From xiaw from umbi.umd.edu Fri Feb 1 14:09:54 2008 From: xiaw from umbi.umd.edu (xiawei) Date: Fri Feb 1 14:13:27 2008 Subject: [Zbrafish] Help with injected intron containing dsRed mRNA Message-ID: <0B9C971C-F2FF-4F9D-9C23-D03EDE1979E2@umbi.umd.edu> I'm planning to generate some RNAs which was transcribed from pCS2+ plasmid using Ambion mMESSAGEmMACHINE kit and contains a intron inserted dsRed sequence. Does anybody know if the injected intron containg RNA can be processed into mature dsRed mRNA and give a normal expression of red fluorescence? Thanks very much. Wei From april from zebrafish.org Fri Feb 1 18:49:39 2008 From: april from zebrafish.org (April) Date: Fri Feb 1 19:00:27 2008 Subject: [Zbrafish] Embryo parisites, coleps, "twirlies" In-Reply-To: <67e02e81-a3a3-4720-bc99-30472cfc4a5f@m34g2000hsf.googlegroups.com> References: <67e02e81-a3a3-4720-bc99-30472cfc4a5f@m34g2000hsf.googlegroups.com> Message-ID: <2E52F31D-C8E8-4139-8AA0-D64E27FF239E@zebrafish.org> Hi Gabe, It has been 10 years since I fought my battle against Coleps, and it was a tough battle to overcome. Here are my suggestions: 1. Bleach all of your eggs around 24 hours (approx. 35ppm bleach - Zebrafish Book concentration). 2. Be sure to remove ALL dead/damaged eggs before bleaching (Coleps can hide and make their way through bleach in damaged eggs). 3. After bleaching, keep your eggs/embryos in embryo media until they have inflated their swim bladders and are swimming. Zebrafish larvae are the most susceptible when they have hatched, but not yet inflated their swim bladders. Once the larvae are able to swim properly, they can fend off the Coleps. Colpes are very hard to get rid of. I am unaware of any drugs that will kill them, but I am fairly sure that UV works. Bleaching and filtering our nursery water through a micron mesh helped us contain the problem years ago. When we built the Resource Center, we were lucky not to bring them with us. I continue to keep my fingers crossed that it stays that way. Good luck, and let me know if you have any questions. April On Jan 31, 2008, at 5:47 PM, finchg@ohsu.edu wrote: > ______________________________________________________________________ > __________ > > I am looking for more information about coleps. These are a small > protazoa which parasatize larval zebrafish. Under a dissecting scope > they look like little transparent hyperactive beans, less than one > hundredth the size of a zebrafish egg, comparable to a zfish blood > cell in size. I am only able to see them at >5X mag. > > -Here's a little mention in an old Zebrafish Science Monitor: > http://zfin.org/zf_info/monitor/vol5.1/vol5.1.html#Coleps,%20Scourge > %20of%20the%20Baby%20Zebrafish > > Three seperate zebrafish labs at which I have worked have had minor > problems with these little guys (Perhaps I am the vector, dunno). > -Does anyone know more about these things than what is stated in the > article linked above? E.g. Life cycle, response to dessication, drugs > with which to kill them? > -Anyone had problems with them that they have overcome? What > strategies worked? So far the only good strategy I know of is > vigilant dish cleaning. > -We have lately been having problems in dishes which we have bleached, > which is perplexing. Do other people see them surviving bleaching? > Killed by bleaching? (We follow the Volhard protocol) > -Some folks have suggested raising water conductivity in our system. > Anyone agree? > -Also, does anyone know if UV can kill these or specifically what > levels? > > -Anyone offering up advice or results regarding these pesky things > will be my personal hero. > > Thanks, Gabe > > _______________________________________________ > Zbrafish mailing list > Zbrafish@net.bio.net > http://www.bio.net/biomail/listinfo/zbrafish ----------------------- April R. Freeman (Mazanec) ZIRC Manager Zebrafish Int.'l Resource Center 5274 University of Oregon Eugene, OR 97403-5274 Phone: (541) 346-6028 ext. 24 Fax: (541) 346-6151 -------------- next part -------------- An HTML attachment was scrubbed... URL: http://www.bio.net/bionet/mm/zbrafish/attachments/20080201/02cd1362/attachment.html From clawrence from rics.bwh.harvard.edu Mon Feb 4 12:34:17 2008 From: clawrence from rics.bwh.harvard.edu (christian lawrence) Date: Mon Feb 4 14:22:08 2008 Subject: [Zbrafish] Embryo parisites, coleps, "twirlies" In-Reply-To: <67e02e81-a3a3-4720-bc99-30472cfc4a5f@m34g2000hsf.googlegroups.com> Message-ID: Gabe -- April's advice is very sound, as well as tried and true, so it should certainly help you solve your problems and earn her the position as your personal hero. I would like to add also a bit on egg quality. To put it simply, egg quality is directly correlated with the condition of the mother, and to a somewhat lesser extent, the father. Many, many factors contribute to this, but certainly diet and genetics are two of them. Bad diet = bad eggs. Bad genetics = bad eggs. Bad eggs have, among things, smaller and less complete yolks, and importantly with respect to the myriad opportunistic animals that lurk in your water, lower quality chorions. These differences are often not apparent to the naked eye, and when things are good (i.e. if you nuke everything else around them with bleach, methylene blue, etc.) they are not (at least obviously) manifested. The thing is that chorions with such low integrity are much less able to resist attacks by fungi, ciliates, bacteria, etc. and render the animal inside much more vulnerable than they would be if the chorion was of higher quality. So the readout of this would be that your eggs get "junky" if you don't do anything or only act minimally to clean them. The relationship between parental condition and egg quality, at least in some respects, is a simple one that matters. Honestly, you shouldn't have to jump through hoops to keep your embryos/larvae from being trashed by animals such as Coleps. We do very little for our embryos aside from a brief cleaning on day 1. In most cases, no egg water, no E3, no bleaching. But we have very little mortality to speak of early on, although our water is full of ciliates, including I'm sure, Coleps, although we've never confirmed