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GENETICS 1.1

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Genetics  1.1  Michael  Deyholos  30  November,  2010    The   first   edition   of   this   book   was   produced   in   January,   2009   as  instructional   material   for   students   in   Biology   207   at   the   University   of  Alberta,   and   is   released   to   the   public   for   non-­‐commercial   use   under   the  Creative   Commons   License   (See   below).     Users   are   encouraged   to  make  modifications   and   improvements   to   the   book.       All   text   in   the   original  edition   was   written   by   Michael   Deyholos,   Ph.D.     Photos   and   some  diagrams  were  obtained  from  various,  non-­‐copyrighted  sources,  including  Flickr,   Wikipedia,   Public   Library   of   Science,   and   Wikimedia   Commons.    Photo  attributions  are  listed  at  the  end  of  the  book.      

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blending inheritance

Mendel

not

particulateinheritance

alleles

genes

Figure 1.1 Gregor Mendel

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Streptococcus pneumoniae

Griffith

Avery,MacLeod and McCarty

Figure 1.2 Inheritance of flower color in peas. Mendel observed that a cross between pure breeding,white and purple peas (generation P) produced only progeny (generation F1) with purple flowers. However, white flowered plant reappeared among the F2 generation progeny of a mating between two F1 plants. The symbols P, F1 and F2 are abbreviations for parental, first filial, and second filial generations, respectively.

Figure 1.3 Colonies of Rough (top) and Smooth (bottom) strains of S. pneumoniae.

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1 3

Hershey and Chase

Escherichia coli

E. coli

Figure 1.4 Experiments of Griffith and of Avery , MacLeod and McCarty. R strains of S. pneumoniae do not cause lethality. However, DNA-containing extracts from pathogenic S strains are sufficient to make R strains pathogenic.

Figure 1.5 Electronmicrograph of T2 bacteriophage on surface of E. coli

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Watson and Crick

Chargaff�’s Rules

Figure 1.6 When 32P-labeled phage infects E. coli, radioactivity is found only in the bacteria after the phage are removed by agitation and centrifugation. In contrast, after infection with 35S-labeled phage, radioactivity is found only in the supernatant that remains after the bacteria are removed.

Figure 1.7 DNA structure

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Central Dogma

Figure 1.8 Chemical structure of two pairs of nucleotides in a fragment of double-stranded DNA. Sugar, phosphate, and bases A,C,G,T are labeled. Hydrogen bonds between bases on opposite strands are shown by dashed lines. Note that the G-C pair has more hydrogen bonds than A-T. The numbering of carbons within sugars is indicated by red numbers. Based on this numbering the polarity of each strand is indicated by the labels 5�’ and 3�’.

Figure 1.9 Central Dogma of molecular biology

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c value

Table 1.1 Measures of genome size in selected organisms. The DNA content (1C) is shown in millions of basepairs (Mb). Average gene density is the mean number of non-coding bases (in bp) between genes in the genome. For eukaryotes, the chromosome number is the chromosomes counted in a gamete (1N) from each organism.

Saccharomyces cerevisiae

Caenorhabditis elegans

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Drosophila melanogaster

Mus musculus

Daniorerio

Arabidopsis thaliana

D. melanogaster

Figure 1.10 Some of the most important genetic model organisms in use today. Clockwise from top left: yeast, fruit fly, arabidopsis, mouse, roundworm, zebrafish.

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Saccharomyces cerevisiaeCaenorhabditis elegansDrosophila melanogasterMus musculusDanio rerioArabidopsis thalianaEscherichia coli

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1.7 a)

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Chromosomes contain genetic  information.   We often take this fact for granted,  but  just  over  a  century  ago,  even  the  best  biologists  in  the world were  uncertain  of  the  function  of  these  rod‐shaped  structures. We  now  know  that  most  chromosomes  contain  a  single  molecule  of double‐stranded  DNA  that  is  complexed  with  proteins.    This arrangement  allows  very  long DNA molecules  to  be  compacted  into  a small volume that can more easily be moved during mitosis and meiosis (Fig  2.1).  The  compact  structure  also  makes  it  easier  for  pairs  of chromosomes to align with each other during meiosis.  Finally, we shall see that chromosomal structure can affect whether genes are active or silent. 

CHROMOSOMES MAY BE LOOSE OR COMPACT If  stretched  to  its  full  length,  the  DNA molecule  of  the  largest  human chromosome  would  be  85mm.      Yet  during  mitosis  and meiosis,  this DNA  molecule  is  compacted  into  a  chromosome  approximately  5µm long.  Although this compaction makes it easier to transport DNA within a  dividing  cell,  it  also  makes  DNA  less  accessible  for  other  cellular functions  such  as  DNA  synthesis  and  transcription.      Thus, chromosomes vary  in how  tightly DNA  is packaged, depending on  the stage of  the cell  cycle and also depending on  the  level of gene activity required in any particular region of the chromosome.   

There  are  several  different  levels  of  structural  organization  in eukaryotic chromosomes, with each successive level contributing to the further  compaction  of  DNA  (Fig.  2.2).    For  more  loosely  compacted DNA,  only  the  first  few  levels  of  organization  may  apply.    Each  level involves  a  specific  set  of  proteins  that  associate  with  the  DNA  to 

Chapter 2 CHROMOSOMES, MITOSIS, AND MEIOSIS 

Figure 2.1 Moving chromosomes (blue) towards the poles at anaphase requires many proteins (red), all of which interact with microtubules (green).

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compact it.  First, proteins called the core histones act as spool around which DNA is coiled twice to  form a structure called the nucleosome.   Nucleosomes  are  formed  at  regular  intervals  along  the  DNA  strand, giving the molecule the appearance of “beads on a string”.   At the next level of organization, histone H1 helps to compact the DNA strand and its nucleosomes into a 30nm fibre.   Subsequent  levels of organization involve the addition of scaffold proteins that wind the 30nm fibre into coils, which are in turn wound around other scaffold proteins.  

 

 

Chromosomes  stain  very  intensely with  some  types  of  dyes, which  is how they got their name (chromosome means “colored body”).  Certain dyes  stain  some  regions  within  a  chromosome  more  intensely  that others,  giving  some chromosomes a banded appearance. The material that makes up chromosomes, which we now know  to be proteins and DNA,  is  called chromatin.    There  are  two general  types of  chromatin. Euchromatin is more loosely packed, and tends to contain more genes that are being transcribed, as compared to the more densely compacted heterochromatin  which  is  rich  in  short,  repetitive  sequences  called microsatellites.  

