From yuyanxiong from xmu.edu.cn Mon Jun 2 05:17:18 2008 From: yuyanxiong from xmu.edu.cn (yuyanxiong) Date: Mon Jun 2 11:00:17 2008 Subject: [Microbiology] could i ask you a question about suicide plasmid? Message-ID: <412401464.32119@eyou.net> Dear Dr Martin Goldberg, I am xiong yuyan, a graduate student from xiamen university in China.Now i'm busy with a expeiment about Tn5 transposon mutation and i have a problem hampering my progresses,could you help me?Thanks you so much! looking forward to your reply! sicerely, yuyan 2008-06-02 -------------------------------------------------------------------------------- Department of chemical and biochemical engineering,xiamen university Xiamen,361005,P.R.China E-mail:yuyanxiong@xmu.edu.cn From sal2 from sal2.com Fri Jun 6 13:50:35 2008 From: sal2 from sal2.com (sal2) Date: Fri Jun 6 14:59:14 2008 Subject: [Microbiology] machine/database used to find out bacteria/virus/drug tia sal2 Message-ID: Greetings All When doctors take samples of blood/urine to find out what bacteria/virus/ drug they have. What type of machine is used to find out what type of bacteria/virus/drug that is in their system? I'm trying to find out the machine they use and the database they use to cross check bacteria/ viruses/drugs against each other. tia sal2 From yjgent from nospamcox.net Fri Jun 6 22:14:13 2008 From: yjgent from nospamcox.net (John Gentile) Date: Sat Jun 7 12:11:03 2008 Subject: [Microbiology] Re: machine/database used to find out bacteria/virus/drug tia sal2 References: Message-ID: <2008060623141316807-yjgent@nospamcoxnet> On 2008-06-06 14:50:35 -0400, sal2 said: > Greetings All > > When doctors take samples of blood/urine to find out what bacteria/virus/ > drug they have. What type of machine is used to find out what type of > bacteria/virus/drug that is in their system? I'm trying to find out the > machine they use and the database they use to cross check bacteria/ > viruses/drugs against each other. > > tia sal2 Are you thinking that it is as easy to pour blood or urine into a machine and out comes an answer? No that is not how it works and it is a very complex set of procedures to determine what infection a person has. Bacteria are isolated by culture, which means that a sample is placed on some kind of nutrient broth or agar and in a few days a microbiologist or a technologist will examine the growth and determine what kind of bacteria it is. There are thousands of different bacteria and the scientist must use his or her knowledge of bacteria to determine what tests to use to identify it. My "database" is basically in my head! If I have to use a reference, I usually use Bergy's Manual or the American Society of Microbiology manual of clinical microbiology. Once it is identified then we can apply different antibiotics to the culture to see which ones will kill it. Viruses are also grown in cultures, but of a very different matrix - they must be living cells for viruses to grow. I can't answer to how the different viruses are identified since I've never worked in a virology lab. And what kinds of drugs are you talking about - again there are many complex methods for measuring drugs in a sample. Maybe you need to do some more research on this subject and ask the questions again. -- John Gentile MS, M(ASCP) Laboratory Information Mgr. VA Medical Center Providence, RI yjgent@cox.net From sal2 from sal2.com Fri Jun 6 23:02:18 2008 From: sal2 from sal2.com (sal2) Date: Sat Jun 7 12:11:08 2008 Subject: [Microbiology] Re: machine/database used to find out bacteria/virus/drug tia sal2 References: <2008060623141316807-yjgent@nospamcoxnet> Message-ID: Thanks for the reply I was just looking for an overall database that included the spectra lines....this one is nice but you have to pay for it....I'm looking for a free one.....any recommendations http://chemgate.emolecules.com/cgi-bin/rene/show_hitlist.cgi Thanks sal2 On Fri, 06 Jun 2008 23:14:13 -0400, John Gentile wrote: > On 2008-06-06 14:50:35 -0400, sal2 said: > >> Greetings All >> >> When doctors take samples of blood/urine to find out what >> bacteria/virus/ drug they have. What type of machine is used to find >> out what type of bacteria/virus/drug that is in their system? I'm >> trying to find out the machine they use and the database they use to >> cross check bacteria/ viruses/drugs against each other. >> >> tia sal2 > > Are you thinking that it is as easy to pour blood or urine into a > machine and out comes an answer? No that is not how it works and it is a > very complex set of procedures to determine what infection a person has. > Bacteria are isolated by culture, which means that a sample is placed on > some kind of nutrient broth or agar and in a few days a microbiologist > or a technologist will examine the growth and determine what kind of > bacteria it is. There are thousands of different bacteria and the > scientist must use his or her knowledge of bacteria to determine what > tests to use to identify it. My "database" is basically in my head! If I > have to use a reference, I usually use Bergy's Manual or the American > Society of Microbiology manual of clinical microbiology. Once it is > identified then we can apply different antibiotics to the culture to see > which ones will kill it. Viruses are also grown in cultures, but of a > very different matrix - they must be living cells for viruses to grow. I > can't answer to how the different viruses are identified since I've > never worked in a virology lab. > And what kinds of drugs are you talking about - again there are many > complex methods for measuring drugs in a sample. Maybe you need to do > some more research on this subject and ask the questions again. From physchem from verizon.net Sat Jun 7 10:08:52 2008 From: physchem from verizon.net (Marvin) Date: Sat Jun 7 12:11:12 2008 Subject: [Microbiology] Re: machine/database used to find out bacteria/virus/drug tia sal2 In-Reply-To: References: <2008060623141316807-yjgent@nospamcoxnet> Message-ID: <8wx2k.59$ul.43@trndny08> I know something about microbiology, and more about spectroscopy. Microbiologists don't use spectral lines to identify bacteria. There is some reserach on using molecular spectra to identify bacteria, but it is nor part of clinical practice. sal2 wrote: > Thanks for the reply I was just looking for an overall database that > included the spectra lines....this one is nice but you have to pay for > it....I'm looking for a free one.....any recommendations > > http://chemgate.emolecules.com/cgi-bin/rene/show_hitlist.cgi > > Thanks > sal2 > > > > On Fri, 06 Jun 2008 23:14:13 -0400, John Gentile wrote: > >> On 2008-06-06 14:50:35 -0400, sal2 said: >> >>> Greetings All >>> >>> When doctors take samples of blood/urine to find out what >>> bacteria/virus/ drug they have. What type of machine is used to find >>> out what type of bacteria/virus/drug that is in their system? I'm >>> trying to find out the machine they use and the database they use to >>> cross check bacteria/ viruses/drugs against each other. >>> >>> tia sal2 >> Are you thinking that it is as easy to pour blood or urine into a >> machine and out comes an answer? No that is not how it works and it is a >> very complex set of procedures to determine what infection a person has. >> Bacteria are isolated by culture, which means that a sample is placed on >> some kind of nutrient broth or agar and in a few days a microbiologist >> or a technologist will examine the growth and determine what kind of >> bacteria it is. There are thousands of different bacteria and the >> scientist must use his or her knowledge of bacteria to determine what >> tests to use to identify it. My "database" is basically in my head! If I >> have to use a reference, I usually use Bergy's Manual or the American >> Society of Microbiology manual of clinical microbiology. Once it is >> identified then we can apply different antibiotics to the culture to see >> which ones will kill it. Viruses are also grown in cultures, but of a >> very different matrix - they must be living cells for viruses to grow. I >> can't answer to how the different viruses are identified since I've >> never worked in a virology lab. >> And what kinds of drugs