Mutation Generation & Detection

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The Mutation Generation and Detection Core (MGD) Facility specializes in providing custom TALEN and Crispr-Cas9 DNA nucleases to induce targeted mutations in a genomic region of your interest. TALEN and Crispr-Cas9 DNA nucleases are a cutting edge technology for performing reverse genetic studies in multiple model systems, including, but not limited to Zebrafish, Drosophila, C. elegans, Mouse, and mammalian tissue culture.

 

The MGD Core also offers services to identify induced mutations using High Resolution Melt Analysis (HRMA). Our support includes hardware, reagents, and expert advice for optimizing and performing HRMA for your gene of interest.  The MGD Core also offers Services for preforming custom HRMA analysis for mutation detection and genotyping.  Please contact the Director of the MGD Core for details on this service.

Mutation Generation and Detection Core Services and Rates

           (Bulk pricing does not apply to internal or external CIHD members)

 

CRISPR-Cas9 Services

 

CRISPR-Cas9 is a customizable system for assembling DNA nuclease that are RNA:Protein hybrids.  CRISPR-Cas9 is analogous to the TALEN DNA nuclease system and can be used to induce mutations at targeted regions in a model organism’s genome.  Targeting of a gene’s coding region using CRISPR-Cas9 leads to null mutations and loss of that genes function and allows investigation of that genes role in the normal biology of a model organism.  In addition to this basic “knockout” function CRISPR-Cas9 can be used to make small and large deletions of genomic regions and to increase the efficiency of incorporation of exogenous donor DNA (homology driven recombination).  Together these different uses of CRISPR-Cas9 can be utilized to knockout a gene, tag a gene, delete genomic regions of non-coding RNA, or delete regulatory regions of genes such as promoters and enhancers.

Our Core offers a full line of CRISPR-Cas9 services  and reagents to researchers, as well as help designing and implementing projects.  All projects start with the Core designing optimal CRISPR-Cas9 target sites for your model organism and delivery of sequence confirmed plasmids.  See the list below for a range of CRISPR-Cas9 services and pricing.  Also provided are links to order forms if you are interested in services.  For any questions and to submit order forms please contact the MGD Core at mutrus@genetics.utah.edu.

Utah Client CRISPR Request Form

Outside Utah Client CRISPR Request Form

CRISPR Order Directions

Pricing for our CRISPR Services
Custom CRISPR Services U of U Researchers External U of U Non-Profit Researchers CIHD Members External CIHD Members
1x CRISPR design & construction
(includes custom sgRNA and Cas9 plasmids)
$250 $375 $73.83 $110.75
2x CRISPR design & construction
(includes 2x custom sgRNA and Cas9 plasmids)
$480 $720 $147.66 $211.50

 

*Bulk Services are not available to CIHD members

 

Bulk Custom CRISPR Services U of U Researchers External U of U Non-Profit Researchers
3-4 CRISPR design & construction $231 $346
5-6 CRISPR design & construction $212 $318
7-8 CRISPR design & construction $194 $290
9-10 CRISPR design & construction $175 $262
11+ CRISPR design & construction $160 $240
TALEN Services

TALEN-300x100
TALENs are customized DNA nuclease proteins used to induce mutations at targeted regions in a model organism’s genome. Targeting of a gene’s coding region using TALEN proteins leads to null mutations and loss of that genes function and allows investigation of that genes role in the normal biology of a model organism. In addition to this basic “knockout” function TALENs can be used to make small and large deletions of genomic regions and to increase the efficiency of incorporation of exogenous donor DNA (homology driven recombination). Together these different uses of TALENs can be utilized to knockout a gene, tag a gene, delete genomic regions of non-coding RNA, or delete regulatory regions of genes such as promoters and enhancers.

Our Core offers a full line of TALEN services to researchers, as well as help designing and implementing projects. All projects start with the Core designing optimal TALEN target sites for your model organism and delivery of sequence confirmed plasmids expressing TALENs. See the links below for the range of TALEN services provided, directions for ordering, order forms, and pricing. For any questions please contact the Core at mutrus@genetics.utah.edu.