Chromosomes  also  contain  other  distinctive  features  such  as centromeres  and  telomeres.    Both  of  these  are  heterochromatic.    In most  cases,  each  chromosome  contains  one  centromere.    These sequences are bound by centromeric proteins that link the centromere to  microtubules  that  transport  chromosomes  during  cell  division.   Under  the  microscope,  centromeres  can  sometimes  appear  as constrictions in the body of the chromosome (Fig. 2.3). If a centromere is  located  near  the  middle  of  a  chromosome,  it  is  said  to  be metacentric, while an acrocentric centromere is closer to one end of a chromosome,  and  a  telocentric  chromsome  is  at  the  very  end.   More rarely,  in  a  holocentric  centromere,  no  single  centromere  can  be defined and the entire chromsome acts as the centromere.  Telomeres are repetitive sequences near the ends of linear chromosomes, and are important  in  maintaining  the  length  of  the  chromosomes  during replication,  and  protecting  the  ends  of  the  chromosomes  from alterations. 

Figure 2.2 Successive stages of chromosome compaction depend on the introduction of additional proteins.

Figure 2.3 A pair of metacentric chromosomes. The arrow shows a centromeric region.

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It  is  useful  to  describe  the  similarity  between  chromosomes  using appropriate terminology (Fig 2.4). Homologous chromosomes are typically pairs  of  similar,  but  non‐identical,  chromosomes  in which  one member  of the pair comes from the male parent, and the other comes from the female parent.    Homologs  contain  the  same  genes  but  not  necessarily  the  same alleles.   Non­homologous chromosomes contain different sets of genes, and may  or  may  not  be  distinguishable  based  on  cytological  features  such  as length and centromere position.  Within a chromosomes that has undergone replication, there are sister chromatids, which are physically connected to each other at the centromere and remain joined until cell division.  Because a  pair  of  sister  chromatids  is  produced  by  the  replication  of  a  single DNA molecule, their sequences are essentially identical.  On the other hand, non­sister chromatids come from two separate, but homologous chromosomes, and therefore usually contain the same genes in the same order, but do not necessarily have identical DNA sequences. 

 

 

  

 

 

 

 

 

Figure 2.4 Relationships between chromosomes and chromatids.

Figure 2.5 Top: FISH (Fluorescence in situ hybridization) labeling of all 24 different human chromosomes (1 - 22, X, and Y) in a fibroblast nucleus, each with a different combination of in total seven fluorochromes. Bottom: False color representation of all chromosome territories visible in this mid-section after computer classification.

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MITOSIS Cell division  is essential  to asexual reproduction and the development of multicellular organisms.  Accordingly, the primary function of mitosis is  to ensure  that each daughter cell  inherits  identical genetic material, i.e.  exactly  one  copy  of  each  chromosome.    To  make  this  happen, replicated  chromosomes  condense  (prophase),  and  are  positioned near  the middle of  the dividing cell  (metaphase),  and  then one sister chromatid from each chromosome migrates towards opposite poles of the  dividing  cell  (anaphase),  until  the  identical  sets  of  chromosomes are  completely  separated  from  each  other  within  the  newly  formed nuclei of each daughter cell (telophase) (see Figs. 2.5‐2.7 for diagrams of  the process).     This  is  followed by  the completion of  the division of the cytoplasm (cytokinesis). The movement of chromosomes  is aided by microtubules that attach to the chromosomes at centromere.    

 

 

MEIOSIS Meiosis, like mitosis, is also a necessary part of cell division.  However, in  meiosis  not  only  do  sister  chromatids  separate  from  each  other, homologous  chromosomes  also  separate  from each other.    This  extra, reductional step of meiosis is essential to sexual reproduction.  Without meiosis, the chromosome number would double in each generation of a species and would quickly become too large to be viable.     

Meiosis is divided into two stages designated by the roman numerals I and II.  Meiosis I is called a reductional division, because it reduces the number  of  chromosomes  inherited  by  each  of  the  daughter  cells.  Meiosis  I  is  further  divided  into  Prophase  I, Metaphase  I,  Anaphase  I, and Telophase I, which are roughly similar to the corresponding stages of  mitosis,  except  that  in  Prophase  I  and  Metaphase  I,  homologous chromosomes  pair  with  each  other  in  transient  structures  called bivalents  (Figs.  2.7,  2.8).    This  is  an  important  difference  between mitosis  and meiosis,  because  it  affects  the  segregation  of  alleles,  and also  allows  for  recombination  to  occur  through  crossing‐over,  as described later in the course.   During Anaphase I, one member of each pair  of  homologous  chromosomes  migrates  into  a  daughter  cell.  Meiosis II  is essentially the same as mitosis, with one sister chromatid from  each  chromosome  separating  to  produce  two  identical  cells.  Because  Meiosis  II,  like  mitosis,  results  in  products  that  contain identical sequences, Meiosis II is called an equational division. 

Figure 2.6 Mitosis in arabidopsis showing fluorescently labeled chromosomes (blue) and microtubules (green) at metaphase, anaphase and telophase (from left to right).

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Figure 2.7 Mitosis and meiosis. Note the similarities and differences between metaphase in mitosis and metaphase I and II of meiosis.

Figure 2.8 Meiosis in Arabidopsis (n=5). Panels A-C show different stages of prophase I, each with an increasing degree of chromosome condensation. Subsequent phases are shown: metaphase I (D), telophase I (E), metaphase II (F), anaphase II (G), and telophase II (H).

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THE CELL CYCLE AND CHANGES IN DNA CONTENT 

The life cycle of an eukaryotic cell can generally be divided into at least four stages (Fig. 2.9).   When a cell  is produced through fertilization or cell division,  there  is usually a  lag before  it undergoes DNA synthesis.  This lag period is called Gap 1 (G1), and ends with the onset of the DNA synthesis  (S)  phase,  during  which  each  chromosome  is  replicated.  Following  replication,  there  may  be  another  lag,  called  Gap  2  (G2), before mitosis (M).   Cells undergoing meiosis do not usually have a G2 phase.      Interphase  is  as  term  used  to  describe  all  phases  of  the  cell cycle excluding mitosis or meiosis. A  typical cell cycle  is shown  in Fig. 2.9.    My  variants  of  this  generalized  cell  cycle  also  exist.    Some  cells never  leave G1 phase, and are said  to enter a permanent, non‐dividing stage called G0.  On the other hand, some cells undergo many rounds of DNA  synthesis  (S)  without  any  mitosis  or  cell  division.    These endoreduplicated  cells  are  described  later  in  this  chapter.  Understanding the control of the cell cycle is an active area of research, particularly  because  of  the  relationship  between  cell  division  and cancer. 