are you talking about - again there are many >> complex methods for measuring drugs in a sample. Maybe you need to do >> some more research on this subject and ask the questions again. > From clement from bio.mls.eng.osaka-u.ac.jp Sun Jun 8 04:33:10 2008 From: clement from bio.mls.eng.osaka-u.ac.jp (Clement Angkawidjaja) Date: Sun Jun 8 11:47:14 2008 Subject: [Microbiology] Re: machine/database used to find outbacteria/virus/drug tia sal2 References: <2008060623141316807-yjgent@nospamcoxnet> <8wx2k.59$ul.43@trndny08> Message-ID: <002201c8c94a$aa890b10$0c00a8c0@CLEMENT> There is a method to identify a bacteria just by loading a PURE culture (by pure, I mean as John Gentile mentioned, plate the sample to get a pure colony and then culture it in a liquid medium) to a MALDI-TOF mass spectrometer. Each bacteria may give a unique mass spectrum. However, I do not think it can distinguish between genetically related bacteria (e.g. EPEC, EHEC) You can google it and some free papers will show up. Here is one of them: www.osti.gov/energycitations/product.biblio.jsp?osti_id=15002705 You might want to email the author of the paper to get more detailed info. Regards, Clement Angkawidjaja, Ph.D S.A. Assistant Professor Laboratory of Molecular Biotechnology Division of Advanced Science and Biotechnology Graduate School of Engineering, Osaka University 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan Tel./ Fax: +81-6-6879-4580 ----- Original Message ----- From: "Marvin" Newsgroups: bionet.microbiology, sci.chemistry, sci.techniques.spectroscopy,sci.techniques.testing.misc To: Sent: Sunday, June 08, 2008 12:08 AM Subject: [Microbiology] Re: machine/database used to find outbacteria/virus/drug tia sal2 >I know something about microbiology, and more about spectroscopy. >Microbiologists don't use spectral lines to identify bacteria. There is >some reserach on using molecular spectra to identify bacteria, but it is >nor part of clinical practice. > > sal2 wrote: >> Thanks for the reply I was just looking for an overall database that >> included the spectra lines....this one is nice but you have to pay for >> it....I'm looking for a free one.....any recommendations >> >> http://chemgate.emolecules.com/cgi-bin/rene/show_hitlist.cgi >> >> Thanks >> sal2 >> >> >> >> On Fri, 06 Jun 2008 23:14:13 -0400, John Gentile wrote: >> >>> On 2008-06-06 14:50:35 -0400, sal2 said: >>> >>>> Greetings All >>>> >>>> When doctors take samples of blood/urine to find out what >>>> bacteria/virus/ drug they have. What type of machine is used to find >>>> out what type of bacteria/virus/drug that is in their system? I'm >>>> trying to find out the machine they use and the database they use to >>>> cross check bacteria/ viruses/drugs against each other. >>>> >>>> tia sal2 >>> Are you thinking that it is as easy to pour blood or urine into a >>> machine and out comes an answer? No that is not how it works and it is a >>> very complex set of procedures to determine what infection a person has. >>> Bacteria are isolated by culture, which means that a sample is placed on >>> some kind of nutrient broth or agar and in a few days a microbiologist >>> or a technologist will examine the growth and determine what kind of >>> bacteria it is. There are thousands of different bacteria and the >>> scientist must use his or her knowledge of bacteria to determine what >>> tests to use to identify it. My "database" is basically in my head! If I >>> have to use a reference, I usually use Bergy's Manual or the American >>> Society of Microbiology manual of clinical microbiology. Once it is >>> identified then we can apply different antibiotics to the culture to see >>> which ones will kill it. Viruses are also grown in cultures, but of a >>> very different matrix - they must be living cells for viruses to grow. I >>> can't answer to how the different viruses are identified since I've >>> never worked in a virology lab. >>> And what kinds of drugs are you talking about - again there are many >>> complex methods for measuring drugs in a sample. Maybe you need to do >>> some more research on this