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Biology 2250 Principles of Genetics. Announcements Lab 4 Information: B2250 (Innes) webpage download and print before lab. Virtual fly: log in and practice http://biologylab.awlonline.com/. B2250 Readings and Problems. Ch. 4 p. 100 – 112 Prob: 10, 11, 12, 18, 19 - PowerPoint PPT Presentation
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Biology 2250Biology 2250Principles of GeneticsPrinciples of Genetics
AnnouncementsAnnouncements
Lab 4 Information: B2250 (Innes) webpageLab 4 Information: B2250 (Innes) webpage download and print before lab.download and print before lab.
Virtual fly: log in and practiceVirtual fly: log in and practice http://biologylab.awlonline.com/http://biologylab.awlonline.com/
B2250B2250Readings and ProblemsReadings and Problems
Ch. 4 p. 100 – 112 Prob: 10, 11, 12, 18, 19Ch. 4 p. 100 – 112 Prob: 10, 11, 12, 18, 19Ch. 5 p. 118 – 129 Prob: 1 – 3, 5, 6, 7, 8, 9Ch. 5 p. 118 – 129 Prob: 1 – 3, 5, 6, 7, 8, 9Ch. 6 p. 148 – 165 Prob: 1, 2, 3, 10Ch. 6 p. 148 – 165 Prob: 1, 2, 3, 10Ch. 7 p. 188 – 191 (Bacterial conjugation)Ch. 7 p. 188 – 191 (Bacterial conjugation)
Weekly Online QuizzesWeekly Online Quizzes
Marks Marks Oct. 14 - Oct. 25 Example Quiz 2** Oct. 14 - Oct. 25 Example Quiz 2** for logging in for logging in
Oct. 21- Oct. 25 Quiz 1 2Oct. 21- Oct. 25 Quiz 1 2Oct. 28 – Oct. 31 Quiz 2 2Oct. 28 – Oct. 31 Quiz 2 2Nov. 4 – Nov. 7 Quiz 3 2Nov. 4 – Nov. 7 Quiz 3 2Nov. 10 Quiz 4 2Nov. 10 Quiz 4 2
(Midterm 2 Thursday Nov. 17)(Midterm 2 Thursday Nov. 17)
Questions for practiceQuestions for practice1. Gene A and gene B are linked. A test cross produces 10 AaBb 1. Gene A and gene B are linked. A test cross produces 10 AaBb
progeny out of a total of 100. The estimated map distance progeny out of a total of 100. The estimated map distance between gene A and B is: a. 10 b. 20 c. 30 d. 40 e. 50between gene A and B is: a. 10 b. 20 c. 30 d. 40 e. 50
2. For the pedigree, indicate the most probably mode of inheritance 2. For the pedigree, indicate the most probably mode of inheritance for the rare trait. for the rare trait.
3. For the pedigree, what is the probability that the indicated female 3. For the pedigree, what is the probability that the indicated female will produce an affected child? will produce an affected child?
ExampleExample
Test CrossTest Cross AaBb X aabb AaBb X aabb
ab Exp. Obs.ab Exp. Obs. AB AaBb 25 10 AB AaBb 25 10 RR Ab Aabb 25 40 Ab Aabb 25 40 P P aB aaBb 25 40 aB aaBb 25 40 PP ab aabb 25 10 ab aabb 25 10 RR 100 100100 100
How to distinguish:How to distinguish:ParentalParental high freq. high freq.
RecombinantRecombinant low freq. low freq.