their presence/absence. In many instances, we can simply collect the eggs on day 0, rinse them in fish water (from an off system source), stick them in an incubator, and on day 6 they are ready to put on the system, normally with little attrition. There is some variation from time to time, depending on background (the bad genetics reference, above), and maybe age and clutch size, but in general nothing fancy is necessary to keep the ciliates et al. at bay. What we do spend a ton of time, however, on ensuring that our diet is selected, administered, and handled/stored properly. We also work very hard on ensuring, to the extent that we can, that our stocks are as genetically diverse, and turned over as frequently (retire them before 15 months) as possible. So most of our fish are of relatively decent genetic stock, in the prime of their reproductive lives, and are, for lack of a better way for me to put it, "well-fed" with nutritionally complete (as close as we can get) diets. I believe that this has a lot to do with the fact that they produce eggs that are generally much more resistant to the organisms that are present in all of our systems. Good luck, Chris Christian Lawrence Brigham and Women's Hospital Karp Family Research Laboratories 06-004B One Blackfan Circle Boston, Massachusetts 02115 Tel: 617.355.9041 Fax: 617.355.9064 -----Original Message----- From: zbrafish-bounces@oat.bio.indiana.edu [mailto:zbrafish-bounces@oat.bio.indiana.edu] On Behalf Of finchg@ohsu.edu Sent: Thursday, January 31, 2008 8:47 PM To: bionet-organisms-zebrafish@moderators.isc.org Subject: [Zbrafish] Embryo parisites, coleps, "twirlies" ____________________________________________________________________________ ____ I am looking for more information about coleps. These are a small protazoa which parasatize larval zebrafish. Under a dissecting scope they look like little transparent hyperactive beans, less than one hundredth the size of a zebrafish egg, comparable to a zfish blood cell in size. I am only able to see them at >5X mag. -Here's a little mention in an old Zebrafish Science Monitor: http://zfin.org/zf_info/monitor/vol5.1/vol5.1.html#Coleps,%20Scourge%20of%20 the%20Baby%20Zebrafish Three seperate zebrafish labs at which I have worked have had minor problems with these little guys (Perhaps I am the vector, dunno). -Does anyone know more about these things than what is stated in the article linked above? E.g. Life cycle, response to dessication, drugs with which to kill them? -Anyone had problems with them that they have overcome? What strategies worked? So far the only good strategy I know of is vigilant dish cleaning. -We have lately been having problems in dishes which we have bleached, which is perplexing. Do other people see them surviving bleaching? Killed by bleaching? (We follow the Volhard protocol) -Some folks have suggested raising water conductivity in our system. Anyone agree? -Also, does anyone know if UV can kill these or specifically what levels? -Anyone offering up advice or results regarding these pesky things will be my personal hero. Thanks, Gabe _______________________________________________ Zbrafish mailing list Zbrafish@net.bio.net http://www.bio.net/biomail/listinfo/zbrafish The information transmitted in this electronic communication is intended only for the person or entity to whom it is addressed and may contain confidential and/or privileged material. Any review, retransmission, dissemination or other use of or taking of any action in reliance upon this information by persons or entities other than the intended recipient is prohibited. If you received this information in error, please contact the Compliance HelpLine at 800-856-1983 and properly dispose of this information. From dongrep from yahoo.com Mon Feb 4 05:41:45 2008 From: dongrep from yahoo.com (prajakta dongre) Date: Mon Feb 4 14:22:27 2008 Subject: [Zbrafish] Dechorionation of zebrafish embryos Message-ID: <263260.56991.qm@web37311.mail.mud.yahoo.com> Dear all I want to dechorionate zebrafish embryos by pronase treatment. I have some questions regarding the same. Following are the questions. 1) Is pronase and proteinase K same? 2) From where pronase can be order, Is it Sigma or Merck or which company? 3) How is pronase stock prepared, is it dissolved in water or which buffer of what pH? 4) What is the working concentration of pronase for dechorionation? 5) Any other suggestions regarding dechorionation is welcome. Thanking you Yours sincerely Prajakta Limaye ____________________________________________________________________________________ Be a better friend, newshound, and know-it-all with Yahoo! Mobile. Try it now. http://mobile.yahoo.com/;_ylt=Ahu06i62sR8HDtDypao8Wcj9tAcJ From kayanemb from duke.edu Mon Feb 4 09:44:30 2008 From: kayanemb from duke.edu (kayanemb) Date: Mon Feb 4 14:22:42 2008 Subject: [Zbrafish] DAPI staining zebrafish embryos Message-ID: Has anyone been able to visualize DAPI-stained nuclei in wholemount embryos 24-72hpf? If so, please could you provide a protocol? Thanks. From rburdine from Princeton.EDU Mon Feb 4 14:45:13 2008 From: rburdine from Princeton.EDU (Burdine, Rebecca D) Date: Mon Feb 4 14:46:32 2008 Subject: [Zbrafish] Dechorionation of zebrafish embryos In-Reply-To: <263260.56991.qm@web37311.mail.mud.yahoo.com> References: <263260.56991.qm@web37311.mail.mud.yahoo.com> Message-ID: <04AF14C4EF3CF34682460FB1FDBA98C005106B@MBCLUSTER.pu.win.princeton.edu> Hi Prajakta, > 1) Is pronase and proteinase K same? No no no no no! For pronasing be sure to use Pronase (Protease, Type XIV: Bacterial, from Streptomyces griseus) Sigma P5147-1G > 2) From where pronase can be order, Is it Sigma or Merck or > which company? See above. > 3) How is pronase stock prepared, is it dissolved in water or > which buffer of what pH? We prepare 10mg/ml stocks in dH2O. We store 2mls in a 15 ml conical tube and freeze at -20 until needed for dechorionation. This is from our injection protocol - although we never dechroinate to inject anymore. 5. To pronase embryos collect a 500ml beaker filled with blue water, a tube of pronase stock, your glass pipette, a 60mm dish and a pair of forceps. 