The  amount  of  DNA  within  a  cell  changes  following  each  of  the following events: fertilization, DNA synthesis, mitosis, and meiosis (Fig 2.10).   We  use  “c”  to  represent  the  DNA  content  in  a  cell,  and  “n”  to represent  the number of  complete  sets of  chromosomes.    In a  gamete (i.e.  sperm  or  egg),  the  amount  of  DNA  is  1c,  and  the  number  of chromosomes  is 1n.   Upon  fertilization, both  the DNA content and  the number of chromosomes doubles to 2c and 2n, respectively.   Following DNA  synthesis,  the DNA  content doubles  again  to 4c,  but  each pair  of sister  chromatids  is  still  counted  as  a  single  chromosome,  so  the number  of  chromosomes  remains  unchanged  at  2n.    If  the  cell undergoes mitosis, each daughter cell will be 2c and 2n, because it will receive half of  the DNA, and one of  each pair of  sister  chromatids.    In 

Figure 2.9 A typical eukaryotic cell cycle.

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contrast, the cells that are produced from the meiosis of a 2n, 4c cell are 1c  and  1n,  since  each  pair  of  sister  chromatids,  and  each  pair  of homologous chromosomes divides during meiosis. 

 

 

 

 

Figure 2.10 Changes in DNA and chromosome content during the cell cycle. For simplicity, nuclear membranes are not shown, and all chromosomes are represented in a similar stage of condensation.

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KARYOTYPES SHOW CHROMOSOME NUMBER AND STRUCTURE Each eukaryotic species has  its  total nuclear genome divided among a number  of  chromosomes  that  is  characteristic  of  that  species.    For example, a haploid human nucleus (i.e. sperm or egg) normally has 23 chromosomes  (n=23),  and  a  diploid  human  nucleus  has  23  pairs  of chromosomes  (2n=46).    Various  stains  and  fluorescent  dyes  produce characteristic banding patterns on some chromosomes.  This can make it  easier  to  identify  specific  chromosomes.    The  number  of chromosomes varies between species (see Table 1.1), but there appears to  be  very  little  correlation  between  chromosome  number  and  either the complexity of an organism or its total amount genomic DNA.   

 

 

A karyotype shows the complete set of chromosomes of an individual (Fig.  2.11).  Analysis  of  karyotypes  can  identify  of  chromosomal abnormalities,  including  aneuploidy,  which  is  the  addition  or subtraction  of  a  chromosome  from  a  pair  of  homologs.    More specifically,  the  absence  of  one  member  of  a  pair  of  homologous chromosomes  is  called monosomy.   On  the other hand,  in  a  trisomy, there are three, rather than two homologs of a particular chromosome.   Different types of aneuploidy are sometimes represented symbolically; if  2n symbolizes the normal number of chromosomes in a cell, then 2n­1 indicates monosomy and 2n+1 represents trisomy.   

The most familiar human aneuploidy is trisomy‐21 (i.e. three copies of chromosome 21), which is one cause of Down’s syndrome.   Most (but not  all)  other  human  aneuploidies  are  lethal  at  an  early  stage  of 

Figure 2.11 Karyotype of a normal human male

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embryonic development.  Note that aneuploidy usually affects only one set  of  homologs  within  a  karyotype,  and  is  therefore  distinct  from polyploidy,  in  which  the  entire  karyotype  is  duplicated  (see  below).  Aneuploidy  is  almost  always  deleterious, whereas  polyploidy  appears to be beneficial in some organisms, particularly some species of plants. 

 

 

 

 

 

Structural defects in chromosomes are another type of abnormality that can  be  detected  in  karyotypes  (Fig  2.12).    These  defects  include deletions, duplications, and inversions, which all involve changes in a segment  of  a  single  chromosome.  Insertions  and  translocations involve two non‐homologous chromosomes.  In an insertion, DNA from one chromosome  is unidirectional, while  in  translocation,  the  transfer of  chromosomal  segments  is  bidirectional.      Structural  defects  affect only  part  of  a  chromosome,  and  so  tend  to  be  less  harmful  than aneuploidy.  In  fact,  there  are many examples of  ancient  chromosomal rearrangements  in  the  genomes  of  species  including  our  own.  Duplications of  some small  chromosomal  segments,  in particular, may have  some  evolutionary  advantage  by  providing  extra  copies  of  some genes, which can then evolve in new ways. 

Chromosomal  abnormalities  arise  in  many  different  ways.    Many  of these  can  be  traced  to  rare  errors  in  natural  cellular  processes. Non­disjunction  is  the  failure  of  at  least  one  pair  of  chromosomes  or chromatids  to  separate  during  mitosis  or  meiosis.    Chromosome breakage  also  occurs  infrequently  as  the  result  of  physical  damage (such as radiation), movement of some types of transposons, and other factors.    During  the  repair  of  a  broken  chromosome,  deletions, insertions, translocations and even inversions can be introduced.     

 

Figure 2.12 Structural abberations in chromosomes.

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POLYPLOIDY Humans,  like  most  animals  and  all  of  the  eukaryotic  genetic  model organisms in wide use, are diploid.  This means that most of their cells have  two homologous  copies of  each  chromosome.    In  contrast, many plant  species  and  even  a  few  animal  species  are  polyploids.    This means there are more than two homologs of each chromosome in each  cell.   

When describing polyploids, we use the letter “x” to define the level of ploidy.    A  diploid  is  2x,  because  there  are  two  basic  sets  of chromosomes, and a tetraploid is 4x, because it contains four copies of each chromosome.  For clarity when discussing polyploids,   geneticists will  often  combine  the  “x”  notation  with  the  “n”  notation  already defined  previously  in  this  chapter.    Thus  for  both  diploids  and polyploids, “n” is the number of chromosomes in a gamete, and “2n” is the  number  of  chromosomes  following  fertilization.    For  a  diploid, therefore, n=x, and 2n=2x.  For a tetraploid, n=2x, and 2n=4x.  

Like diploids (2n=2x), stable polyploids generally have an even number of  copies of each chromosome:  tetraploid  (2n=4x), hexaploid  (2n=6x), and so on.  The reason for this is clear from a consideration of meiosis.  Remembering  that  the purpose of meiosis  is  to  reduce  the sum of  the genetic material by half, meiosis can equally divide an even number of chromosome  sets,  but  not  an  odd  number.    Thus,  polyploids  with  an uneven  number  of  chromosomes  (e.g.  triploids,  2n=3x)  tend  to  be sterile, even if they are otherwise healthy.  The mechanism of meiosis in stable  polyploids  is  essentially  the  same  as  in  diploids:  during metaphase  I,  homologous  chromosomes  pair  with  each  other.  Depending on the species, all of the homologs may be aligned together at  metaphase,  or  in  multiple  separate  pairs.    For  example,  in  a tetraploid,  some  species  may  form  tetravalents  in  which  the  four homologs  from each  chromosome align  together,  or  alternatively,  two pairs  of  homologs  may  form  two  bivalents.  Note  that  because  that mitosis  does  not  involve  any  pairing  of  homologous  chromosomes, mitosis  is  equally  effective  in  diploids,  even‐number  polyploids,  and odd‐number polyploids.       

