V.11; l.1, January 2009
MBP plans for 2009
Happy New Year to all subscribers to the Monthly Newsletter of the Mouse Biology Program (MBP) at the University of California, Davis. While 2009 promises to be challenging on many fronts, the MBP is adding and enhancing resources and services and make them available to assist you with your research, including…
---high-throughput gene targeting in our C57BL/6 ES cells
---faster cryopreservation and cryorecovery of mutant mouse lines
---improved genotyping and speed congenics services
---derivation of iPS cells from mutant mouse lines
---cryopreserved embryo shipping on ice instead of liquid nitrogen
---gene expression and transcriptome analysis of mutant mouse lines
---guaranteed germline transmission service (on select ES cell lines)
---new and unique mutant mouse lines from KOMP, EUCOMM, & MMRRC
---online informatics tool to find a mouse and all its data…anywhere!
---information on available rat models (see the end of this newsletter)
---and more!
As a subscriber, you’ll have monthly updates on these and other resources and services available to you from the UC Davis Mouse Biology Program.
KOMP in the blogosphere
The Knockout Mouse Program (KOMP) Repository is approaching 2 years of full operation, and we’d like to know what you’re thinking. The KOMP blog was created for the purpose of keeping the community informed of our progress and as a tool to encourage discussion and feedback from the users of the Repository. This blog gives you a chance to tell us how we can better serve your needs. We welcome your comments, suggestions, advice, and input on any aspect of our operations. We’ll report back and do our best to serve your needs…be a subscriber, and "blog" us, today!
Speed congenics just got "speedier"
We’ve been offering speed congenics for several years now, first using microsatellites and now single-nucleotide polymorphisms (SNPs). Our data over the last 2 years suggests we can achieve a congenic background in less than a year, thus saving not only valuable research time, but money. Staff in our Murine Targeted Genomics Laboratory (MGAL) will be happy to explain our speed congenics service, and how you can use it. Email or call (530-757-3353) them for help.
New MMRRC lines available
The Mutant Mouse Regional Resource Centers (MMRRC) consists of three collaborating facilities and one informatics unit functioning as a single, multi-site regional repository system for the preservation and distribution of mice and ES cell lines. Its purpose is to ensure the continued availability of scientifically valuable, genetically engineered mice for the scientific research community.
Fifteen mouse models were newly accepted into the MMRRC repository system and have now been made available for distribution upon request. Strain Detail Sheets for each of these strains can be accessed through the MMRRC\'s website, just follow the link to "Newly Available Strains".
MMRRC:030698, STOCK Tg(Igfbp5-EGFP)168Gsat
MMRRC:030699, STOCK Tg(Lhx4-EGFP)199Gsat
MMRRC:030700, STOCK Tg(Nog-EGFP)92Gsat
MMRRC:030701, STOCK Tg(A230065H16Rik-EGFP)49Gsat
MMRRC:030705, STOCK Tg(Lrig1-EGFP)321Gsat
MMRRC:030706, STOCK Tg(Lrp2-EGFP)334Gsat
MMRRC:030707, STOCK Tg(Sfrp5-EGFP)119Gsat
MMRRC:030708, STOCK Tg(Pde1c-cre)146Gsat
MMRRC:030709, STOCK Tg(Gabrr3-cre)112Gsat
MMRRC:030407, STOCK Plxna4<tm1Matl>
MMRRC:030409, B6.129P2-Robo2<tm1Mrt>
MMRRC:030702, STOCK Tg(Anxa2-EGFP)66Gsat
MMRRC:030703, STOCK Tg(Cisd1-EGFP)34Gsat
MMRRC:030704, STOCK Tg(Cplx3-EGFP)104Gsat
MMRRC:030294, C57BL/6-Tg(ACTB-mRFP,-IL8RA,-luc/EGFP)1Xxx
In addition, the following strains have also recently been accepted and will be available soon for distribution. However, by registering your interest in one or more of these strains, we will notify you when they become available so that you can have the opportunity to place an order. The average wait time for newly accepted strains is three to six months. To register interest, first find the strain that interests you on the MMRRC catalog search form and then click on the corresponding "Register Interest" button to complete the Strain Interest Form.