Quiz – 2 answersQuiz – 2 answers
http://http://webctwebct..munmun.ca:8900/.ca:8900/
Mendelian GeneticsMendelian Genetics
Topics:Topics: -Transmission of DNA during cell division-Transmission of DNA during cell division
Mitosis and MeiosisMitosis and Meiosis - Segregation - Segregation - Sex linkage (- Sex linkage (problem: how to get a white-eyed femaleproblem: how to get a white-eyed female))
- Inheritance and probability- Inheritance and probability - Independent Assortment- Independent Assortment - Mendelian genetics in humans- Mendelian genetics in humans
- Linkage- Linkage
- Gene mapping- Gene mapping
-Gene mapping in other organismsGene mapping in other organisms (fungi, bacteria)(fungi, bacteria)- Extensions to Mendelian Genetics- Extensions to Mendelian Genetics- Gene mutation- Gene mutation- Chromosome mutation- Chromosome mutation- Quantitative and population genetics- Quantitative and population genetics
Linkage MapsLinkage Maps
Useful:Useful: - studying recombination (variation)- studying recombination (variation) - study the structure of the genome- study the structure of the genome - study gene interaction (cis, trans)- study gene interaction (cis, trans) - diagnosis (marker gene linked to disease gene)- diagnosis (marker gene linked to disease gene) - constructing particular genetic combinations- constructing particular genetic combinations
Linkage MapsLinkage Maps
Mapping two genes:Mapping two genes:Test cross: AaBb x aabbTest cross: AaBb x aabb % RF = map distance% RF = map distance
3 point test cross:3 point test cross: - multiple crossovers undetected- multiple crossovers undetected - underestimate true map distance- underestimate true map distance
Gene MappingGene MappingRequirements:Requirements:
1. Genetic material from two different individuals1. Genetic material from two different individuals
2. Recombination2. Recombination
Examples: fungiExamples: fungi bacteriabacteria
Fungal GeneticsFungal Genetics
Fungi:Fungi: important organisms in the ecosystemimportant organisms in the ecosystem - decomposers- decomposers - pathogens- pathogens important for humansimportant for humans - food- food - pathogens- pathogens(Biology 4040 – Mycology)(Biology 4040 – Mycology)
Fun Facts About FungiFun Facts About Fungihttp://www.herbarium.usu.edu/fungi/funfacts/factindx.htm
FungiFungi
Neurospora crassaNeurospora crassa(bread mold)(bread mold)
Morphological mutantsMorphological mutants
Biochemical mutants (one gene, one enzyme)Biochemical mutants (one gene, one enzyme)
Linkage MapLinkage Map
Neurospora crassa Neurospora crassa Linkage group ILinkage group I
Fungus Life CycleFungus Life Cycle
vegetative stage haploidvegetative stage haploid +, - mating types+, - mating types brief diploid stage brief diploid stage meiosis meiosis
++
--
nn
nn2n2n
meiosismeiosis ++
--
nn
nn
sporesspores
Independent Assortment Independent Assortment Diploids Diploids Test CrossTest Cross
AaBb X AaBb X aabbaabb
gametes gametes abab 1/4 AB A1/4 AB AaaBBbb 1/4 Ab A1/4 Ab Aaabbbb 1/4 aB a1/4 aB aaaBBbb 1/4 ab a1/4 ab aaabbbb
4 phenotypes4 phenotypes
4 genotypes4 genotypes
Gamete PoolGamete PoolGametes: Products of many meiosesGametes: Products of many meioses all pooled togetherall pooled together A BA B a b AB AB ab ab AB aba b AB AB ab ab AB abP A BP A B ab ab AB ab ab ab AB ab AbAb AB AB GameteGameteP P a ba b AB AB aBaB ab ab AB AB ab ab AB AB poolpoolR R a Ba B ab AB AB ab ab AB AB abR R A bA b
Tetrad AnalysisTetrad Analysis
Some Fungi and algae: 4 products of a Some Fungi and algae: 4 products of a singlesingle meiosis can be recoveredmeiosis can be recoveredAdvantages:Advantages:1. haploid organism - no dominance1. haploid organism - no dominance2. examine a single meiosis - test cross not needed2. examine a single meiosis - test cross not needed3. small, easy to culture3. small, easy to culture4. Tetrad Analysis - map gene to centromere4. Tetrad Analysis - map gene to centromere
Ascus with ascosporesAscus with ascospores
Tetrad AnalysisTetrad AnalysisTypes of Tetrads:Types of Tetrads:1. Unordered - 4 products mixed together1. Unordered - 4 products mixed together2. Ordered (linear) - 4 products lined up, each2. Ordered (linear) - 4 products lined up, each haploid nucleus can be tracedhaploid nucleus can be traced back through meiosisback through meiosis3. Octads - mitotic division after meiosis3. Octads - mitotic division after meiosis 8 products (2 x 4)8 products (2 x 4)