Triploidy  is  used  in  the  production  of  seedless  fruits,  such  as watermelon,  grapes  and  bananas.    All  of  the  tissues  of  these  fruit  are triploid.   Because almost all of the cells of the plant,  including its fruit, are produced through mitosis, the uneven number of chromosome sets does not affect their development.  However, cells that contribute to the production of gametes are produced through meiosis, and because the triploids are unable  to complete normal meioses,  their gametes  fail  to develop,  so  no  zygotes  are  formed,  and  the  seeds  (which  normally contain embryos that develop from the zygotes) are aborted.  

 

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If  triploids  cannot  make  seeds,  how  do  we obtain  enough  triploid  individuals  for cultivation?  The answer depends on the plant species  involved.  In  some  cases,  such  as banana,  it  is  possible  to  propagate  the  plant asexually;  new  progeny  can  simply  be  grown from  cuttings  from  a  triploid  plant.    On  the other hand, seeds for seedless watermelon are produced  sexually:  a  tetraploid  watermelon plant  is  crossed  with  a  diploid  watermelon plant.  Both the tetraploid and the diploid are fully  fertile,  and  produce  gametes  with  two (1n=2x) or one (1n=1x) sets of chromosomes, respectively.   These gametes  fuse  to produce a zygote  (2n=3x),  that  is able to develop normally into an adult plant through multiple rounds of mitosis, but is unable to compete normal meiosis or produce seeds. 

 

 

 

ENDOREDUPLICATION Endoreduplication,  also  known as endopolyploidy,  is  a  special  type of  tissue‐specific  genome  amplification  that  occurs  in  many  types  of plant  cells  and  in  specialized  cells  of  some animals  including humans.  Endoreduplication does not affect  the germline or gametes,  so species with  endopolyploidy  are  not  considered  polyploids.    Endopolyploidy 

Figure 2.13. Part of a triploid watermelon, showing white, aborted seeds within the flesh

Figure 2.14. Endoreduplicated chromosomes from an insect salivary gland. The banding pattern is produced with fluorescent labels.

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occurs  when  a  cell  undergoes  multiple  rounds  of  DNA  synthesis  (S‐phase) without any mitosis.  This produces multiple chromatids of each chromosome.    Endopolyploidy  seems  to  be  associated  with  cells  that are metabolically very active, and produce a  lot of enzymes and other proteins  in  a  short  amount  of  time.    The  highly  endoreduplicated salivary  gland  chromosomes  of  D.  melanogaster  have  been  useful research  models  in  genetics,  since  their  relatively  large  size  makes them easy to study under the microscope.  

GENE BALANCE Why do trisomies, duplications, and other chromosomal abnormalities that  increase  gene  copy  number  sometimes  have  a  negative  effect  on the  normal  development  or  physiology  of  an  organism?    This  is particularly  intriguing  because  in  many  species,  aneuploidy  is detrimental  or  lethal, while  polyploidy  is  tolerated  or  even  beneficial.  The answer is probably related to the concept of gene balance, which  can  be  summarized  as  follows:  genes,  and  the  proteins  they  produce, have evolved to be part of complex metabolic and regulatory networks.  Some  of  these  networks  function  best  when  certain  enzymes  and regulators  are present  in  specific  ratios  to  each other.    Increasing  the gene  copy  number  for  just  one  part  of  the  network  may  throw  the network  out  of  balance,  leading  to  increases  or  decreases  of  certain metabolites, which may be  toxic  in high  concentrations or which may be  limiting  in  other  important  processes  in  the  cell.    The  activity  of genes  and  metabolic  networks  is  regulated  in  many  different  ways besides changes in gene copy number, so duplication of just a few genes will  usually  not  be  harmful.    However,  trisomy  and  large  segmental duplications of  chromosomes  affect  the dosage of  so many genes  that cellular networks are unable to adjust to the changes. 

ORGANELLAR GENOMES Chromosomes  also  exist  outside  of  the  nucleus,  within  both  the chloroplast and mitochondria.  These organelles are likely the remnants of a prokaryotic endosymbionts  that entered  the cytoplasm of ancient progenitors  of  today’s  eukaryotes.    These  endosymbionts  had  their own,  circular  chromosomes,  like  most  bacteria  that  exist  today.  Likewise,  chloroplasts  and  mitochondria  also  have  circular chromosomes  that  behave  more  like  bacterial  chromosomes  than eukaryotic chromosomes, i.e. these organellar genomes do not undergo mitosis  or  meiosis.    Organellar  genomes  are  also  often  present  in multiple copies within each organelle, and in most species are inherited maternally. 

 

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_______________________________________________________________________________________ 

SUMMARY 

• Chromosomes  are  complex  and  dynamic  structures  consisting  of  DNA  and  proteins (chromatin). 

 • The degree of  chromatin  compaction varies between heterochromatic and euchromatic 

regions and between stages of the cell cycle.  

• Some chromosomes can be distinguished cytologicaly based on their length, centromere position,  and  banding  patterns  when  stained  dyes  or  labelled  with  sequence‐specific probes. 

 • Homologous chromosomes contain the same genes, but not necessarily the same alleles.  

Sister chromatids usually contain the same genes and the same alleles.  

• Mitosis reduces the c‐number, but not the n‐number.  Meiosis reduces both c and n.  

• Homologous chromosomes associate with each other during meiosis, but not mitosis.  

• Several types of structural defects in chromosomes occur naturally, and can affect cellular function and even evolution.  

 • Aneuploidy results from the addition or subtraction of one or more chromosomes from a 

group of homologs, and is usually deleterious to the cell.  

• Polyploidy is the presence of more than two complete sets of chromosomes in a genome.  Even‐numbered multiple  sets of  chromosomes  can be  stably  inherited  in  some species, especially plants. 

 • Endopolyploidy is tissue‐specific type of polyploidy observed in some species,  including 

diploids.  

• Both aneuploidy and structural defects such as duplications can affect gene balance.  

• Organelles  also  contain  chromosomes,  but  these  are  much  more  like  prokaryotic chromosomes than the nuclear chromosomes of eukaryotes. 