MMRRC:030740, B6.129S1-Rad51c<tm1.1Sks>
MMRRC:030741, B6.129S1-Rad51c<tm1Sks>
MMRRC:030742, C57BL/6J-Scn8a<m1Btlr>
MMRRC:030744, B6.129P2-Epha4<Gt(pGT1TM)38Wcs>
MMRRC:030745, B6.129P2-Gpc1<Gt(pGT1.8TM)1Wcs
MMRRC:030746, B6;129P2-Plxnb2<tm1Matl>
MMRRC:030747, B6.129P2-Robo1<tm1Matl> Robo2<tm1MR>
MMRRC:030748, B6.129P2-Sema4b<Gt(pGT1.8TM)1Wcs>
MMRRC:030749, B6;129P2-Unc5a<tm1Lhck>
MMRRC:030750, B6.129S4-Dnmt1<tm1Sjk>
MMRRC:030751, B6.129S6- Ptges2<tm1Bhk >
MMRRC:030752, HAFT-1
MMRRC:030753, C57BL/6J-Tlr7<rsq2>
MMRRC:030754, C57BL/6J-Tmprss6<m2Btlr>
MMRRC:030756, STOCK Slit3<tm1Dor> Slit1<tm1Matl>
MMRRC:030757, B6;129S-Inpp5k<tm1Brd>
MMRRC:030758, FVB/NJ-Tg(Cola1-tTA)139Niss
MMRRC:030759, B6.1219S1-Slit3<tm1.1Dor>
MMRRC:030769, LAFT-1
MMRRC:030801, STOCK Tg(Cic-EGFP)260Gsat
MMRRC:030802, STOCK Tg(Col6a1-EGFP)13Gsat
MMRRC:030803, STOCK Tg(Hcrtr1-EGFP)68Gsat
MMRRC:030804, STOCK Tg(Igsf9-EGFP)10Gsat
MMRRC:030805, STOCK Tg(Mfn1-EGFP)51Gsat
MMRRC:030806, STOCK Tg(Phox2a-EGFP)141Gsat
MMRRC:030807, STOCK Tg(Podxl2-EGFP)372Gsat
MMRRC:030808, STOCK Tg(Rel-EGFP)57Gsat
MMRRC:030809, STOCK Tg(Rif1-EGFP)17Gsat
MMRRC:030810, STOCK Tg(Srr-EGFP)355Gsat
MMRRC:030811, STOCK Tg(Wfs1-EGFP)128Gsat
MMRRC:030812, STOCK Tg(Wnt3-EGFP)111Gsat
MMRRC:030778, STOCK Tg(Drd1a-cre)217Gsat
MMRRC:030779, STOCK Tg(Drd1a-cre)266Gsat
MMRRC:030780, STOCK Tg(Ntsr1-cre)209Gsat
MMRRC:030781, STOCK Tg(Drd1a-cre)164Gsat
MMRRC:030782, STOCK Tg(Kera-cre)23Gsat
Finally, the MMRRC also archives and distributes collections of gene-trap ES cell clones from several programs, including BayGenomics, the Sanger Institute Gene Trap Resource (SIGTR), and the Soriano Collection. If you generate a mouse strain from an ES cell line that you obtained from the MMRRC, and can provide either a published paper (or in-press manuscript) or access to your phenotype data, then we please submit the strain to the MMRRC and we will guarantee acceptance of your strain at no charge to you. We will archive it and make it available for distribution to the scientific community.
If you have questions, please contact MMRRC Customer Service at:
* E-mail: service@mmrrc.org
* Phone: (207) 288-6009 (international) or (800) 910-2291 (North America)
MGI "Quick Search Tool"
A newly released version of the Quick Search Tool on the Mouse Genome Informatics (MGI) website provides users with easy entry into the database. This tool allows users to search using keywords, as well as accession identifiers or gene and allele symbols or names. Keywords or phrases entered trigger MGI searches of terms present in the Gene Ontology
(GO), Mammalian Phenotype (MP) Ontology, OMIM (Online Mendelian
Inheritance in Man), InterPro, PIRSF (Protein Information Resource
SuperFamily) and the Mouse Anatomical Dictionary. Matching genes and
vocabulary terms with annotations are returned in rank order. The Genome Features section of the search results links to MGI Gene Detail pages and to the vocabulary terms for each gene that matched your query. At the bottom of your search results page, you are given the option to Search MGI with Google. This search potentially will hit additional MGI data objects such as MGI Gene Detail pages, reference abstracts and the five online books. These results may vary at times, depending on when and how thoroughly Google searched MGI. Searching has never been easier! Please send questions and comments to User Support at mgi-help@informatics.jax.org.