Pricing for Our TALEN Services
Custom TALEN Protein Services U of U researchers Outside U of U Non-Profit Researchers CIHD Members External CIHD Members
TALEN plasmid pair design & construction $750 $1,125 $218.23 $327.35
2x TALEN plasmid pair design & construction $1,400 $2,100 $436.46 $654.70

 

*Bulk Services are not available to CIHD members

 

Bulk TALEN Ordering Rates U of U Researchers Outside U of U Non-Profit Researchers
5 or more TALEN pair design & construction $675 $1,000
10 or more TALEN pair design & construction $650 $950
15 or more TALEN pair design & construction $625 $900
High Resolution Melt Analysis (HMRA)

High Resolution Melt Analysis is powerful assay for the detection of sequence alterations that is a closed-tube, high-throughput, and highly sensitive system that can detect a wide range of sequence changes including: insertions, deletion, and SNPs.  HRMA can be utilized to identify TALEN and Crispr-Cas induced mutations, for routine genotyping of model organism, or for SNP screening.

The Core provides all necessary knowledge, reagents, and equipment for designing, optimizing, running, and analyzing HRMA.  The Core has a bank of Eppendorf MasterCycler Pro S PCR machine open for use and an Idaho Technology LightScanner High Resolution Melt Analysis Machine available for use.  The Core also provides all the specialized reagents and materials necessary for preforming HRMA at a reduced cost to researchers (see link below).  Contact the Core with any questions atmutrus@genetics.utah.edu
HRMA consists of two simple steps:

1) PCR of a heterogenous genomic sample that results in the formation of Heteroduplexes and Homoduplexes (~70 minutes)

HRMA-duplexes-300x137

2) Melt Curve Analysis of those duplex species over a temperature gradient (~4-7 minutes) to identify samples with induced mutations by deflected melt curves

HRMA-melt-curve-300x125

HRMA has a lower detection level of 1.5% making identification of rare and mosaic induced mutations routine

Lef1-HRMA-Dil-melt-curves-300x112
Pricing for our HMRA Services
HRMA Services and Reagents U of U Researchers & CIHD Members External CIHD Members
Idaho Technology LightScanner Annual Access Fee $100 $100
HRMA PCR plates (10 pack) $42.60 $66.00
HRMCA PCR optical sealing films (10 pack) $12.30 $19.50
Idaho Technology LightScanner MasterMix 100 rxns $77 $115.50
Idaho Tecnology LightScanner MasterMix 500 rxns $385 $577.50
Mineral Oil (500mL bottle) $37.03 $55.55

The MGD Core exists to help researchers like you to further their science. If we could ask for a slight favor in return for that help we would greatly appreciate your help. The University of Utah determines the impact of individual Core’s on scientific research by how many papers mention the Core specifically in the Acknowledgements section.

 

If you have used any of the services or resources that the MGD Core provides (TALENs, Crispr, HMRA, or other) please add the following sentences to the Acknowledgements section of your paper:

 

Thank you to the University of Utah Mutation Generation and Detection Core.

T7 sgRNA construct

Perfect for making CRISRP sgRNA RNA for injection into embryos, transfection into cells, or for use in vitro.  Can be paired with commercially available Cas9 protein to produce a functional CRSIRP RNP (ribonucleoprotein) complex or with Cas9 mRNA. This construct can be linearized to produce dsDNA template for any RNA in vitro transcription kit.

t7crisprreagent

The following link is to a protocol on how to linearize the T7 Construct, how to make RNA in vitro, and how to purifiy that RNA. These protocols are only general guides.

 

Working With T7 CRISPR Construct

 

Transfection CRISPR Constructs

Perfect for transfection of the CRISPR-Cas9 system into cell lines using lipid reagents or electroporation. This Construct expresses both components of the CRISPR-Cas9 system, sgRNA and Cas9 protein, from one construct and comes in three different backbones:

  • Puromycin construct: contains a puromycin antibiotics selection gene attached to the Cas9 protein coding sequence via a 2A self-cleaving peptide sequence
  • transfectioncrisprreagentpuro
  • Blasticidin Transfection construct: contains a blasticidin antibiotics selection gene attached to the Cas9 protein coding sequence via a 2A self-cleaving peptide sequence
  • transfectioncrisprreagentblast
  • GFP Transfection construct: contains a GFP fluorescent reporter gene attached to the Cas9 protein coding sequence via a 2A self-cleaving peptide sequence
  • transfectioncrisprreagentgfp
  • mCherry Transfection construct: contains a mCherry fluorescent reporter gene attached to the Cas9 protein coding sequence via a 2A self-cleaving peptide sequence
  • transfectioncrisprreagentcherry
  • Standard Transfection construct: does not contain either a selection or a reporter gene

transfectioncrisprreagent

Lentiviral CRISPR Constructs

            Perfect for making virus particles for the transduction/infection of the CRISPR-Cas9 system into cell lines or primary cells. Transduction is used to achieve very high rates of expression per population, to infect hard to transfect cell lines, or to infect primary cells including primary T cells, hematopoietic stem cells, stem cells, iPSC, and others