6. Dilute pronase stock 5x with egg water. Transfer the embryos to the bottom of a 60mm dish and remove as much of the egg water as possible. Add the diluted pronase to the dish and swirl the embryos. 7. Monitor the embryos carefully. Use forceps to pinch the chorions. If a pinch collapses the chorion the pronase has worked long enough. Quickly pour them into a 500ml beaker with egg water. Swirl the beaker, let embryos settled to the bottom and pour off the blue water. 9. Rinse the embryos into another 300 mls of blue water. Swirl and let the embryos sink to the bottom. Decant as much egg water as possible without disturbing the embryos. DO NOT LET EMBRYOS CONTACT AIR or they will explode. 10. Repeat the rinses in egg water for a total of 3-4 rinses. The chorions should come off of the embryos during the swirling. Once the embryos are out of their chorions, use the glass pipette to remove them to a glass dish containing embryo media. The embryos can only touch GLASS or AGAR COVERED PLASTIC after the chorions are removed. Note that too much pronase will cause all the embryos to turn to mush as you do the rinsing. We dispense blue water from a 20L carboy so the force of the flow helps blow off the chorions somewhat. This protocl is meant for embryos at the 1-2 cell stage. Some people use this for later stages, but once the embryos are done with epiboly, I find it easier to use forceps than deal with the finicky pronase. Each batch of pronase will act differently. Sometimes it takes seconds for chrions to become flimsy, other times it can take a minute. You have to watch the embryos closely once they are in pronase. Good luck, Becky From jeedward from yahoo.com Wed Feb 6 10:43:58 2008 From: jeedward from yahoo.com (John Edward) Date: Wed Feb 6 13:27:41 2008 Subject: [Zbrafish] Draft paper submission deadline is extended: BCBGC-08 Message-ID: <293487.6963.qm@web45907.mail.sp1.yahoo.com> Dear Professors, Colleagues and Friends Kindly share the announcement below with those who may be interested: thank you in advance. Sincerely John Edward BCBGC-08 Draft paper submission deadline is extended. The 2008 International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics (BCBGC-08) (website: www.PromoteResearch.org ) will be held during July 7-10 2008 in Orlando, FL, USA. The draft paper submission deadline is extended until February 19 2008 due to several requests from the authors. The conference will be held at the same time and location where several major events (see below) will be taking place. BCBGC brings together both academic and industrial scientists and developers from a diverse range of disciplines including bioinformatics, computer science, computational biology, genomics, proteomics and chemoinformatics. One of the main goals of the conference is to promote the dissemination of research to a multidisciplinary audience and to facilitate communication among researchers in different fields. Papers that demonstrate applications of existing techniques or developments of new methods are equally welcomed to the conference. Sincerely John Edward ? International Conference on Artificial Intelligence and Pattern Recognition (AIPR-08) ? International Conference on Automation, Robotics and Control Systems (ARCS-08) ? International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics (BCBGC-08) ? International Conference on Enterprise Information Systems and Web Technologies (EISWT-08) ? International Conference on High Performance Computing, Networking and Communication Systems (HPCNCS-08) ? International Conference on Software Engineering Theory and Practice (SETP-08) ? International Conference on Theoretical and Mathematical Foundations of Computer Science (TMFCS-08) --------------------------------- Looking for last minute shopping deals? Find them fast with Yahoo! Search. -------------- next part -------------- An HTML attachment was scrubbed... URL: http://www.bio.net/bionet/mm/zbrafish/attachments/20080206/edd19492/attachment.html From nase0002 from umn.edu Thu Feb 7 12:33:27 2008 From: nase0002 from umn.edu (nase0002) Date: Thu Feb 7 13:23:55 2008 Subject: [Zbrafish] ruby mutant Message-ID: <200802071733.m17HXRKD005018@sarge.software.umn.edu> Dear Mr. Lawrence, I was reading some discussion forums and found out that you have available zebrafish ruby mutant (albino*roy, I believe?). I was wondering if you would be able to spare some. Thank you very much! Best regards, Aidas _________________________ Aidas Nasevicius Scientific Director Yorktown Technologies, LP 6507 Bob Head Rd Plant City, FL 33565 Phone: 813-598-3692 Fax: 253-323-7448 ------------------------- From madhusmita.priyadarshini from helsinki.fi Fri Feb 8 08:19:54 2008 From: madhusmita.priyadarshini from helsinki.fi (Madhusmita Priyadarshini) Date: Fri Feb 8 13:30:52 2008 Subject: [Zbrafish] Chromosome FISH Message-ID: <004c01c86a55$4af984d0$913cd680@ltdk.ad.helsinki.fi> Hi, Does anybody know about anybody or any group doing Chromosome FISH? Is there any paper of this method and being applied on zebrafish? Please let me know asap. Thanks. Best regards, Madhu. From jeedward from yahoo.com Tue Feb 12 05:29:29 2008 From: jeedward from yahoo.com (John Edward) Date: Tue Feb 12 12:52:39 2008 Subject: [Zbrafish] BCBGC-08 Draft paper submission deadline is just few days from now Message-ID: <415722.45945.qm@web45912.mail.sp1.yahoo.com> Dear Professors, Colleagues and Friends Kindly share the announcement below with those who may be interested: thank you in advance. Sincerely John Edward BCBGC-08 Draft paper submission deadline is just few days from now The 2008 International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics (BCBGC-08) (website: www.PromoteResearch.org ) will be held during July 7-10 2008 in Orlando, FL, USA. The draft paper submission deadline is extended until February 19 2008 due to several requests from the authors. The conference will be held at the same time and location where several major events (see below) will be taking place. BCBGC brings together both academic and industrial scientists and developers from a diverse range of disciplines including bioinformatics, computer science, computational