**
Linear Linear Tetrad AnalysisTetrad AnalysisLife Cycle:Life Cycle:
aa
++
HaploidHaploid
aa
++
aa++
DiploidDiploid
4 4 haploid haploid productsproducts
aa
++
aa
++Mating: Mating: a x + a x + a /+ a /+
n n 2nn n 2n
+ = a+ = a++
MeiosisMeiosis
Linear Linear Tetrad AnalysisTetrad Analysis
8 h8 haploidaploid sporesspores
4 4 haploid haploid productsproducts
aa
aa++
aaaaaaaa
++++
mitosismitosis
(Octad)(Octad)
Linear Tetrad AnalysisLinear Tetrad Analysis
Two types of asci:Two types of asci:
1. no crossover----> first division segregation (M1. no crossover----> first division segregation (M II))
2. crossover between 2. crossover between gene and centromere-----> second division gene and centromere-----> second division segregation (Msegregation (MIIII))
Mapping gene to centromereMapping gene to centromere
aa++aa++
First DivisionFirst Divisionaaaaaaaa++++++++
No No CrossoverCrossover
First division segregationFirst division segregationAAAAAAAAaaaaaaaa
meiosis
Mapping gene to centromereMapping gene to centromere
aaaa++++
aaaa++++aaaa++++
Second divisionSecond division
crossovercrossover
Second division segregationSecond division segregationAAAAa**a**a**a**A**A**A**A**aaaa
** recombinant
11stst and 2 and 2ndnd Division segregation Division segregation
aa++aa++
First DivisionFirst Divisionaaaaaaaa++++++++
No No CrossoverCrossover
aaaa++++
aaaa++++aaaa++++
Second divisionSecond division
CrossoverCrossover
Mapping gene to centromereMapping gene to centromere
a + a + + aa + a + + a a + a + + aa + a + + a a + + a a +a + + a a + a + + a a +a + + a a + + a a + a ++ a a + a + + a a + a ++ a a + a + + a + a + a+ a + a + a + a + a + a+ a + a + a 43 43 3 4 3 4 Total = 10043 43 3 4 3 4 Total = 100I II
MMII = 86 = 86
MMIIII = 14 = 14
Mapping gene to centromereMapping gene to centromere
MMII = 86 M = 86 MIIII = 14 = 14
14/100 = 14 % of meioses showed a crossover14/100 = 14 % of meioses showed a crossover ½ ½ of the crossover products of the crossover products recombinantrecombinant
RF = RF = ½ ½ x 14 % = 7 % x 14 % = 7 % aa
7 m.u.7 m.u.
Tetrad AnalysisTetrad Analysis
Tetrads:Tetrads:
Ordered (linear)Ordered (linear):: map gene to centromere map gene to centromere
Sex in BacteriaSex in Bacteria
E. coliE. coli
Haploid
conjugation
Origin of Plasmid genes from Lactococcus lactis
Bacteria used to make cheese and yogurt
Plasmids: location of antibiotic resistant genes
Recombination in Bacteria and Recombination in Bacteria and virusesviruses
Human Health:Human Health: - antibiotic resistance- antibiotic resistance - new strains of bacterial and viral- new strains of bacterial and viral diseases (bird flu)diseases (bird flu) -horizontal gene transfer (between species)-horizontal gene transfer (between species)
Linkage: SummaryLinkage: Summary
• Recombination: generates new combinationsRecombination: generates new combinations (inter and intrachromosomal)(inter and intrachromosomal)• Genetic maps:Genetic maps: - genes linked on the same chromosome- genes linked on the same chromosome - location of new genes relative to genes - location of new genes relative to genes already mapped already mapped
Linkage: SummaryLinkage: Summary
• Hunting for genes (Human Diseases)Hunting for genes (Human Diseases) - genetic markers: DNA variation- genetic markers: DNA variation - co-inheritance with diseases using pedigree- co-inheritance with diseases using pedigree informationinformation - recombinants used to estimate linkage- recombinants used to estimate linkage
- MUN Medical Genetics- MUN Medical Genetics
Extensions to Mendelian Genetics Extensions to Mendelian Genetics Ch. 14 From Gene to PhenotypeCh. 14 From Gene to Phenotype
Readings: Ch. 14 p. 454 – 473 Readings: Ch. 14 p. 454 – 473 Problems: Ch. 14: 2, 3, 4, 5, 6, 7Problems: Ch. 14: 2, 3, 4, 5, 6, 7
Chapter 1 Chapter 1 Genes, environment, organism Genes, environment, organism
Phenotype =Phenotype = gene + env. + gene x env. + gene x gene gene + env. + gene x env. + gene x gene
Mendelian Genetics:Mendelian Genetics:
Genotype PhenotypeGenotype Phenotype Dominance ?Dominance ?