subject and ask the questions again. >> > _______________________________________________ > Microbio mailing list > Microbio@net.bio.net > http://www.bio.net/biomail/listinfo/microbio From farrlarr from isu.edu Sun Jun 8 17:53:31 2008 From: farrlarr from isu.edu (Larry Farrell) Date: Mon Jun 9 11:33:00 2008 Subject: [Microbiology] Re: machine/database used to find out bacteria/virus/drug tia sal2 In-Reply-To: References: Message-ID: <8cd6f$484c637b$29693@news.teranews.com> sal2 wrote: > Greetings All > > When doctors take samples of blood/urine to find out what bacteria/virus/ > drug they have. What type of machine is used to find out what type of > bacteria/virus/drug that is in their system? I'm trying to find out the > machine they use and the database they use to cross check bacteria/ > viruses/drugs against each other. > > tia sal2 A really basic issue, suggested by some of the other responses but not explicitly addressed, is that doctors do not do *any* of the identification, whether machinery is used or not. The samples taken, usually not by the doctor, are sent to the lab where technicians trained in identification techniques specific to identification of the types of organisms suspected (bacteria, viruses, fungi, etc.) do the actual work of identification. Doctors are trained to use that information for diagnosis, but they do not do identification. ** Posted from http://www.teranews.com ** From bactitech from nospamhortonsbay.com Sun Jun 8 19:30:55 2008 From: bactitech from nospamhortonsbay.com (JEDilworth) Date: Mon Jun 9 11:33:06 2008 Subject: [Microbiology] Re: machine/database used to find out bacteria/virus/drug tia sal2 References: <8cd6f$484c637b$29693@news.teranews.com> Message-ID: <3ZGdnfJ3rOJQ5NHVnZ2dnUVZ_r3inZ2d@buckeye-express.com> What Larry said is true. However, I must take issue with the word "technician." A technologist has more training than a technician: MT's (medical technologists) have a four year degree and/or a year of laboratory internship that covers all areas of the clinical laboratory. We then take a national registry examination. ASCP is the registry that the majority of techs in the U.S. have, although there are others. http://tinyurl.com/5k4uky - This is the ASCP site that shows the different levels of laboratory workers Most microbiology departments in the U.S. employ MT's as the work is considered complex. The level of complexity of lab work requires different levels of training. Physicians do NOT work in the lab, except on the TV series "House." Do not confuse TV with real life :-(. Judy Dilworth, M.T. (ASCP) Microbiology "Larry Farrell" wrote in message news:8cd6f$484c637b$29693@news.teranews.com... > > A really basic issue, suggested by some of the other responses but not > explicitly addressed, is that doctors do not do *any* of the > identification, whether machinery is used or not. The samples taken, > usually not by the doctor, are sent to the lab where technicians > trained in identification techniques specific to identification of the > types of organisms suspected (bacteria, viruses, fungi, etc.) do the > actual work of identification. Doctors are trained to use that > information for diagnosis, but they do not do identification. From farrlarr from isu.edu Sun Jun 8 21:47:53 2008 From: farrlarr from isu.edu (Larry Farrell) Date: Mon Jun 9 11:33:11 2008 Subject: [Microbiology] Re: machine/database used to find out bacteria/virus/drug tia sal2 In-Reply-To: <3ZGdnfJ3rOJQ5NHVnZ2dnUVZ_r3inZ2d@buckeye-express.com> References: <8cd6f$484c637b$29693@news.teranews.com> <3ZGdnfJ3rOJQ5NHVnZ2dnUVZ_r3inZ2d@buckeye-express.com> Message-ID: <6f1e2$484c99da$17542@news.teranews.com> JEDilworth wrote: > What Larry said is true. However, I must take issue with the word > "technician." A technologist has more training than a technician: MT's > (medical technologists) have a four year degree and/or a year of > laboratory internship that covers all areas of the clinical laboratory. > We then take a national registry examination. ASCP is the registry that > the majority of techs in the U.S. have, although there