biology, genomics, proteomics and chemoinformatics. One of the main goals of the conference is to promote the dissemination of research to a multidisciplinary audience and to facilitate communication among researchers in different fields. Papers that demonstrate applications of existing techniques or developments of new methods are equally welcomed to the conference. Sincerely John Edward ? International Conference on Artificial Intelligence and Pattern Recognition (AIPR-08) ? International Conference on Automation, Robotics and Control Systems (ARCS-08) ? International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics (BCBGC-08) ? International Conference on Enterprise Information Systems and Web Technologies (EISWT-08) ? International Conference on High Performance Computing, Networking and Communication Systems (HPCNCS-08) ? International Conference on Software Engineering Theory and Practice (SETP-08) ? International Conference on Theoretical and Mathematical Foundations of Computer Science (TMFCS-08) --------------------------------- Looking for last minute shopping deals? Find them fast with Yahoo! Search. -------------- next part -------------- An HTML attachment was scrubbed... URL: http://www.bio.net/bionet/mm/zbrafish/attachments/20080212/ffe78941/attachment.html From monson.chris from gmail.com Thu Feb 14 10:46:08 2008 From: monson.chris from gmail.com (Chris Monson) Date: Thu Feb 14 12:52:51 2008 Subject: [Zbrafish] brain and nervous system identification Message-ID: Hi all, we have a morpholino that has given us, what we think is, a forebrain-hindbrain and nervous system phenotype. We have sectioned and H&E stained 72hpf embryos but are having a great deal of trouble identifying the brain and nervous system structures and defects. ZFin does have great pictures of healthy sectioned embryos labeled nicely but our MO phenotype is severe enough that those pictures are not much help to us. Does anyone know about or could identify brain and nervous structures from H and E stained embryos, or could anyone let me know who I could contact to ask for help? Thanks, Chris From mhaendel from uoneuro.uoregon.edu Thu Feb 14 13:10:02 2008 From: mhaendel from uoneuro.uoregon.edu (Melissa Haendel) Date: Thu Feb 14 13:16:48 2008 Subject: [Zbrafish] brain and nervous system identification In-Reply-To: References: Message-ID: <47B483FA.4080100@uoneuro.uoregon.edu> Hi Chris, I am the curator at ZFIN responsible for the anatomy ontology. If the below suggestions are not sufficient, please don't hesitate to email us with specific questions. One atlas that is very helpful is the Mueller and Wulliman "Atlas of early zebrafish brain development" Elsevier, 2005. The ISBN number is 0444517383. It has many sections and expression domains at 2, 3, and 5dpf. Another good contact would be Tom Hawkins, thomas.hawkins@ucl.ac.uk, in Steve Wilson's Lab, who is working on annotation of the zebrafish brain. Cheers, Melissa Haendel Chris Monson wrote: > Hi all, we have a morpholino that has given us, what we think is, a > forebrain-hindbrain and nervous system phenotype. We have sectioned > and H&E stained 72hpf embryos but are having a great deal of trouble > identifying the brain and nervous system structures and defects. ZFin > does have great pictures of healthy sectioned embryos labeled nicely > but our MO phenotype is severe enough that those pictures are not much > help to us. Does anyone know about or could identify brain and > nervous structures from H and E stained embryos, or could anyone let > me know who I could contact to ask for help? > > Thanks, > > Chris > > _______________________________________________ > Zbrafish mailing list > Zbrafish@net.bio.net > http://www.bio.net/biomail/listinfo/zbrafish > -- Melissa Haendel, Ph.D. ZFIN Scientific Curator Zebrafish Information Network 5291 University of Oregon Eugene, OR 97403-5291 Phone: (541) 346-5108 From rburdine from Princeton.EDU Mon Feb 18 12:38:28 2008 From: rburdine from Princeton.EDU (Burdine, Rebecca D) Date: Mon Feb 18 13:39:20 2008 Subject: [Zbrafish] Help with new cabinets Message-ID: <04AF14C4EF3CF34682460FB1FDBA98C008537F@MBCLUSTER.pu.win.princeton.edu> Hi everyone, Our current fish facility was outfitted with metal cabinets which are rusting through (big shock). Our department has agreed to help us replace them. I was wondering what people have in their facilities? Is anyone using plastic? Does anyone have suggestions as to vendors or as to other rust proof material? These are standard under counter cabinets. Nothing fancy. Thanks, Becky --------------------------------------------------- Rebecca D. Burdine, Ph.D. Assistant Professor Dept. of Molecular Biology Princeton University Washington Road Mof 433 Princeton, NJ 08544 Phone: (609) 258-7515 Fax: (609) 258-1343 Email: rburdine@princeton.edu Admin Assistant: Cathy Falk (609) 258-1604 -------------- next part -------------- An HTML attachment was scrubbed... URL: http://www.bio.net/bionet/mm/zbrafish/attachments/20080218/e07e1887/attachment.html From trevarro from uoneuro.uoregon.edu Mon Feb 18 14:17:28 2008 From: trevarro from uoneuro.uoregon.edu (Bill Trevarrow) Date: Mon Feb 18 14:20:33 2008 Subject: [Zbrafish] Help with new cabinets In-Reply-To: <04AF14C4EF3CF34682460FB1FDBA98C008537F@MBCLUSTER.pu.win.princeton.edu> References: <04AF14C4EF3CF34682460FB1FDBA98C008537F@MBCLUSTER.pu.win.princeton.edu> Message-ID: Hi Rebecca, Around here we use small plastic outdoor storage units. Some are small like outdoor storage sheds, some like cabinets. You can often find exaamples of these at Home Depots or garden stores. Rubber maid makes some of these, but other companies do also. I have use a couple of flat top cabinets that were about normal counter height and put an acrylic sheet on top to make a cheap, chemically stable counter. I have also seem ads for plastic lab furniture. Much more expensive I'm sure. >Content-class: urn:content-classes:message >Content-Type: multipart/alternative; > boundary="----_=_NextPart_001_01C87255.12C3ED8C" > >Hi everyone, > >Our current fish facility was outfitted with >metal cabinets which are rusting through (big >shock). Our department has agreed to help us >replace them. > >I was wondering what people have in their >facilities? Is anyone using plastic? Does >anyone have suggestions as to vendors or as to >other rust proof material? > >These are standard under counter cabinets. Nothing fancy. > >Thanks, >Becky > >--------------------------------------------------- >Rebecca D. Burdine, Ph.D. >Assistant Professor >Dept. of Molecular Biology >Princeton University >Washington Road Mof 433 >Princeton, NJ 08544 > >Phone: (609) 258-7515 >Fax: (609) 258-1343 >Email: rburdine@princeton.edu >Admin Assistant: Cathy Falk (609) 258-1604 > > >_______________________________________________ >Zbrafish mailing list >Zbrafish@net.bio.net >http://www.bio.net/biomail/listinfo/zbrafish -- Bill ~~~~~~~~~~~~~~~~~~~~~~ ?.??.???