92a492f020@l16g2000hsf.googlegroups.com> On Dec 5, 9:23?pm, Sumit Gandhi wrote: > On Dec 3, 8:31 pm, azza sellami wrote: > > > hello > > please can someone help me to irradicate mites > > thanks > > -- > > View this message in context:http://www.nabble.com/mites-tf4937249.html#a14132125 > > Sent from the Bio.net - Dros mailing list archive at Nabble.com. > > HI, > The easiest solution would be to use Benzyl benzoate. Dilute 1:2 with > methanol and soak cloth or blotting paper in it. Make sure you wear > gloves and mask. Let the cloth or paper dry for a few hours. Keep this > cloth or paper in the trays where you keep your infected vials. Mites > would be gone within a few days. > Regards. try using anti-mite shelving paper in the future.. From rsuyama from embl.de Thu Dec 6 13:59:45 2007 From: rsuyama from embl.de (Ritsuko SUYAMA) Date: Thu Dec 6 14:17:38 2007 Subject: [Drosophila] pCaSpeR vector Message-ID: Dear All, Does anybody have a pCaSpeR yellow + vector instead of white+ to establish a transgenic flies? If you have it, please let me know. Thanks Ritsuko SUYAMA *+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+ Ritsuko Suyama, phD. Ephrussi /Akhtar Group, Developmental Biology/Gene Expression EMBL Meyerhofstrasse 1, D-69117 Heidelberg Germany *+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+*+ From andre_faustino from hotmail.com Thu Dec 6 13:40:21 2007 From: andre_faustino from hotmail.com (Andre Faustino) Date: Fri Dec 7 11:32:52 2007 Subject: [Drosophila] Mouth Pieces Message-ID: Hi! Does anyone know where can I order from mouthpieces to make "fly-suckers"? Thanks, Nuno _________________________________________________________________ Put your friends on the big screen with Windows Vista® + Windows Live™. http://www.microsoft.com/windows/shop/specialoffers.mspx?ocid=TXT_TAGLM_CPC_MediaCtr_bigscreen_102007 From ted.morrow from ebc.uu.se Thu Dec 13 04:55:36 2007 From: ted.morrow from ebc.uu.se (Ted Morrow) Date: Thu Dec 13 08:56:11 2007 Subject: [Drosophila] Bioanalyzer Results Message-ID: Dear all, We are extracting Total RNA (using Trizol and Qiagen kit) from whole flies and then using a Agilent Bioanalyzer to check the quality of the RNA. My question is about how to interpret the Bioanalyzer output. There seem to be 2 different interpretations of the patterns of peaks: 1. According to the UK Drosophila Affymetrix array facility the 18S and 28S peaks are quite separate from one another , and the double peak is interpreted as the 18S (see http://www.mblab.gla.ac.uk/igf/ agilent.html). Advice from an Agilent representative agrees with this: the 18S are often divided into two peaks and the 28S is very small. 2. In both TAHOE et al (2004, Journal of Gerontology: Biological Sciences; Vol 59A (9) 896-901) and in MEE (2005, Invertebrate Neuroscience; vol 5 (nos 3-4) 189.195) the double peak is interpreted as if the 18S and 28S peaks are very close to one another and the smaller peak to the right of the double peak is ignored. We almost always get the double peak, and a much smaller peak to the right of this but never is this peak as large as the UK Dros Affy facility's "ideal". My question is which is the 18S peak and which is the 28S peak? I would be delighted to hear from other researchers that use the Bioanalyzer to examine RNA integrity! Cheers Ted ted.morrow@ebc.uu.se From cwagner from zoologie.uni-kiel.de Mon Dec 17 11:41:48 2007 From: cwagner from zoologie.uni-kiel.de (Christina Wagner) Date: Mon Dec 17 12:47:18 2007 Subject: [Drosophila] BrDU Labelling Message-ID: Hallo everybody, at the moment I'm trying to label tracheal cells in larvae (early first instar larvae) using a BrdU-antibody, by feeding the larvae a BrDu-fly medium mixture. Unfortunately, I'm not successful, although this experiment is standardised in Drosophila labs worldwide. Can anybody do me a favour and send me a protocol (BrDu concentration, feeding time, andibody concentration!). Thanks a lot Christina From soniasen from gmail.com Mon Dec 17 11:52:10 2007 From: soniasen from gmail.com (Sonia Sen) Date: Mon Dec 17 12:48:38 2007 Subject: [Drosophila] Curious Incident of the Flies in the Homozygote Message-ID: <8552cd630712170852n6b1b39b6kfa0aa14d00ba9acd@mail.gmail.com> Dear