G x E interactionG x E interaction
Extensions to Mendelian Extensions to Mendelian Genetics Genetics
(Gene (Gene Phenotype) Phenotype)
1. Dominance1. Dominance2. Multiple alleles2. Multiple alleles3. Pleiotropy3. Pleiotropy44. Epistasis (gene interaction). Epistasis (gene interaction)55. Penetrance and expressivity. Penetrance and expressivity
Gene interactionGene interaction
1.1. Alleles at one gene DominanceAlleles at one gene Dominance
2.2. Different genes EpistasisDifferent genes Epistasis
1. Dominance1. Dominance
Location of heterozygote between Location of heterozygote between two two homozygoteshomozygotes
1. Complete1. Complete 2. No dominance 2. No dominance 3. Incomplete3. Incomplete (partial) (partial) 4. Codominance 4. Codominance
Homozygotes: AHomozygotes: A11AA1 1 AA22AA22 Heterozygote: Heterozygote: AA11AA22
Incomplete DominanceIncomplete Dominance
redred whitewhite
pinkpink
CodominanceCodominance
Human Blood Groups:Human Blood Groups:
Genotype PhenotypeGenotype Phenotype****
AA AAA A AB AB AB AB co-dominanceco-dominance
BB BBB B**** antigen protein on RBC antigen protein on RBC
CodominanceCodominance
Molecular MarkersMolecular Markers
AB AA BB BBAB AA BB BB
AA
BB
AlleleAllele
Heterozygote distinguished from homozygotesHeterozygote distinguished from homozygotes
2. Multiple Alleles2. Multiple Alleles(ABO Blood groups(ABO Blood groups - - 3 alleles3 alleles))
Genotype Genotype PhenotypePhenotype (6) (4)(6) (4)------------------------------------------------------------------------------------------ OO OOO O recessive recessiveAA, AO AAA, AO A dominant dominantBB, BO BBB, BO B dominant dominant AB ABAB AB co-dominant co-dominant------------------------------------------------------------------------------------------
Multiple alleles Multiple alleles in cloverin clover
Test for AllelismTest for AllelismPossibilities:Possibilities:
1. alleles for the same gene - all crosses show1. alleles for the same gene - all crosses show mendelian ratios (1:1 3:1 1:2:1)mendelian ratios (1:1 3:1 1:2:1)
2. more complex inheritance (> 1 gene)2. more complex inheritance (> 1 gene)
oror
Example: white, Example: white, yellowyellow, , pinkpink
Cross Cross F F11 F F22
white x white x yellowyellow yellowyellow 3:1 3:1 yellowyellow : white : whitewhite x white x pinkpink pink pink 3:1 3:1 pinkpink : white : whiteyellowyellow x x pinkpink pink pink 3:1 3:1 pinkpink : : yellowyellow
3 alleles: 3 alleles: w w y y pp 6 genotypes: 6 genotypes: w ww w y y y y p p p p p p w w yy w w y y pp
3. Pleiotropy3. Pleiotropy(one gene affects > 1 trait)(one gene affects > 1 trait)
Example: MouseExample: Mouse Gene affects:Gene affects: 1. coat colour (1. coat colour ( , , yellowyellow)) 2. survival2. survival
AAAA
Homozygous wildtypeHomozygous wildtype
dark
YellowYellowParentsParents
CrossesCrosses
A.A. x x -----> all-----> all
B.B. x x ---> ---> 1/21/2 1/ 1/22
C.C. x x ----> ----> 22//33 1/ 1/33
ExplanationExplanation
A. A. AA x AA all AAAA x AA all AA
B. B. AA x AA x AAYYA ½ A ½ AAYYA , ½ AAA , ½ AA
C. AC. AYYA x A x AAYYA ¼ AA ½ A ¼ AA ½ AAYYA ¼ A ¼ AAYYAAYY
diesdies 1 : 21 : 2
1/3 2/31/3 2/3
InterpretationInterpretation
Gene affects both coat colour andGene affects both coat colour and survivalsurvival
1. 1. AAYY dominantdominant to A for coat colour to A for coat colour
2. 2. AAYY recessiverecessive lethal for survival lethal for survival
PleiotropyPleiotropy
PhenotypePhenotype Genotype coat colour survivalGenotype coat colour survival
A A A A dark dark live live A A AAYY yellowyellow live live AAY Y AAYY ? die ? die