`?.?.???`?...?><)))?> . , . .???`?.. ><)))?> ><> <>< ><> <>< ><> <>< ><> <>< Bill Trevarrow Institute of Neuroscience University of Oregon 1254 Eugene, OR 97403-1254 Off. Tel: (541) 346-4598 Cell: (541) 844-9054 Fax: (541) 346-4548 e-mail: trevarro@uoneuro.uoregon.edu -------------- next part -------------- An HTML attachment was scrubbed... URL: http://www.bio.net/bionet/mm/zbrafish/attachments/20080218/e632783c/attachment.html From april from zebrafish.org Mon Feb 18 14:27:00 2008 From: april from zebrafish.org (April) Date: Mon Feb 18 14:29:00 2008 Subject: [Zbrafish] Help with new cabinets In-Reply-To: <04AF14C4EF3CF34682460FB1FDBA98C008537F@MBCLUSTER.pu.win.princeton.edu> References: <04AF14C4EF3CF34682460FB1FDBA98C008537F@MBCLUSTER.pu.win.princeton.edu> Message-ID: Hi Becky, As Bill mentioned, we use Rubbermaid cabinets to store items in our fish room. You can see the exact cabinets we use at the following link, http://www.rubbermaid.com/rubbermaid/product/product.jhtml? prodId=HPProd130010#. Very best, April On Feb 18, 2008, at 9:38 AM, Burdine, Rebecca D wrote: > Hi everyone, > > Our current fish facility was outfitted with metal cabinets which > are rusting through (big shock). Our department has agreed to help > us replace them. > > I was wondering what people have in their facilities? Is anyone > using plastic? Does anyone have suggestions as to vendors or as > to other rust proof material? > > These are standard under counter cabinets. Nothing fancy. > > Thanks, > Becky > > --------------------------------------------------- > Rebecca D. Burdine, Ph.D. > Assistant Professor > Dept. of Molecular Biology > Princeton University > Washington Road Mof 433 > Princeton, NJ 08544 > > Phone: (609) 258-7515 > Fax: (609) 258-1343 > Email: rburdine@princeton.edu > Admin Assistant: Cathy Falk (609) 258-1604 > > _______________________________________________ > Zbrafish mailing list > Zbrafish@net.bio.net > http://www.bio.net/biomail/listinfo/zbrafish ----------------------- April R. Freeman (Mazanec) ZIRC Manager Zebrafish Int.'l Resource Center 5274 University of Oregon Eugene, OR 97403-5274 Phone: (541) 346-6028 ext. 24 Fax: (541) 346-6151 -------------- next part -------------- An HTML attachment was scrubbed... URL: http://www.bio.net/bionet/mm/zbrafish/attachments/20080218/bfaabaeb/attachment.html From dongrep from yahoo.com Tue Feb 19 00:08:54 2008 From: dongrep from yahoo.com (prajakta dongre) Date: Tue Feb 19 13:35:39 2008 Subject: [Zbrafish] Chlorine in water Message-ID: <32733.9935.qm@web37314.mail.mud.yahoo.com> Hello I am using normal tap water for keeping my fishes. These days the water in Bangalore too much chlorinated. Some of my Juvenile fishes died because of this water. I have few questions- 1) What is the protocol to find out presence of chlorine in water? 2) How much percentage of chlorine or concentration of chlorine is toxic to fishes? 3) What is the remedy for removing this chlorine? Simple thing I am doing is keeping the water circulating for a day and then using it. There is one more question Please let me know about the supplier of Brine Shrimp eggs (Petrel Brand, O.S.I, 100% hatching quality) in India. Also the amount of money to buy 15oz i.e. 425 grams. Thank you all in anticipation Prajakta Limaye Indian Institute of Science Bangalore 560012 ____________________________________________________________________________________ Never miss a thing. Make Yahoo your home page. http://www.yahoo.com/r/hs From chi-bin.chien from neuro.utah.edu Tue Feb 19 18:44:24 2008 From: chi-bin.chien from neuro.utah.edu (Chi-Bin Chien) Date: Tue Feb 19 19:10:40 2008 Subject: [Zbrafish] 2008 international meeting announcement Message-ID: To all of our zebrafish and medaka colleagues, We are pleased to announce that the meeting website for the 2008 International Zebrafish meeting has now gone live: http://www.union.wisc.edu/zebrafish/index.html A description of the meeting follows below, and more information is available on the website. Important deadlines: Abstract submission, April 14, 2008; Lodging reservations, May 19, 2008. 2008 Organizing Committee: Sharon Amacher, UC Berkeley, USA Laure Bally-Cuif, GSF-Research Center for Environment and Health, Germany Chi-Bin Chien, University of Utah, USA Matthias Hammerschmidt, MPI Immunobiology, Germany Koichi Kawakami, National Institute of Genetics, Japan Brant Weinstein, NICHD/NIH, USA ======================= 8th International Meeting on Zebrafish Development and Genetics June 25-29, 2008 - Madison, WI, USA The organizers of the 2008 International Zebrafish Development and Genetics Conference welcome all interested scientists to join us for discussion of their latest results and ideas. The schedule will feature a variety of oral sessions, posters, and vendors, as well as opportunities to socialize on the shores of Lake Mendota. This year's schedule will feature extra time for free discussion, as well as a workshop format featuring topics suggested by the community. (Thanks to all of those who wrote in to suggest workshop topics.) We have also provided extra information about bus connections, as an alternate way to reach Madison from Chicago or Milwaukee airports. Please join us for an exciting program that will reflect the rapid expansion and growing impact of our field. -------------- next part -------------- An HTML attachment was scrubbed... URL: http://www.bio.net/bionet/mm/zbrafish/attachments/20080219/636d8742/attachment.html From trepolho from bio.ua.pt Fri Feb 22 18:01:54 2008 From: trepolho from bio.ua.pt (Tiago Filipe Baptista da Rosa Repolho) Date: Fri Feb 22 18:04:37 2008 Subject: [Zbrafish] Re: Zbrafish Digest, Vol 33, Issue 9 In-Reply-To: <200802191703.m1JH37L12429@net.bio.net> References: <200802191703.m1JH37L12429@net.bio.net> Message-ID: Hi Rebecca, Whenever you want to acquire any rust resistant equipment, such as cabinets or other, check if the metal parts are made of INOX 316. Rust resistant materials, that I know about, include: - Copper (the best marine submerged water pumps are made of) = very expensive. - Titanium (SCUBA equipment such as SCUBA watches, regulators, etc) = much more epensive than copper but basically Rust free at all times - Marine wood (used on Saltwater Fish pond diques and other). - INOX 316. Cheaper and very durable. - Plastic. Even cheaper but less durable. If I was you I would sherach for a Plastic/INOX 316 equipment, just in case. It will save you lots of trouble, specially rust. Tiago Em Tue, 19 Feb 2008 12:03:07 -0500 (EST) zbrafish-request@oat.bio.indiana.edu escreveu: > Send Zbrafish mailing list submissions to > zbrafish@net.bio.net > > To subscribe or unsubscribe via the World Wide Web, >visit > http://www.bio.net/biomail/listinfo/zbrafish > or, via email, send a message with subject or body >'help' to > zbrafish-request@net.bio.net > > You can reach the person managing the list at > zbrafish-owner@net.bio.net > > When replying, please edit your Subject line so it is >more specific > than "Re: Contents of Zbrafish digest..." > > > Today's Topics: > > 1. Help with new cabinets (Burdine, Rebecca D) > 2. Re: Help with new cabinets (Bill Trevarrow) > 3. Re: Help with new cabinets (April) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Mon, 18 Feb 2008 12:38:28 -0500 >From: "Burdine, Rebecca D" > Subject: [Zbrafish] Help with new cabinets > To: > Message-ID: > <04AF14C4EF3CF34682460FB1FDBA98C008537F@MBCLUSTER.pu.win.princeton.edu> > > Content-Type: text/plain; charset="us-ascii" > > Hi everyone, > > Our current fish facility was outfitted with metal >cabinets which are > rusting through (big shock). Our department has agreed >to help us > replace them. > > I was wondering what people have in their facilities? > Is anyone using > plastic? Does anyone have suggestions as to vendors or >as to other > rust proof material? > > These are standard under counter cabinets. Nothing >fancy. > > Thanks, > Becky > > --------------------------------------------------- > Rebecca D. Burdine, Ph.D. > Assistant Professor > Dept. of Molecular Biology > Princeton University > Washington Road Mof 433 > Princeton, NJ 08544 > > Phone: (609) 258-7515 >Fax: (609) 258-1343 > Email: rburdine@princeton.edu > Admin Assistant: Cathy Falk (609) 258-1604 > > -------------- next part -------------- > An HTML attachment was scrubbed... > URL: >http://www.bio.net/bionet/mm/zbrafish/attachments/20080218/e07e1887/attachment-0001.html > > ------------------------------ > > Message: 2 > Date: Mon, 18 Feb 2008 11:17:28 -0800 >From: Bill Trevarrow > Subject: Re: [Zbrafish] Help with new cabinets > To: zbrafish@magpie.bio.indiana.edu > Message-ID: > Content-Type: text/plain; charset="iso-8859-1" > > Hi Rebecca, > > Around here we use small plastic outdoor storage > units. Some are small like outdoor storage sheds, > some like cabinets. You can often find exaamples > of these at Home Depots or garden stores. Rubber > maid makes some of these, but other companies do > also. I have use a couple of flat top cabinets > that were about normal counter height and put an > acrylic sheet on top to make a cheap, chemically > stable counter. > > I have also seem ads for plastic lab furniture. Much >more expensive I'm sure. > >>Content-class: urn:content-classes:message >>Content-Type: multipart/alternative; >> boundary="----_=_NextPart_001_01C87255.12C3ED8C" >> >>Hi everyone, >> >>Our current fish facility was outfitted with >>metal cabinets which are rusting through (big >>shock). Our department has agreed to help us >>replace them. >> >>I was wondering what people have in their >>facilities? Is anyone using plastic? Does >>anyone have suggestions as to vendors or as to >>other rust proof material? >> >>These are standard under counter cabinets. Nothing >>fancy. >> >>Thanks, >>Becky >> >>--------------------------------------------------- >>Rebecca D. Burdine, Ph.D. >>Assistant Professor >>Dept. of Molecular Biology >>Princeton University >>Washington Road Mof 433 >>Princeton, NJ 08544 >> >>Phone: (609) 258-7515 >>Fax: (609) 258-1343 >>Email: >>rburdine@princeton.edu >>Admin Assistant: Cathy Falk (609) 258-1604 >> >> >>_______________________________________________ >>Zbrafish mailing list >>Zbrafish@net.bio.net >>http://www.bio.net/biomail/listinfo/zbrafish > > > -- > > Bill > > ~~~~~~~~~~~~~~~~~~~~~~ > ?.??.???`?.?.???`?...?><)))?> > . , . .???`?.. ><)))?> > ><> <>< ><> <>< ><> <>< ><> <>< > > Bill Trevarrow > Institute of Neuroscience > University of Oregon 1254 > Eugene, OR 97403-1254 > Off. Tel: (541) 346-4598 > Cell: (541) 844-9054 >Fax: (541) 346-4548 > e-mail: trevarro@uoneuro.uoregon.edu > -------------- next part -------------- > An HTML attachment was scrubbed... > URL: >http://www.bio.net/bionet/mm/zbrafish/attachments/20080218/e632783c/attachment-0001.html > > ------------------------------ > > Message: 3 > Date: Mon, 18 Feb 2008 11:27:00 -0800 >From: April > Subject: Re: [Zbrafish] Help with new cabinets > To: "Burdine, Rebecca D" > Cc: Zbrafish@magpie.bio.indiana.edu > Message-ID: > > Content-Type: text/plain; charset="us-ascii" > > Hi Becky, > As Bill mentioned, we use Rubbermaid cabinets to store >items in our > fish room. You can see the exact cabinets we use at the >following > link, >http://www.rubbermaid.com/rubbermaid/product/product.jhtml? > prodId=HPProd130010#. > > Very best, > > April > > On Feb 18, 2008, at 9:38 AM, Burdine, Rebecca D wrote: > >> Hi everyone, >> >> Our current fish facility was outfitted with metal >>cabinets which >> are rusting through (big shock). Our department has >>agreed to help >> us replace them. >> >> I