are others. > > http://tinyurl.com/5k4uky - This is the ASCP site that shows the > different levels of laboratory workers > > Most microbiology departments in the U.S. employ MT's as the work is > considered complex. The level of complexity of lab work requires > different levels of training. > > Physicians do NOT work in the lab, except on the TV series "House." Do > not confuse TV with real life :-(. > > Judy Dilworth, M.T. (ASCP) > Microbiology > > "Larry Farrell" wrote in message > news:8cd6f$484c637b$29693@news.teranews.com... >> >> A really basic issue, suggested by some of the other responses but not >> explicitly addressed, is that doctors do not do *any* of the >> identification, whether machinery is used or not. The samples taken, >> usually not by the doctor, are sent to the lab where technicians >> trained in identification techniques specific to identification of the >> types of organisms suspected (bacteria, viruses, fungi, etc.) do the >> actual work of identification. Doctors are trained to use that >> information for diagnosis, but they do not do identification. > Sorry, Judy, I should have paid more attention to what I was saying. Since I have just retired from 36 years of association with departments that have included Medical Technology programs (now a Clinical Laboratory Science program), I certainly know better! Mea culpa, mea culpa, mea maxima culpa. -- Larry D. Farrell, Ph.D. Professor Emeritus of Microbiology Idaho State University ** Posted from http://www.teranews.com ** From limbic_lesion from hotmail.com Tue Jun 10 18:24:46 2008 From: limbic_lesion from hotmail.com (N10) Date: Tue Jun 10 19:43:08 2008 Subject: [Microbiology] Re: machine/database used to find out bacteria/virus/drug tia sal2 References: <8cd6f$484c637b$29693@news.teranews.com> <3ZGdnfJ3rOJQ5NHVnZ2dnUVZ_r3inZ2d@buckeye-express.com> <6f1e2$484c99da$17542@news.teranews.com> Message-ID: "Larry Farrell" wrote in message news:6f1e2$484c99da$17542@news.teranews.com... > JEDilworth wrote: >> What Larry said is true. However, I must take issue with the word >> "technician." A technologist has more training than a technician: MT's >> (medical technologists) have a four year degree and/or a year of >> laboratory internship that covers all areas of the clinical laboratory. >> We then take a national registry examination. ASCP is the registry that >> the majority of techs in the U.S. have, although there are others. >> >> http://tinyurl.com/5k4uky - This is the ASCP site that shows the >> different levels of laboratory workers >> >> Most microbiology departments in the U.S. employ MT's as the work is >> considered complex. The level of complexity of lab work requires >> different levels of training. >> >> Physicians do NOT work in the lab, except on the TV series "House." Do >> not confuse TV with real life :-(. >> >> Judy Dilworth, M.T. (ASCP) >> Microbiology >> >> "Larry Farrell" wrote in message >> news:8cd6f$484c637b$29693@news.teranews.com... >>> >>> A really basic issue, suggested by some of the other responses but not >>> explicitly addressed, is that doctors do not do *any* of the >>> identification, whether machinery is used or not. The samples taken, >>> usually not by the doctor, are sent to the lab where technicians trained >>> in identification techniques specific to identification of the types of >>> organisms suspected (bacteria, viruses, fungi, etc.) do the actual work >>> of identification. Doctors are trained to use that information for >>> diagnosis, but they do not do identification. >> > > Sorry, Judy, I should have paid more attention to what I was saying. Since > I have just retired from 36 years of association with departments that > have included Medical Technology programs (now a Clinical Laboratory > Science program), I certainly know better! Mea culpa, mea culpa, mea > maxima culpa. > > -- > Larry D. Farrell, Ph.D. > Professor Emeritus of Microbiology > Idaho State University > ** Posted from http://www.teranews.com ** Congratulations on your retirement Dr Farrell. I hope it s a long and healthy one. I cant wait for mine :) N10 