dark
PleiotropyPleiotropy Gene AGene A
Trait 1Trait 1
Trait 2Trait 2
EpistasisEpistasis Gene AGene A Trait Trait
Gene BGene B
G + E = PG + E = P
Gene interactionGene interaction
44. Epistasis. Epistasis(gene interaction)(gene interaction)
MMore than one gene affects a characterore than one gene affects a characterOOne gene pair masks or modifies the ne gene pair masks or modifies the expression of another gene pairexpression of another gene pair
AABB AABB xx aabb ----> AaBb aabb ----> AaBb x x AaBb ---> F AaBb ---> F22
FF11
DihybridDihybrid
FF22
AaBb x AaBbAaBb x AaBb
A- B- 9/16A- B- 9/16A- bb 3/16A- bb 3/16aa B- 3/16aa B- 3/16aa bb 1/16aa bb 1/16
4 distinct 4 distinct phenotypes (2 traits)phenotypes (2 traits)
(peas: shape, colour)(peas: shape, colour)
Epistasis:Epistasis: Gene A and Gene B interact Gene A and Gene B interact phenotype of 1 trait phenotype of 1 trait
Gene A and B Gene A and B unlinkedunlinked
EpistasisEpistasis(Bb(BbEeEe X Bb X BbEeEe))
Labrador retrieverLabrador retriever Coat Colour (B and Coat Colour (B and EE genes) genes)
FF22 Ratio Genotype Phenotype Ratio Ratio Genotype Phenotype Ratio
9/16 B- 9/16 B- EE- black 9/16- black 9/163/16 B- 3/16 B- eeee goldgold 4/164/163/16 bb 3/16 bb EE- brown 3/16- brown 3/161/16 bb 1/16 bb eeee goldgold Gene E allows colour depositionGene E allows colour deposition
1.1.
Allele Allele EE Allele B Allele B
GoldenGolden brown brown blackblack
B- B- eeee bb bb EE- B- - B- EE-- bb bb eeee
EpistasisEpistasis
EpistasisEpistasis(AaBb X AaBb)(AaBb X AaBb)
Example: Flower petal colourExample: Flower petal colour
FF22 Ratio Genotype Phenotype Ratio Ratio Genotype Phenotype Ratio
9/16 A- B- Purple 9/169/16 A- B- Purple 9/163/16 A- bb White 7/163/16 A- bb White 7/163/16 aa B- White 3/16 aa B- White 1/16 aa bb White1/16 aa bb White
2.2.
Gene B Gene AGene B Gene A
colourless colourless purplecolourless colourless purple(white) (white) (white) (white)
A-bb aaB- A- B-A-bb aaB- A- B-aabbaabb
5. Penetrance and Expressivity5. Penetrance and Expressivity
Phenotype:Phenotype: genotype, genetic background,genotype, genetic background, and environmentand environment
Variable ExpressionVariable Expression: Penetrance : Penetrance ExpressivityExpressivity
Penetrance:Penetrance:
percentage of individuals that show some percentage of individuals that show some degree of expression of a mutant genotypedegree of expression of a mutant genotype
Example: Polydactyly (P) Example: Polydactyly (P) extra digitsextra digits
pp Pp PPpp Pp PPnormal 10 % normal polydactylynormal 10 % normal polydactyly 90 % polydactyly90 % polydactyly
Expressivity: Expressivity: degree that a given genotype is expresseddegree that a given genotype is expressed phenotypically phenotypically
Example: Pp individuals which do expressExample: Pp individuals which do express the extra digitthe extra digitss can vary can vary
(a) extra digit on each hand and foot(a) extra digit on each hand and foot (b) extra digit on one hand only(b) extra digit on one hand only (c) complete digit or vestige(c) complete digit or vestige
Same genotype
Variable expressivity of piebald spotting in beagles
SummarySummary
- segregation and independent assortment- segregation and independent assortment can explain a variety of patterns ofcan explain a variety of patterns of genetic variationgenetic variation
- Phenotype = Genotype + EnvironmentPhenotype = Genotype + Environment
Genetic interaction: genotype, epistasis,Genetic interaction: genotype, epistasis, genetic backgroundgenetic background