was wondering what people have in their facilities? >> Is anyone >> using plastic? Does anyone have suggestions as to >>vendors or as >> to other rust proof material? >> >> These are standard under counter cabinets. Nothing >>fancy. >> >> Thanks, >> Becky >> >> --------------------------------------------------- >> Rebecca D. Burdine, Ph.D. >> Assistant Professor >> Dept. of Molecular Biology >> Princeton University >> Washington Road Mof 433 >> Princeton, NJ 08544 >> >> Phone: (609) 258-7515 >> Fax: (609) 258-1343 >> Email: rburdine@princeton.edu >> Admin Assistant: Cathy Falk (609) 258-1604 >> >> _______________________________________________ >> Zbrafish mailing list >> Zbrafish@net.bio.net >> http://www.bio.net/biomail/listinfo/zbrafish > > ----------------------- > April R. Freeman (Mazanec) > ZIRC Manager > Zebrafish Int.'l Resource Center > 5274 University of Oregon > Eugene, OR 97403-5274 > > Phone: (541) 346-6028 ext. 24 >Fax: (541) 346-6151 > > > -------------- next part -------------- > An HTML attachment was scrubbed... > URL: >http://www.bio.net/bionet/mm/zbrafish/attachments/20080218/bfaabaeb/attachment-0001.html > > ------------------------------ > > _______________________________________________ > Zbrafish mailing list > Zbrafish@net.bio.net > http://www.bio.net/biomail/listinfo/zbrafish > > End of Zbrafish Digest, Vol 33, Issue 9 > *************************************** ><((((?>`?.?><((((?>`?.?><((((?>`?.?><((((?> Tiago Filipe Baptista da Rosa Repolho Departamento de Biologia Universidade de Aveiro Campus de Santiago 3810 - 193 Aveiro Portugal e-mail: trepolho@bio.ua.pt web: http://www.bio.ua.pt/ZebraLab_UA_Webpage/Zebralab.htm ><((((?>`?.?><((((?>`?.?><((((?>`?.?><((((?> From trepolho from bio.ua.pt Fri Feb 22 18:08:19 2008 From: trepolho from bio.ua.pt (Tiago Filipe Baptista da Rosa Repolho) Date: Fri Feb 22 18:21:39 2008 Subject: [Zbrafish] Re: Zbrafish Digest, Vol 33, Issue 10 In-Reply-To: <200802201703.m1KH38L14740@net.bio.net> References: <200802201703.m1KH38L14740@net.bio.net> Message-ID: Hi Prajakta, Regarding Chlorine, the concentration in the water to allow your fishes t live should be 0. If there is chlorine in your system water, on thing is certain: - Your fish will start to either die or get "sick2 very fast. Why? Because chlorine will destroy all the gill "braches" of your fish, that will result in hipoxia and death. A simple solution is to aerate (us an air pump/air stone system)the tap water al least for 24h, to remove all the chlorine, prior to use it as system water (fish water). What you can also use is an active carbon filter to remove the Chlorine ions from the water. the second solution is more expensive but more reliable and faster. Hope I could help, Tiago Em Wed, 20 Feb 2008 12:03:08 -0500 (EST) zbrafish-request@oat.bio.indiana.edu escreveu: > Send Zbrafish mailing list submissions to > zbrafish@net.bio.net > > To subscribe or unsubscribe via the World Wide Web, >visit > http://www.bio.net/biomail/listinfo/zbrafish > or, via email, send a message with subject or body >'help' to > zbrafish-request@net.bio.net > > You can reach the person managing the list at > zbrafish-owner@net.bio.net > > When replying, please edit your Subject line so it is >more specific > than "Re: Contents of Zbrafish digest..." > > > Today's Topics: > > 1. Chlorine in water (prajakta dongre) > 2. 2008 international meeting announcement (Chi-Bin >Chien) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Mon, 18 Feb 2008 21:08:54 -0800 (PST) >From: prajakta dongre > Subject: [Zbrafish] Chlorine in water > To: bionet-organisms-zebrafish@magpie.bio.indiana.edu > Message-ID: <32733.9935.qm@web37314.mail.mud.yahoo.com> > Content-Type: text/plain; charset=iso-8859-1 > > Hello > > I am using normal tap water for keeping my fishes. > These days the water in Bangalore too much > chlorinated. Some of my Juvenile fishes died because > of this water. > I have few questions- > 1) What is the protocol to find out presence of > chlorine in water? > 2) How much percentage of chlorine or concentration of > chlorine is toxic to fishes? > 3) What is the remedy for removing this chlorine? > Simple thing I am doing is keeping the water > circulating for a day and then using it. > > There is one more question > Please let me know about the supplier of Brine Shrimp > eggs (Petrel Brand, O.S.I, 100% hatching quality) in > India. Also the amount of money to buy 15oz i.e. 425 > grams. > > Thank you all in anticipation > Prajakta Limaye > Indian Institute of Science > Bangalore 560012 > > > > ____________________________________________________________________________________ > Never miss a thing. Make Yahoo your home page. > http://www.yahoo.com/r/hs > > > > ------------------------------ > > Message: 2 > Date: Tue, 19 Feb 2008 16:44:24 -0700 >From: Chi-Bin Chien > Subject: [Zbrafish] 2008 international meeting >announcement > To: zbrafish@magpie.bio.indiana.edu > Message-ID: > Content-Type: text/plain; charset="us-ascii" > > To all of our zebrafish and medaka colleagues, > > We are pleased to announce that the meeting website for >the 2008 > International Zebrafish meeting has now gone live: > > http://www.union.wisc.edu/zebrafish/index.html > > A description of the meeting follows below, and more >information is > available on the website. Important deadlines: Abstract >submission, > April 14, 2008; Lodging reservations, May 19, 2008. > > 2008 Organizing Committee: > > Sharon Amacher, UC Berkeley, USA > Laure Bally-Cuif, GSF-Research Center for Environment >and Health, Germany > Chi-Bin Chien, University of Utah, USA > Matthias Hammerschmidt, MPI Immunobiology, Germany > Koichi Kawakami, National Institute of Genetics, Japan > Brant Weinstein, NICHD/NIH, USA > > ======================= > 8th International Meeting on Zebrafish Development and >Genetics > June 25-29, 2008 - Madison, WI, USA > > The organizers of the 2008 International Zebrafish >Development and > Genetics Conference welcome all interested scientists to >join us for > discussion of their latest results and ideas. The >schedule will > feature a variety of oral sessions, posters, and >vendors, as well as > opportunities