03. D - Mouse Nomenclature

Lab code "Riid" stands for?

USAMRIID

Lab code "Hsd" stands for?

Envigo

Lab code "J" stands for?

The Jackson Laboratory

Lab code "Crl" stands for?

Charles River

Lab code "N" stands for?

NIH

Lab code "Tac" stands for?

Taconic

Strain Abbreviations - "129"

129 strains

Strain Abbreviations - "A"

A strains

Strain Abbreviations - "AK"

AKR strains

Strain Abbreviations - "B"

C57BL

Strain Abbreviations - "B6J"

C57BL/6J substrains

Strain Abbreviations - "B10"

C57BL/10 strains

Strain Abbreviations - "C"

BALB/c strains

Strain Abbreviations - "C3"

C3H strains

Strain Abbreviations - "CBA"

CBA strains

Strain Abbreviations - "J"

SJL

Strain Abbreviations - "SW"

SWR

Strain Abbreviations - "D1", "D2"

DBA/1 strains

DBA/2 strains

Symbols -"/ "

Inbred Strain

Symbols -":"

Outbred Stock

Stock of breeding mice in a closed colony (cc) that has been established for at least 4 generations with <1% inbreeding. Stocks are genetically heterozygous and maintained by outcrossing.

Stocks are normally maintained in a closed colony. Colony has been established for at least _____ with _____% inbreeding

4

<1%

Stocks are genetically _____ and maintained by _____

heterozygous, outcrossing

Symbols -"- "

Coisogenic

Or simply a genetic mutation

Except for AILs

Symbols -"."

Congenic

gene of interest and flanking DNA

Symbols -"Chr"

Consomic

Symbols -"Mt"

Conplastic

Symbols -";"

Incipient congenic

Symbols -"Tg"

Transgenic

Symbols -"Tm"

Targeted mutation

Lab Code:Stock

Outbred

Tac:NIH Swiss

Crl:CD1

Hsd:ICR

Strain Name (normally begins with letter)

Inbred strain

What are common strain name rule breakers?

129

BALB/c

DBA/1

DBA/2

Original strain / Lab Code

substrain

Substrains differ by lab code

C57BL/6J

C57BL/6N

BALB/cByJ

What does this mean? C57BL/6J

C57BL/6 mouse from Jackson labs

FemaleStrain Malestrain F1/ Lab code

Hybrid F1

Femalestrain malestrain F#

intercross (breeding F1 offspring) - no longer identical

femalestrain(hybrid)

outcross or backcross, the hybrid is in the parenthesis

What does this mean? B6(D2B6F1)

backcrossed or outcrossed onto a B6 mouse

hybrid was DBA/2 female and B6 male of F1 generation

In Hybrid nomenclature, what strain goes first?

Dam (ladies first)

What does this mean? B6C3F1

Female c57BL/6, male C3H

What does this mean? D2B6F1

Female DBA/2, male C57BL/6

What does this mean? B6D2(F?+#)

Female c57BL/6, male DBA/2, The F generation is unknown, but a certain # of recent inbreeding generations is known

[female strain] X [male strain] # / lab code

Recombinant Inbred

How is a recombinant inbred strain created?

Developed by single-pair random matings of mice from an F2 generation created by crossing mice of two inbred strains. Continue intercrossing to F20

What does this mean? BXD1/Ty

Female C57Bl/6 X Male DBA/1 / lab is Ty

[Background strain] c [donor strain] #

Recombinant Congenic

How is a recombinant congenic strain created?

Similar to RI, but one or more backcrosses to one parental strain are made after the F1 generation, before inbreeding begins

[Host/recipient] ; [Donor] – ES targeted mutation

Incipient inbred stock or strain

How is an incipient inbred strain created

Designation for a combination of up to three stocks or strains that are in the process of becoming an inbred strain but are still < 20 generations of brother x sister mating.

What does this mean? B6;129-"gene"

B6 receives from 129 for "gene"

Lab Code:[Strain],[Strain]-Generation#

Advanced Intercross Lines

How is an advanced intercross line created?

Produce an F2 generation between two inbred strains, then intercrossing mice in each subsequent generation but avoiding sibling matings (to increase possibility of tightly linked genes recombining)

What does this mean? Pri:B6,D2-G6

Lab code is Pri

strain 1 is B6

Strain 2 is DBA/2

Generation 6

Strain-gene

Coisogenic strain

What does this mean?

Min allele found in Apc gene was put into a C57Bl/6 mouse and the holding lab is jackson labs

How is a co-isogenic strain created?

Inbred strain that differs from the background strain by ONLY a single mutated gene. Coisogenic mutations arise on a single strain.

What does this mean? C3H/HeSn-ash/+

coisogenic segregating inbred mutant strain carrying the ashen (ash) mutation, which arose on C3H/HeSn

[Background/recipient strain] . [donor strain] - allele

congenic strain

How is a congenic strain created?

Short chromosomal segment of interest was transferred from another strain or stock from repeated backcrossing.

10 backcross generations required. Genetically similar to background strain.

Congenic nomenclature rule

Used to move a gene of interest and flanking DNA on to a different background (recipient) strain. Backcross for at least 10 generations (N10) while selecting for a particular marker.

What does this mean? B6.129

congenic strain

129 is donor strain

B6 is background strain

What does this mean? B6.AKR-H2^k

congenic strain

Recipient strain was B6

Donor strain was AKR

allele transferred was H2^k

How does "Speed Congenics" work?