 

 

 

 

 

 

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KEY TERMS 

chromosome core histones nucleosome 30nm fiber histone H1 scaffold proteins heterochromatin euchromatin microsatellite chromatid centromere metacentric acrocentric telocentric holocentric telomere homolog non‐homologous chromatid sister chromatid non‐sister chromatid interphase 

mitosis prophase metaphase anaphase telophase prophase meiosis prophase (I, II) metaphase (I, II) anaphase (I, II) telophase (I, II) cytokinesis bivalent reductional division equational division G1 G2 S M G0 interphase n 

c karyotype aneuploidy monsomic trisomic Down’s syndrome deletion duplication insertion inversion translocation non‐disjunction chromosome breakage polyploid x tetravalent endoreduplication endopolyploidy gene balance cellular network endosymbiont 

organellarchromo 

_______________________________________________________________________________________ 

STUDY QUESTIONS 

2.1 Define chromatin. What is the difference between DNA, chromatin and chromosomes?  2.2  Species  A  has  n=4  chromosomes  and Species B has n=6 chromosomes. Can you tell from this information which species has more DNA? Can you tell which species has more genes?  2.3  The  answer  to  question  2  implies  that not all DNA within a chromosome encodes genes.  Can  you  name  any  examples  of chromosomal regions that contain relatively few genes?     

2.4 a)  How  many  centromeres  does  a  typical chromosome have?  b)  What  would  happen  if  there  was  more than one centromere per chromosome?  c)  What  if  a  chromosome  had  zero centromeres?  2.5 For a diploid with 2n=16 chromosomes, how  many  chromosomes  and  chromatids are  per  cell  present  in  the  gamete,  and zygote  and  immediately  following  G1,  S,  G2, mitosis, and meiosis?    2.6  Bread  wheat  (Triticum  aestivum)  is  a hexaploid.  Using  the  nomenclature presented  in  class,  an  egg  cell  of wheat  has 

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n=21  chromosomes.  How  many chromosomes in a zygote of bread wheat?  2.7 For a given gene: a) What  is  the maximum number  of  alleles that  can exist  in a 2n cell of  a given diploid individual? b) What  is  the maximum number  of  alleles that  can  exist  in  a  1n  cell  of  a  tetraploid individual? c) What  is  the maximum  number  of  alleles that  can  exist  in  a  2n  cell  of  a  tetraploid individual? d) What  is  the maximum number  of  alleles that can exist in a population?  2.8  a) Why is aneuploidy more often lethal than polyploidy?   b)  Which  is  more  likely  to  disrupt  gene balance: polyploidy or duplication? 

 2.9  For  a  diploid  organism  with  2n=4 chromosomes,  draw  a  diagram  of  all  of  the possible  configurations  of  chromosomes during  normal  anaphase  I,  with  the maternally  and  paternally  derived chromosomes labelled.       2.10  For  a  triploid  organism with  2n=3x=6 chromosomes,  draw  a  diagram  of  all  of  the possible  configurations  of  chromosomes  at anaphase  I  (it  is  not  necessary  label maternal and paternal chromosomes).       2.11    For  a  tetraploid  organism  with 2n=4x=8  chromosomes,  draw  all  of  the possible  configurations  of  chromosomes during a normal metaphase.   

 

 

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discovery of some

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genetics.

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in peas.

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Figure 3.3

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genotype and

phenotype for a

dominant allele.

Table 3.1 Examples of symbols used to represent alleles, and their dominance relationships

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Figure 3.4

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genotype and

phenotype for semi-

dominant alleles.

Page 32: BIOL207_text_2011_final

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Figure 3.5

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genotype and

phenotype for co-

dominant alleles (IA,

IB), and a recessive

allele.

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Figure 3.7 A Punnett

Square showing a

monohybrid cross

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examples of test

crosses.

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Figure 3.7 Reciprocal

crosses involving a

sex-linked trait.

! #$%! #$%

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&!! +$#,! +$#,

Figure 3.8 Reciprocal

crosses involving a

sex-linked trait.

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Figure 3.9 Probability

distribution of the chi-

square statistic for five

different degrees of

freedom

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A1A1 A1A2 A2A2

1 all hairs black on the same

individual:

50% of hairs are all

black

50% of hairs are all

white

all hairs white

2 all hairs black all hairs are the same

shade of grey

all hairs white

3 all hairs black all hairs black 50% of individuals

have all white hairs

50% of individuals

have all black hairs

4 all hairs black all hairs black mice have no hair

5 all hairs black all hairs white all hairs white

6 all hairs black all hairs black all hairs white

7 all hairs black all hairs black hairs are a wide range

of shades of grey

!

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C h a p t e r   4  | 4­5  

  

Box 4‐1 Transposable Elements 

Transposable  elements  (TEs)  occur  naturally  throughout  the  chromosomes  of  almost  all organisms.  These DNA sequences have a unique ability to be inserted into new locations in the genome,  after being  cut or  copied  from  their original  location.     TEs are also known as mobile genetic  elements,  or  more  informally  as  jumping  genes.    The  locations  into  which  TEs  are inserted are not entirely random, but TEs can in principle be inserted into almost any region of the  genome.    TEs  can  therefore move  into  other  genes,  causing mutations.    Researchers  have methods of artificially increasing the rate of transposition, making TEs a useful type of mutagen.  However the biological importance of TEs extends far beyond their use in mutant screening; TEs are  also  important  causes  of  disease  and  phenotypic  instability,  and  they  are  a major  force  in evolution. 

There  are  two  major  classes  of  TEs  in  eukaryotes  (Figure  4‐B1).    Class  I  elements  include retroposons  and  retrotransposons;  these  are  copied  by means  of  an  RNA  intermediate.  The transcript  is  reverse  transcribed  into  DNA  before  being  inserted  elsewhere  in  the  genome through  the  action  of  enzymes  such  as  integrase.    Class  II  elements  are  known  also  as transposons;  these do not use reverse transcriptase or an RNA intermediate for transposition.  Using an enzyme called transposase, most transposons are cut from their original location and then this excised dsDNA fragment is inserted into a new location. Note that the name transposon is sometimes used incorrectly to refer to any type of TEs, but in this book we use transposon to refer only to Class II elements.  

 

Figure 4­B1  .   Representative examples of  the  two main types of  transposable elements.  (TEs)  Class  I  elements  transpose  via  an  ssRNA  intermediate, which  is  reverse  transcribed  to  dsDNA prior  to  insertion of  this copy  in a new site  in  the genome. Class  II elements do not  involve an RNA intermediate; most Class II elements are cut from their original location as dsDNA, prior to being inserted into a new site in the genome.  Although the diagram shows TEs being inserted on the same chromosome as they originated from, TEs can also move to other chromosomes within the same cell. 