All, I was wondring if anyone could help me. I have a stock which is such: yhs FLP; GAD>GFP/CyOGFP; FRT82B tubGAL80/TM6B. If I dissect out these flies which are balanced on both, I never see GAD>GFP expression (as expected). If I dissect out the flies that are homozygous on the third or homozygous on both second and third I see that half of those brains show the complete GAD>GFP expression. The very same thing has happened to me with a very similar stock: yhs FLP; GH146>GFP/CyOGFP; FRT82B tubGAL80/TM6B. I dont think that it is because GAL80 is not enough because I see complete scilencing in the balanced flies. Also because I have seen a similar thing with two other stocks: w; GH146>2XeGFP and w; GH146>mCD8GFP. In these stocks I never have a problem when the stock is kept balanced, but as soon as I expand a homozygous copy of the stock into bottles, I loose the GH146 expression. I wanted to know if anyone has faced a similar problem and also if anyone had any ideas as to why this was happening. Many thanks, Sonia. From adelaine_leung from hms.harvard.edu Thu Dec 20 09:45:30 2007 From: adelaine_leung from hms.harvard.edu (Adelaine Leung) Date: Thu Dec 20 11:05:51 2007 Subject: [Drosophila] Plasmid containing flip-out cassette? Message-ID: <8BDB0A73-BAE2-4B9B-BAF9-A40C994BA92C@hms.harvard.edu> Hi everyone, I'm trying to make a transgene with a flip-out cassette (FRT-stop- FRT). Does anyone happen to have a plasmid that contains this fragment and can send me a small aliquot? Many thanks! Adelaine From jrnambu from yahoo.com Fri Dec 21 10:23:28 2007 From: jrnambu from yahoo.com (John Nambu) Date: Fri Dec 21 11:00:01 2007 Subject: [Drosophila] faculty job openings Message-ID: <235066.22728.qm@web50612.mail.re2.yahoo.com> Global Change Biology The Department of Biology at the University of Massachusetts at Amherst is seeking to fill three tenure-track faculty positions at the Assistant professor level: One position is broadly defined as the area of Ecological Physiology. We are looking for a researcher whose work is field-based and integrative, and are particularly interested in researchers using genetic and hormonal approaches within an ecological context. Organismal focus (animal or plant) is open. The second position is in the area of Endocrine Disruption. We are seeking a researcher whose interest is in effects of environmental contaminants on endocrine physiology. We are particularly interested in researchers examining the physiological mechanisms underlying endocrine disruption. The third position is in the area of Plant Metabolism. We are seeking a researcher who uses systems biology and/or functional genomic approaches to understanding plant metabolism. The area of research should be relevant to the use of plants for bioenergy, for example, carbon metabolism or biopolymer production by plants. The researchers would be expected to participate in a broad multi-disciplinary initiative in Global Change Biology within the Department of Biology. This initiative bridges a group of faculty who use multiple levels of analysis to understand how rapid environmental changes are impacting populations and individual organisms, including: loss of biodiversity, rapid evolution, disruption of physiology, reduced agricultural outputs, and evolution of new pathogens. Postdoctoral experience required. Applications, which should include CV, statements of research interest and teaching philosophy, and the names, addresses and e-mails of at least 3 references, should be sent to: Biology Search c/o Ms. Karen Nelson, Biology Department, University of Massachusetts, Amherst, MA 01003. It is very important that you reference the position number to which you are applying. Positions to be filled contingent upon funding. The position numbers are as follows: Ecological Physiology R32351 Endocrine Disruption R32352 Plant Metabolism R32353 Evaluation of applications will begin on December 10, 2007 and continue until the positions are filled. The University of Massachusetts is an Affirmative Action Equal Opportunity Employer. Women and members of minority groups are encouraged to apply. The Biology Department is aggressive in its efforts to hire candidates who will enhance the diversity