These Constructs can be used in two ways

  • Can be transfected into cells using standard methods to validate that the CRISPR-Cas9 components are functional
  • After or before #1 these Constructs can be used to make lentiviral particles for transduction/infection of cells with the CRISPR-Cas9 components

These constructs come in four different backbones

  • Puromycin Lentiviral Construct: contains a puromycin antibiotics selection gene attached to the Cas9 protein coding sequence via a 2A self-cleaving peptide sequence
  • lentiviral-crispr-construct-puro
  • Blasticidin Lentiviral Construct: contains a blasticidin antibiotics selection gene attached to the Cas9 protein coding sequence via a 2A self-cleaving peptide sequence
  • lentiviral-crispr-construct-blast
  • GFP Lentiviral Construct: contains a GFP fluorescent reporter gene attached to the Cas9 protein coding sequence via a 2A self-cleaving peptide sequence
  • lentiviral-crispr-construct-gfp
  • mCherry Lentiviral Construct: comtains a mCherry fluorescent reporter gene attached to the Cas9 protein coding sequence via a 2A self-cleaving peptide sequence

lentiviral-crispr-construct-cherry

Viral accessory and envelope constructs available upon request.

Engineered DNA Nucleases systems, TALEN and CRISPR-Cas9 (ZFNs before them), have allowed certain specific experimental questions to be answered using Model Organisms or Vectors where this was not possible before.  The basic thing to remember is if there is an embryo or cell that you can inject with mRNA/DNA or transfect plasmids into expressing an Engineered DNA nuclease then you can do any of the techniques mention on our website: targeted mutagenesis, deletion, tagging, etc.  Engineered DNA nuclease have been successfully used to alter a genomic locus in 13 different invertebrate models organisms, 13 different vertebrate models organisms, and 12 different plant species Organisms List.  Below is a listing of the Model Organisms for which our Core has produced successful DNA nucleases along links to papers for examples.

For our whole list of MGD Core publications, please click here.

Mouse and Human Cells

PLoS One Human Cells

Hours of Operation

Monday-Friday 9am-7pm

Location

Room 7470 Eccles Institute of Human Genetics, Bldg. 533
15 North 2030 East
Salt Lake City, UT 84112

Staff
Tim_203x235

Timothy J. Dahlem Ph.D., Director
mutrus@genetics.utah.edu
801-585-0662

Oversight Committee

David J. Grunwald, Department of Human Genetics (Senior Faculty Advisor)
Dana Carroll, Department of Biochemistry
Ryan M. O’Connell, Department of Pathology
Charles L. Murtaugh, Department of Human Genetics

Friday September 9

Special Seminar Announcement

 

9-10 AM, 2nd Floor Conference Room, Dumke Bldg

 

“Using Crispr-Cas9 Engineered Nucleases in rodent model organisms.”

 

Dr. Timothy J. Dahlem

Director of the Mutation Generation and Detection Core

 

The MGD Core will be presenting a seminar at the weekly Renal Division Research Conference on applying the CRISPR-Cas9 gene editing system to rodent model organisms. This seminar will include a brief history and description of the CRISPR-Cas9 system, how it is used in rodent model organisms, and real life assessment of the efficiency and usefulness of the system to achieve varying experimental goals.

The Mutation Generation and Detection Core guarantees delivery of sequence confirmed plasmids to express TALEN or CRISPR-Cas9 DNA nucleases or delivery of plasmids for the expression of TALE activator or repression proteins.  However, we cannot and do not guarantee that these delivered plasmids will lead to the recovery of somatic or germ line mutations at your targeted genomic locus or will cause activation/repression of your gene of interest.

 

The MGD Core will do everything reasonably possible to assist you throughout the process.  Our main goal has always been to support scientist and help further their research.  If the plasmids provided by the MGD Core do not produce the expected affect please contact the MGD Core as we have protocols in place to deal with these specific situations.

 

As of May 2016 ~80% of the TALEN and Crispr constructs the MGD Core has made and delivered to researchers have confirm activity at the targeted locus.