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TEs are relatively short DNA sequences (between 100bp and 10kb), and encode no more than a few proteins (if any).   Normally, the protein‐coding genes within a TE are all related to the TE’s own  transposition  functions,  e.g.  reverse  transcriptase,  transposase,  and  integrase. However, some TEs (of either Class I or II) do not encode any proteins at all.  These non­autonomous TEs can  only  transpose  if  they  are  supplied  with  enzymes  produced  by  other,  autonomous  TEs located elsewhere  in  the genome.      In all cases, enzymes  for  transposition recognize conserved nucleotide sequences within the TE, which show the enzymes where to begin cutting or copying, and re‐insertion.   

The human genome is nearly 45% TEs, the vast majority of which are families of Class I elements called LINEs and SINEs.   The short, Alu  type of SINE occurs  in more than one million copies  in the human genome (compare this to the approximately 30,000, non‐TE, protein‐coding genes in humans).      Indeed, TEs make up a  significant portion of  the genomes of  almost  all  eukaryotes.  Class  I  elements,  which  usually  transpose  via  a  copy‐and‐paste  mechanism,  tend  to  be  more abundant  than Class  II  elements, which mostly use  a  cut‐and‐paste mechanism.      But  even  the cut‐paste mechanism  can  lead  to  an  increase  in  TE  copy  number,  in  some  circumstances  (for example,  if  the  site vacated by  the excised  transposon  is  repaired with a DNA  template  from a homologous chromosome that itself contains a copy of a transposon).  

Besides greatly expanding the DNA content of genomes, TEs contribute to genome evolution  in many  other  ways.    As  already mentioned,  they may  disrupt  gene  function  by  insertion  into  a gene’s coding region or regulatory region.   More interestingly adjacent regions of chromosomal DNA are sometimes mistakenly transposed along with the TE; this can lead to gene duplication.  The  duplicated  genes  are  then  free  to  evolve  independently,  leading  in  some  cases  to  the development  of  new  functions.    The  breakage  of  strands  by  TE  excision  and  integration  can disrupt genes, and can lead to chromosome rearrangement or deletion if errors are made during strand  rejoining.  Furthermore,  having  so many  similar  TE  sequences  distributed  throughout  a chromosome  sometimes  allows mispairing of  regions of  homologous  chromosomes  at meiosis, which can cause unequal crossing‐over, resulting in deletion or duplication of large segments of chromosomes.   Thus, TEs are an important evolutionary force, and are not merely “junk DNA” as they were once called.  

   

Figure 4­B2.    Barbara McClintock won  a Nobel  Prize  for  her  discovery  of  TEs.    She  did  so  by studying pigment variegation in maize kernels, which is caused by the movement of TEs in and out of pigmentation genes.  This is an example of phenotypic instability. 

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The new strand therefore bears a mutation, which will be inherited, in all the strands that are subsequently replicated from it. 

 

Intercalating  agents  are  another  type  of chemical mutagen.    These  induce mutations  by inserting  between  the  stacked  bases  at  the center  of  the  DNA  helix  (Figure  4.7).    This intercalation distorts the shape of the DNA helix, which can cause the wrong bases to be added to a  growing  DNA  strand  during  DNA  synthesis.  Intercalating  agents  tend  to  be  flat,  planar molecules  such  as  benzopyrene,  a  component of wood and tobacco smoke.  Another important intercalating  agent  is  thalidomide,  an  anti‐nausea  drug  whose  harmful  effects  were unknown until  its consumption by thousands of pregnant  woman  resulted  in  birth  defects.  Finally  ethidium  bromide,  the  dye  that fluorescently stains DNA in laboratory assays, is also  an  intercalating  agent.    For  this  reason, molecular biologists are trained to handle this chemical carefully. 

PHYSICAL Anything  that  damages  DNA  by  transferring  energy  to  it  can  be considered  a  physical  mutagen.    Usually  this  involves  radioactive particles,  x‐rays,  or  UV  light.    Smaller,  fast  moving  particles  may substitute or delete a single base, while larger, slightly slower particles induce larger deletions by breaking the double stranded helix.  Physical 

Figure 4.6 Alkylation of guanine (shown in red) allows G to bond with thymine rather than cytosine at replication.

Figure 4.7 Benzopyrene (circled in red) is an example of an intercalating agent

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mutagens  can  also  create  unusual  structures  in  DNA,  such  as  the thymine  dimers  formed  by  UV  light  (Figure  4.8).  Thymine  dimers disrupt  normal  base‐pairing  in  the  double  helix,  and  may  block replication altogether if not repaired by the cell. 

 

MUTANT SCREENING: FORWARD GENETICS One way to identify genes that affect a particular biological process is to induce random mutations in a population, and then look for individuals with  phenotypes  that might  be  caused  by  a  disruption  of  a  particular biochemical  pathway.    This  strategy  of mutant  screening  has  been used very effectively to better understand the molecular components of hundreds  of  different  biological  processes.        For  example,  to  better understand  processes  of  memory  and  learning,  researchers  have screened  mutagenized  populations  of  Drosophila  to  identify  flies  (or larvae)  that  lack  the  normal  ability  to  learn  to  associate  a  particular odor with an electric shock.  Some of the genes identified by this mutant screen  may  be  relevant  to  learning  and  memory  in  other  animals, including conditions such as Alzheimer’s disease in humans.  

Exposure of an organism to a mutagen causes mutations in essentially random  positions  along  the  chromosomes.    Most  of  the  mutant phenotypes  recovered  from  a  genetic  screen  are  caused  by  loss­of­function mutations.  These are changes in the sequence of an allele that cause  it  to  no  longer  produce  the  same  level  of  active  protein  as  the wild‐type  allele.    Loss‐of‐function  alleles  tend  to  be  recessive  because the  wild‐type  allele  is  haplosufficient  (see  Chapter  6).        A  loss‐of‐function allele that produces no active protein is called an amorph, or null.   On the other hand, alleles with only a partial loss‐of‐function are called hypomorphic.     More rarely, a mutant allele may have a gain­of­function,  producing  either more  of  the  active  protein  (hypermorph) or producing an active protein with a new function (neomorph).  

Figure 4.8 Thymine dimers are formed when adjacent thymine bases on the same DNA strand become covalently linked (red bonds) follow exposure to mutagens such as UV light. The dimers distort base pairing and can interrupt processes such as replication.