to socialize on the shores of Lake >Mendota. > > This year's schedule will feature extra time for free >discussion, as > well as a workshop format featuring topics suggested by >the > community. (Thanks to all of those who wrote in to >suggest workshop > topics.) We have also provided extra information about >bus > connections, as an alternate way to reach Madison from >Chicago or > Milwaukee airports. > > Please join us for an exciting program that will reflect >the rapid > expansion and growing impact of our field. > -------------- next part -------------- > An HTML attachment was scrubbed... > URL: >http://www.bio.net/bionet/mm/zbrafish/attachments/20080219/636d8742/attachment-0001.html > > ------------------------------ > > _______________________________________________ > Zbrafish mailing list > Zbrafish@net.bio.net > http://www.bio.net/biomail/listinfo/zbrafish > > End of Zbrafish Digest, Vol 33, Issue 10 > **************************************** ><((((?>`?.?><((((?>`?.?><((((?>`?.?><((((?> Tiago Filipe Baptista da Rosa Repolho Departamento de Biologia Universidade de Aveiro Campus de Santiago 3810 - 193 Aveiro Portugal e-mail: trepolho@bio.ua.pt web: http://www.bio.ua.pt/ZebraLab_UA_Webpage/Zebralab.htm ><((((?>`?.?><((((?>`?.?><((((?>`?.?><((((?> From xiaw from umbi.umd.edu Mon Feb 25 10:02:04 2008 From: xiaw from umbi.umd.edu (xiawei) Date: Mon Feb 25 12:26:01 2008 Subject: [Zbrafish] Does anybody have pSP64T vector? Message-ID: <9682BDAE-BD02-4813-A4B4-BEA549DDD265@umbi.umd.edu> Sorry to bother those who are not interested. I am wondering whether any lab has the pSP64T Plasmid. If you have any information, please reply this email. Thank you so much for your kind help! Best wishes, Wei Xia From dillons from aquaticeco.com Wed Feb 27 11:42:39 2008 From: dillons from aquaticeco.com (dillons@aquaticeco.com) Date: Wed Feb 27 12:38:50 2008 Subject: [Zbrafish] Aquatic Habitats and Marine Biotech Merger Message-ID: <0bb07f40-8c38-47c5-9ef3-649b732493cf@b1g2000hsg.googlegroups.com> On February 11, 2008, Aquatic Eco-Systems, Inc., announced the acquisition of Marine Biotech, Inc. Our goal in this merger is to establish a single, industry-leading company that customers can look to for products and services in the aquatics industry. We'll meet this goal by combining the efforts and the expertise of both entities. The merger will allow us to offer the best design and engineering services, products, systems, customer service and support to the pharmaceutical, biomedical research, academic and aquaculture communities. Both companies will continue to operate "business as usual" with facilities, product lines, sales, customer service and support and contractual obligations with customers remaining in effect and unchanged. All existing product lines will remain in production and be supported into the foreseeable future. Ultimately, the customer will benefit from this merger as we move to jointly develop and offer state- of-the-art products, systems, technologies and services This is an exciting time for us all as our unification enables us to better serve customers everywhere. Please contact either company if you have any questions. Dillon Streets Sales Manager Aquatic Habitats Email: dillons@aquaticeco.com aquatichabitats.com marinebiotech.com From rburdine from Princeton.EDU Wed Feb 27 13:49:36 2008 From: rburdine from Princeton.EDU (Burdine, Rebecca D) Date: Wed Feb 27 13:51:06 2008 Subject: [Zbrafish] Cabinet Question continued. Message-ID: <04AF14C4EF3CF34682460FB1FDBA98C008561C@MBCLUSTER.pu.win.princeton.edu> HI everyone, Thanks for your advice and help with everything. My facilities people are looking at installing phenolic resin cabinets. These will supposedly withstand anything and the quotes haven't been horrendous. Is there anything I should be worried about with these cabinets? Any reason to think phenolic resin cabinets might be a bad thing? Advice is always appreciated, Becky --------------------------------------------------- Rebecca D. Burdine, Ph.D. Assistant Professor Dept. of Molecular Biology Princeton University Washington Road Mof 433 Princeton, NJ 08544 Phone: (609) 258-7515 Fax: (609) 258-1343 Email: rburdine@princeton.edu Admin Assistant: Cathy Falk (609) 258-1604 -------------- next part -------------- An HTML attachment was scrubbed... URL: http://www.bio.net/bionet/mm/zbrafish/attachments/20080227/ec62b47f/attachment.html From cheuk.chung from gmail.com Wed Feb 27 23:51:35 2008 From: cheuk.chung from gmail.com (Tony Cheuk-Chung Ho) Date: Thu Feb 28 12:17:57 2008 Subject: [Zbrafish] Re: Does anybody have pSP64T vector? References: Message-ID: <3cb3ab98-ff0d-4d16-8876-3952d6d40a91@u10g2000prn.googlegroups.com> I use the pSP64T(NE) plasmid in my study, it is a variant the pSP64T/ pSP64 plasmid. pSP64T plasmid is a modified version of the pSP64 plasmid (Promega). It was originally design by Krieg and Melton(1984) to be a translation vector for in vitro transcription. In addition to it's original features, it contains added Xenopus beta-globin 5'- and 3'- UTR and ploy-A tail. You should refer to the original Krieg and Melton paper (1984 Nucleic acids research. 12:7057-7070) for more information. Cheers, Tony On Feb 25, 11:02 pm, xiawei wrote: > Sorry to bother those who are not interested. I am wondering whether > any lab has the pSP64T Plasmid. If you have any information, please > reply this email. Thank you so much for your kind help! > Best wishes, > > Wei Xia From michelle.musson from gmail.com Fri Feb 29 15:31:48 2008 From: michelle.musson from gmail.com (michelle) Date: Fri Feb 29 16:36:04 2008 Subject: [Zbrafish] help with adult zebrafish organ identification Message-ID: <9e24c1fe-368c-414d-a461-f16d7f237a4d@u69g2000hse.googlegroups.com> Hello! I am a graduate student in the Gastroenterology Department at Boston University School of Medicine. I am currently doing immunohistochemistry on adult zebrafish sections, and need some help with organ identification, specifically the intestine and pancreas. Would anyone be able to look at some pictures and help with identification? Thanks, and I would really appreciate any help or suggestions that anyone has. Michelle