RAT RESEARCH AND RESOURCE CENTER (RRRC)
The Rat Research and Resource Center (RRRC) is a NIH-funded repository for scientifically valuable rat models, hosted at the University of Missouri. Where mice not meet your needs, a good rat may be close at hand…here we highlight some of the strains available to researchers through the RRRC. Please visit the RRRC website at (www.nrrrc.missouri.edu) for a complete listing of available rat strains. For information about donating a valuable rat model, go to www.nrrrc.missouri.edu/SubmitProcess.asp. This month, the featured strains are represented in a collection of rat lines carrying single gene mutations that were created using Sleeping Beauty transposon mutagenesis (Lu et al. 2007 Mammalian Genome 18:338-346).
RRRC:0325 F344-Syne1Tn(sb-T2/Bart3)2.68Mcwi Syne1
RRRC:0326 F344-Rph3aTn(sb-T2/Bart3)2.104Mcwi Rph3a
RRRC:0329 F344-Cd226_predictedTn(sb-T2/Bart3)2.141Mcwi Cd226
RRRC:0331 F344-RGD1310030_predictedTn(sb-T2/Bart3)2.147Mcwi RGD1310030
RRRC:0334 F344-Lphn3Tn(sb-T2/Bart3)2.151Mcwi Lphn3
RRRC:0335 F344-LOC499903Tn(sb-T2/Bart3)2.162Mcwi.151Mcwi LOC499903
RRRC:0337 F344-Chsy1_predictedTn(sb-T2/Bart3)2.165Mcwi Chsy1_predicted
RRRC:0338 F344-LOC290071Tn(sb-T2/Bart3)2.170Mcwi LOC290071
RRRC:0342 F344-RGD1310753Tn(sb-T2Bart3)2.171Mcwi RGD1310753
RRRC:0343 F344-Nrg1Tn(sb-T2/Bart3)2.183Mcwi Nrg1
RRRC:0345 F344-BE329202Tn(sb-T2/Bart3)2.198Mcwi BE329202
RRRC:0346 F344-Kif16bTn(sb-T2/Bart3)2.200Mcwi Kif16b
RRRC:0347 F344-Ppapdc1aTn(sb-T2/Bart3)2.207Mcwi Ppapdc1a
RRRC:0348 F344-Kcnip4Tn(sb-T2/Bart3)2.225Mcwi Kcnip4
RRRC:0349 F344-RGD1309969Tn(sb-Bart3)2.228Mcwi RGD1309969
RRRC:0353 F344-Ppp2r2bTn(sb-T2/Bart3)2.239Mcwi Ppp2r2b
RRRC:0354 F344-Mgat4cTn(sb-Bart3)2.24Mcwi Mgat4c
RRRC:0355 F344-Immp1lTn(sb-T2-Bart3)2.246Mcwi Immp1l
RRRC:0356 F344-Ccdc85aTn(sb-T2/Bart3)2.248Mcwi Ccdc85a
RRRC:0357 F344-Rap1gds1Tn(sb-T2/Bart3)2.251Mcwi Rap1gds1
RRRC:0359 F344-Lrrc4cTn(sb-Bart3)2.254Mcwi Lrrc4c
RRRC:0360 F344-Lrrc7Tn(sb-T2/Bart3)2.253Mcwi Lrrc7
RRRC:0361 F344-BF522453Tn(sb-T2/Bart3)2.166Mcwi BF522453
RRRC:0362 F344-Lims1Tn(sb/Bart3)2.169Mcwi Lims1
For more information, go to www.nrrrc.missouri.edu
Comments, suggestions and ideas!
If you have any information you would like to share with other MBP participants, such as upcoming conferences, guest speakers, notices, etc., feel free to let us know about it and we’ll publish it here in the Monthly NewsLetter.
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That’s it for now. Remember, to reach the Mouse Biology Program for assistance or for more information, call (530) 754-MOUSE or e-mail to mbp@ucdavis.edu.
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