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In a typical mutant screen, researchers will treat a parental population with a mutagen. This may,  for example,  involve soaking seeds  in EMS, or mixing this mutagen with the food fed to flies.   The individuals that are directly exposed with the mutagen are called the M0 generation.  No phenotypes will be visible among the M0 generation, in part because not all  somatic  (i.e.  non‐reproductive)  cells  of  the  M1  individuals  will  be affected in the same way.  More important in the M1 generation are the germline  cells:  gametes  and  any  of  their  developmental  precursors. Since a single gamete contributes half of the chromosomes to every cell of  the  next  (M2)  generation,  mutagenizing  gametes  or  the  cells  that produce them is the easiest way to generate individuals in which every cell  bears  the  same  mutation.      In  most  cases,  however,  the  M1 

individual  will  be  heterozygous  for  any  induced  mutation;  this  is because  it  would  be  very  unlikely  for  the  same  gene  to  have  been mutated  in  the  other  gamete  that  contributed  to  the  M1  individual.  Because most induced mutations are recessive, the M1 generation must therefore  be  selfed  (i.e.  crossed  to  siblings,  or  self‐fertilization  if  the species  is  a  hermaphrodite  like  worms  and  most  plants),  and  the following generations (e.g. M2, in which mutant alleles could potentially become homozygous) examined for the presence of novel phenotypes. Once  a  relevant  mutant  has  been  identified,  geneticists  can  begin  to make inferences about what the normal function of the mutated gene is, based on its mutant phenotype.   

SOME MUTATIONS MAY NOT HAVE DETECTABLE PHENOTYPES The vast majority of mutations (especially substitutions) have no effect on  the  phenotype.    Often,  this  is  because  the  mutation  is  silent;  it changes  the DNA sequence of a non‐coding region of  the DNA, or else the changes a base within a codon without changing the amino acid that it encodes (recall that the genetic code is degenerate; for example, GCT, GCC, GCA,  and GCG all  encode alanine).   There are also  cases where a mutation  can  cause  a  complete  loss‐of‐function  of  a  gene,  yet  not produce a phenotype even when the mutant allele is homozygous.  This can  often  be  attributed  to  genetic  redundancy,  i.e.  the  encoding  of similar  genes  at more  than  one  locus  in  the  genome.    It  is  important therefore to remember this important limitation of mutational analysis:  genes with  redundant  functions  cannot be  easily  identified by mutant screening. 

Some  phenotypes  require  individuals  to  reach  a  particular developmental  stage  before  they  can  be  scored.    For  example,  flower color  can  only  be  scored  in  plants  that  are  mature  enough  to  make flowers, and eye color can only be scored  in  flies  that have developed eyes.  However, some alleles may not develop sufficiently to be included among  the  progeny  that  are  scored  according  to  their  phenotype.   Lethal  alleles  that  arrest  the  development  of  an  individual  at  an embryonic stage may therefore go unnoticed in a typical mutant screen.  Furthermore,  the  progeny  of  a  monohybrid  cross  involving  an embryonic  lethal  recessive  allele  may  therefore  all  be  of  a  single 

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phenotypic class, giving a phenotypic ratio of 1:0 (which is the same as 3:0). 

Many genes are  first  identified  in mutant screens, and so  they  tend  to be  named  after  their  mutant  phenotypes.    This  can  cause  some confusion  for  students  of  genetics.    For  example,  we  have  already encountered an X‐linked gene named white  in fruit flies.   Null mutants of white have white eyes, but the normal function of the white gene is actually the production of a red pigment.   

 

COMPLEMENTATION TESTING  

Mutations  in  different  genes  can  produce  the  same  phenotype.    For example,  in the biochemical pathway shown in Figure 4.9, a plant that lacks  the  function  of  gene  A  (genotype  aa)  would  produce  mutant, white flowers that looked just like the flowers of a plant that lacked the function of gene B (genotype bb).  The genetics of two loci are discussed more in the following chapters. 

 

 

 

As explained earlier in this chapter, mutant screening is one of the main activities of geneticists.  When geneticists find two mutants with similar phenotypes, either in natural populations or during a mutant screen, an immediate  question  is  whether  or  not  the  mutants  have  lost  the function of the same gene.  The other possibility is that each mutant has 

Figure 4.9 In this simplified biochemical pathway, two enzymes encoded by two different genes modify chemical compounds in two sequential reactions to produce a purple pigment. Loss of either of the enzymes disrupts the pathway and no pigment is produced.

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lost  the  function  of  a  different  gene.    If  they  are  both mutants  of  the same gene, then their genotypes can both be represented as aa.  If each has a mutation in a different gene, then the genotype of one individual can  be  represented  as  aa,  and  the  other  individual  as  bb  (or  more completely as aaBB and AAbb, respectively).   

A technique called complementation testing can be used to determine whether  two  individuals with  the  same phenotype  carry mutations  in the same gene or different genes.   The only requirement of  this test  is two  pure‐breeding  individuals  with  the  same  phenotype;  no  prior knowledge  of  the  genes  or  biochemical  pathways  is  required.      To perform  a  complementation  test,  two  homozygous  individuals  with similar mutant phenotypes are crossed (Figure 4.10).   If the F1 progeny all have the mutant phenotype, then we infer that same gene is mutated in each parents.  If the F1 progeny all appear to be wild‐type, then each of the parents most likely carries a mutation in a different gene (Figure 4.11). 

 

 

 

 

 

 

 

 

 

Figure 4.10 In a typical complementation test, the genotypes of two parents are unknown (although they must be pure breeding, homozygous mutants). If the F1 progeny all have a mutant phenotype there (Case 1), there is no complementation. If the F1 progeny are all wild-type, the mutations are said to have complemented each other. See Figure 4.11 for interpretation.

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Thus, if two homozygous mutants produce F1 progeny that have a wild‐type  phenotype,  complementation  is  said  to  have  occurred,  because the wild‐type alleles of each of  the genes were able to compensate  for the  recessive,  mutant  alleles  that  were  also  inherited  (Case  2,  Figure 4.11).      On  the  other  hand,  if  the  F1  progeny  all  have  a  mutant phenotype,  (case  1,  Figure  4.11),  the  mutant  genotypes  fail  to complement  each  other,  because  they  contain  mutations  of  the  same gene. These could be either the same mutant alleles, or different mutant alleles of the same gene. If the two mutants are independent (e.g. they came  from  different  natural  populations  or  from  independently mutagenized  individuals),  the mutations  are probably different  alleles of the same gene.     All mutants that  fail  to complement each other are said to be in the same complementation group.  