From farrlarr from isu.edu Tue Jun 10 21:15:09 2008 From: farrlarr from isu.edu (Larry Farrell) Date: Wed Jun 11 08:22:42 2008 Subject: [Microbiology] Re: machine/database used to find out bacteria/virus/drug tia sal2 In-Reply-To: References: <8cd6f$484c637b$29693@news.teranews.com> <3ZGdnfJ3rOJQ5NHVnZ2dnUVZ_r3inZ2d@buckeye-express.com> <6f1e2$484c99da$17542@news.teranews.com> Message-ID: <76a5e$484f35bc$23586@news.teranews.com> N10 wrote: > > Congratulations on your retirement Dr Farrell. I hope it s a long and > healthy one. I cant wait for mine :) > > N10 > > Thanks. I'm still waiting for it to kick in since we had the three grandchildren (3, 4 and 8 years old) full time for the past three weeks. Now that they are gone, maybe I can manage to take a nap whenever I feel like it. ** Posted from http://www.teranews.com ** From alexander.mueller from silantes.com Tue Jun 17 06:57:23 2008 From: alexander.mueller from silantes.com (Alexander Mueller) Date: Tue Jun 17 12:35:12 2008 Subject: [Microbiology] Fermentation Message-ID: <000001c8d071$4f875450$9b00a8c0@buchhaltung> Dear Albert Labossiere, referring to the text below I have several questions to you. Did you find out anything about LH Fermentaion/ Inceltech/ ICT then? Does it still exist? We intent to buy a used fermentor from LH series built up in 1993. We need to know if there is still a service for maintenance or if we can still get parts for that machine. Via the www I couldn?t find anything. Best regards, Alexander M?ller, Germany I have a number of questions relating to fermentation and fermentation hardware: 1. Is there a site dedicated to scientific fermentation issues and if so where is it? 2. There was a U.K. based fermentor manufacturer called LH Engineering and eventually known as LH Fermentation. Apparently LH was acquired by INCELTECH also known as ICT. Does ICT still exist? If so where is it and does it still support LH products? 3. Does anyone own an LH Fermentation 100 litre fermentor? If so: ? how old is it? ? is it still operational? ? how heavily has it been used? ? which control system does it have? ? what type of sterility problems have you had? ? what kinds of general maintenance problems have you had? ? how have you coped with the bearing housing/seal assembly maintenance and repair? ? are you interested in dialogue with other LH Fermentation 100 litre fermentor owners? I am responsible for the operation, maintenance and repair of a fermentation unit and I?m compiling a list of LH 100 litre fermentor users and issues. I am willing to share the users list with this or other pertinent groups. You may post your reply to this group or email me directly. ANYONE WHO EMAILS ME DIRECTLY SHOULD INDICATE IF THEY DO NOT WANT TO BE INCLUDED ON THE USERS LIST THAT I POST TO THIS OR OTHER GROUPS. Thanks in advance Albert Labossiere Alexander M?ller SILANTES GMBH Gollierstr. 70 C 80339 M?nchen phone: +49/89/500941-10 fax: +49/89/500941-29 From mirzaman2 from yahoo.com Fri Jun 27 18:36:08 2008 From: mirzaman2 from yahoo.com (mirzaman zamanzadeh) Date: Sat Jun 28 11:34:46 2008 Subject: [Microbiology] DAPI preparation Message-ID: <730902.14216.qm@web32008.mail.mud.yahoo.com> Hi, ? I got a 5-mg DAPI powder from Fluka and I want to prepare a DAPI solution?as follows: ? ? Stock Vol. Work Vol. ?g/mL mL ?g/mL mL 40 20 10 80 ? For taking powder, do I need to centrifuge the DAPI powder and then transfer it (5 mg) to a vial for making the stock solution. ? Thanks in advance, Mirzaman From limbic_lesion from hotmail.com Mon Jun 30 16:42:15 2008 From: limbic_lesion from hotmail.com (N10) Date: Mon Jun 30 18:01:58 2008 Subject: [Microbiology] Re: DAPI preparation References: Message-ID: Go ahead then N10 "mirzaman zamanzadeh" wrote in message news:mailman.583.1214670906.3533.microbio@net.bio.net... Hi, I got a 5-mg DAPI powder from Fluka and I want to prepare a DAPI solution as follows: Stock Vol. Work Vol. µg/mL mL µg/mL mL 40 20 10 80 For taking powder, do I need to centrifuge the DAPI powder and then transfer it (5 mg) to a vial for making the stock solution. Thanks in advance, Mirzaman