Using marker assisted breeding (selecting the male offspring with the highest % of recipient SNPs) you can cut down the generational time to N5 backcrosses

[background/recipient strain] ; [donor strain] - allele

incipient congenic

What does it mean for a strain to be incipient congenic?

Backcrossing is incomplete and at the N5 generation

What does this mean? B6;129- Abc^tm1Zzz

incipient congenic

recipient strain is B6

donor strain is 129

allele is ABC^tm1Zzz

[Host strain] - Chr#^{donor strain}

Consomic strain

How is a consomic strain created?

Backcrossing to an inbred strain to transfer an entire chromosome onto the recipient background strain. Requires at least N10 backcrosses.

What does this mean? C57BL/6J - Chr 19^SPR

Consomic strain

Chromosome 19 from SPR donor strain has been transferred onto a C57Bl/6 mouse host strain

What does this mean? SHR-Chr Y^YNB

Consomic strain

The Y Chromosome from a Brown Norway rat has been backcrossed onto a Spontaneously hypertensive rat host.

conplastic strain

[Male strain]-mt^{[female strain]}

How is a conplastic strain created?

Combining the nuclear genome of one (male) strain with the mitochondrial genome of another (female) strain. This is accomplished by either:

1) backcrossing (N10) with the mitochondrial donor always being the female parent

OR

2) by direct nuclear transfer into an enucleated embryo.

"Male" NUCLEAR genome of one inbred strain backcrossed to "female" CYTOPLASMIC genome of a different inbred strain

What does this mean? B6-mt^D1

B6 male recipient (nuclear genome)

D1 (DBA1) female donor (mitochondrial DNA)

What does this mean? C57BL/6J-mt^BALB/c

Male C57Bl/6J nuclear genome backcrossed onto female BALB/c cytoplasmic genome

[strain]^{allele or mutation}

Segregating inbred strain

What does a segregating inbred strain mean?

Inbred strains in which a particular allele or mutation is maintained in a heterozygous state. Maintain by inbreeding (20+ generations) with forced heterozygosity at each generation for locus of interest

Looks like a normal inbred strain but italicized allele or mutation

IDK looks alot like a coisogenic strain

Examples of segregating inbred strain

[Strain]TgX(YYY)###Zzz

Transgenic mutation

What do each of the letters mean in a Transgenic strain name? [Strain]TgX(YYY)###Zzz

[strain] - the strain

Tg - stands for transgene

X - mode of insertion (Can be N, R, or H)

(YYY) - inserted DNA

### - number assigned

Zzz - lab code

In a transgenic mouse what does the N in [Strain]TgN(YYY)###Zzz stand for?

nonhomologous insertion used to insert transgene

-(Microinjection, electroporation of DNA into zygotes) derived by insertions of DNA sequence by nonhomologous crossing-over events

In a transgenic mouse what does the R in [Strain]TgR(YYY)###Zzz stand for?

retroviral vector used to insert transgene

-Insertion via infection with a retroviral vector

In a transgenic mouse what does the H in [Strain]TgH(YYY)###Zzz stand for?

homologous recombination used to insert transgene

-Derived from ES cells by introduction of DNA followed by recombination with the homologous sequence

Mouse gene symbols (YYY):

Italicized, First Letter Capitalized

Mousegene

Human gene symbols (YYY):

ITALICIZED, ALL CAPS [GAS]

HUMANGENE

Mouse and Human protein symbols (YYY):

NOT ITALICIZED, ALL CAPS

MOUSEORHUMANPROTEIN

Mouse allele symbols (YYY):

italicized, superscripted

Dominant alleles are capitalized

Recessive alleles are lowercase

Spontaneous mutation symbols (YYY):

Allele initially identified based on phenotype (db)

Once gene is identified, then allele symbol is superscripted to identified gene symbol (Lepr^db)

Spontaneous means? non targeted mutation means?

spontaneous - devloped in nature

non targeted - use of a mutagen (UV light or ENU, etc.)

[Background strain] - Gene^{allele/lab code}

Spontaneous or non targeted mutation

What does this tell you?

The Min phenotype was found to be apart of the APC gene and was put into the C57/Bl6 strain and is held by the jackson laboratory

[Background strain] - Gene^{tmAllele#creating lab code} /holding lab code

Targeted mutation

What does this tell you?

allele #1 was targeted mutationed and found in the APOE gene and placed onto a STOCK, it was created by Unc and is held by jackson labs

What changes if the targeted mutation was a knock out?

Strain or Stock -Gene (tm#^LabCode)

What changes if the targeted mutation was a knock in?

Strain or Stock -Gene(tm#(Insertion)^LabCode)

[Background strain] - Gene^{emAllele#creating lab code} /holding lab code

endonuclease mediated mutation

What does this tell you?

Alle # 2 was was endonuclease mediated mutated and found in the Arid1b gene and placed onto a C57Bl/6 background strain, it was created by the Hzhu lab and is held by jackson laboratories

[Background strain]-Tg(Promotor-Gene) FounderLine Creating Labcode / Holding labcode

Transgenic (from another species) strain

-usually a human gene into a rodent model

-human genes/promotors are in ALL CAPS

Background strain is FVB/N

Trangenic

Promotor Ins1

Gene GAS

Founder line 1

Creator labcode Sbr

Holding labcode jackson labs

What does this mean?

Diversity Outbred

J:DO

Mice designed to be as genetically diverse as possible to mimic the human population.

lab code: nomenclature symbol