and general balance of the faculty and the sciences. --------------------------------- Looking for last minute shopping deals? Find them fast with Yahoo! Search. From gayatripriya13 from yahoo.com Thu Dec 27 04:57:50 2007 From: gayatripriya13 from yahoo.com (gayatri priya) Date: Thu Dec 27 14:40:35 2007 Subject: [Drosophila] handeling the drosophila gut Message-ID: <237125.94357.qm@web38207.mail.mud.yahoo.com> HI. i am working with gut of drosophila. i would like to know about the way to handle and store the fixed guts. i am storing the fixed guts (approx 10-15 in number) in an eppendorf tube with PBS. the problem i face is that while i pipette out the sample, it gets sheared (as i need the entire gut for my investigation purpose). also sugggest a way to section the gut (to make a vertical tear in its surface) for antibody staining purpose. as i am totally new to the area, i would be greatful if you can guide me with the whole thing (also as soon as possible), thank you gayatri __________________________________________________________ Sent from Yahoo! Mail - a smarter inbox http://uk.mail.yahoo.com From jaiganesha from gmail.com Fri Dec 28 12:17:14 2007 From: jaiganesha from gmail.com (Gurudatta Baraka) Date: Fri Dec 28 14:32:54 2007 Subject: [Drosophila] Re: Dros Digest, Vol 32, Issue 10 In-Reply-To: <200712281703.lBSH3WL01697@net.bio.net> References: <200712281703.lBSH3WL01697@net.bio.net> Message-ID: <84b2a75a0712280917k29c4046cu7562eb3df8d7c060@mail.gmail.com> The larval tissue is sticky if u do not add the detergent -and forms clumps or stick to poor quality eppendorfs ( silocanised brands are good ) usally we use PTX ( 0.1% triton X 100 ) as blocking solution at 4 degree storage. during changes use the tips rinsed once in this solution while transferring the tissue ( it is better use 1000ul tip or cut tips for p200) but i do not advice storing the samples in this solution for long time ., they damage the tissue another thing is gut is the soruce of lot of bacterial contamination !!! so need to take care of theat as well !! i hope u can also use the sodium azide in solutions ( hezardous to humans too . so caution while handling!!) another reason could be that the tissue is not properly fixed !! check the fixative parafomaldehyde ( which may be old and not working ???) i hope this would help to sortout the problem with best reagards Gurudatta On Dec 28, 2007 12:03 PM, wrote: > Send Dros mailing list submissions to > dros@net.bio.net > > To subscribe or unsubscribe via the World Wide Web, visit > http://www.bio.net/biomail/listinfo/dros > or, via email, send a message with subject or body 'help' to > dros-request@net.bio.net > > You can reach the person managing the list at > dros-owner@net.bio.net > > When replying, please edit your Subject line so it is more specific > than "Re: Contents of Dros digest..." > > > Today's Topics: > > 1. handeling the drosophila gut (gayatri priya) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Thu, 27 Dec 2007 09:57:50 +0000 (GMT) > From: gayatri priya > Subject: [Drosophila] handeling the drosophila gut > To: dros@magpie.bio.indiana.edu > Message-ID: <237125.94357.qm@web38207.mail.mud.yahoo.com> > Content-Type: text/plain; charset=iso-8859-1 > > HI. i am working with gut of drosophila. i would like > to know about the way to handle and store the fixed > guts. i am storing the fixed guts (approx 10-15 in > number) in an eppendorf tube with PBS. the problem i > face is that while i pipette out the sample, it gets > sheared (as i need the entire gut for my investigation > purpose). also sugggest a way to section the gut (to > make a vertical tear in its surface) for antibody > staining purpose. as i am totally new to the area, i > would be greatful if you can guide me with the whole > thing (also as soon as possible), > > thank you > gayatri > > > __________________________________________________________ > Sent from Yahoo! Mail - a smarter inbox http://uk.mail.yahoo.com > > > > ------------------------------ > > _______________________________________________ > Dros mailing list > Dros@net.bio.net > http://www.bio.net/biomail/listinfo/dros > > End of Dros Digest, Vol 32, Issue 10 > ************************************ >