 

Figure 4.11 The pure breeding, homozygous mutants parents had unknown genotypes before the complementation test, but it could be assumed that they were either mutations in the same genes (Case 1) or different genes (Case 2). In Case 1, all of the progeny would have a mutant phenotype, because they would all have the same, homozygous genotype as the parents. In Case 2, each parent has a mutation in a different gene, therefore none of the F1 progeny will be homozygous mutant at any one locus. Note that the genotype in Case 1 could be written as either aa or aaBB.

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_______________________________________________________________________________________________________________ 

SUMMARY 

• When a variation in DNA sequence originated recently, and is rare in a population, we call that change a mutation.  

• When  variations  in  DNA  sequence  co‐exist  in  a  population,  and  neither  one  can  be meaningfully defined as wild‐type, we call the variations polymorphisms.  

• Mutations may either occur spontaneously, or may be induced by exposure to mutagens.  

 • Mutations may result in either substitutions, deletions, or insertions. 

 • Mutation  usually  causes  either  a  partial  or  complete  loss  of  function,  but  sometimes 

results in a gain of function,  including new functions.  

• Spontaneous  mutations  arise  from  many  sources  including  natural  errors  in  DNA replication, usually associated with base mispairing, or else insertion deletion especially within repetitive sequences. 

 • Induced  mutations  result  from  mispairing,  DNA  damage,  or  sequence  interruptions 

caused by chemical, biological, or physical mutagens.   

• By randomly inducing mutations, then screening for a specific phenotype, it is possible to identify genes associated with specific biological pathways.  

 • Transposable  elements  are dynamic,  abundant  components  of  eukaryotic  genomes  and 

important forces in evolution.  

• Transposable  elements  are dynamic,  abundant  components  of  eukaryotic  genomes  and important forces in evolution. 

 • Mutation of different genes can produce a similar phenotype. 

 • Complementation testing determines whether two mutants are the result of mutation of 

the same gene, or if each mutant is caused by mutation of a different gene.  

• The  efficiency  of  mutant  screening  is  limited  by  silent  mutations,  redundancy,  and embyronic lethality. 

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KEY TERMS 

mutation mutant polymorphism insertion deletion substitution mutagen biological mutagen chemical mutagen physical mutagen tautomer mispairing loop SSR insertional mutagen Class I, Class II 

transposon retrotransposon reverse transcriptase transposase non‐autonomous autonomous SINE, LINE, Alu P‐element T‐DNA alkylation agent EMS intercalating agent benzopyrene ethidium bromide thymine dimer mutant screen 

 loss‐of‐function gain‐of‐function amorph null hypomorph hypermorph neopmorph somatic germline M0, M1, M2 silent mutation redundancy lethality complementation group  

 _______________________________________________________________________________________________________________

 

 STUDY QUESTIONS 

4.1 How are polymorphisms and mutations alike?  How are they different?   4.2 What  are  all  of  the ways  a  substitution can occur in a DNA sequence?  4.3 What  are  all  of  the ways  a deletion  can occur in a DNA sequence?  4.4 What are all of the ways an insertion can occur in a DNA sequence?  4.5 In the context of this chapter, explain the health hazards of smoking tobacco.  4.6 You have exposed a  female fruit  fly to a mutagen.  Mating  this  fly  with  a  non‐mutagenized  male  produces  offspring  that appear to be completely normal. 

However there are twice as many females as males in the F1 progeny of this cross. a)  Propose  a  hypothesis  to  explain  these observations. b) How could you test your hypothesis?  4.7 You decide to use genetics to investigate how your favourite plant makes its flowers smell good. a) What steps will you take to identify some genes that are required for production of the sweet floral scent? Assume that this plant is a self‐pollinating diploid. b)  One  of  the  recessive  mutants  you identified has fishy‐smelling flowers, so you name  the  mutant  (and  the  mutated  gene) fishy.    What  do  you  hypothesize  about  the normal function of the wild‐type fishy gene? 

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c)  Another  recessive  mutant  lacks  floral scent altogether, so you call it nosmell. What could you hypothesize about the normal function of this gene?  4.8  Suppose  you  are  only  interested  in finding dominant mutations that affect floral scent. a)  What  do  you  expect  to  be  the  relative frequency  of  dominant  mutations,  as compared to recessive mutations, and why? b)  How  will  you  design  your  screen differently  than  in  the previous question,  in order  to  detect  dominant  mutations specifically? c) Which  kind  of mutagen  is most  likely  to produce  dominant  mutations,  a  mutagen that produces point mutations, or a mutagen that produces large deletions?   4.9  Which  types  of  transposable  elements are transcribed?  

 4.10  You  are  interested  in  finding  genes involved  in  synthesis  of  proline  (Pro),  an amino acid that is normally synthesizes by a particular model organism.   a)   How would you design a   mutant screen to    identify  genes  required  for  Pro synthesis?  b)  Imagine  that  your  screen  identified  ten mutants  (#1  through  #4)  that  grew  poorly unless  supplemented with  Pro.    How  could you  determine  the  number  of  different genes represented by these mutants? c)  If  each of the four mutants represents a different gene, what will be the phenotype of the F1 progeny if  any pair of the four mutants are crossed? d)  If  each of the four mutants represents the same gene, what will be the phenotype of the F1 progeny if  any pair of the four mutants are crossed?

 

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>?@ABC??!DEDFGHAH!>$0(/1$$'! 5'$! &! '-&+0&10(I$0! '$-! *.! '43%*2'! -*! 1$,1$'$+-! &+!(+0(:(05&2J'! '$=;! .&3(24! 1$2&-(*+'#(,'! &+0! ,#$+*-4,$7! "#$'$! 0(&/1&3'!&1$!5'$0!-*!0$-$13(+$!-#$!!"#$!"%!&'($)&*+',$!*.!&!,&1-()52&1!0('$&'$!*1! -1&(-;! &+0! -*! ,1$0()-! -#$! ,1*%&%(2(-4! *.! (-'! &,,$&1&+)$! &3*+/!*..',1(+/7!!>$0(/1$$!&+&24'('!('!-#$1$.*1$!&+!(3,*1-&+-!-**2!(+!%*-#!%&'()!1$'$&1)#!&+0!-$'$*&,!,".'/$0&'-7!

?&)#! ,$0(/1$$! 1$,1$'$+-'! &22! *.! -#$! &:&(2&%2$! (+.*13&-(*+! &%*5-! -#$!(+#$1(-&+)$!*.!&!'(+/2$!-1&(-!K3*'-!*.-$+!&!0('$&'$L!9(-#(+!&!.&3(247!!"#$!,$0(/1$$! ('! -#$1$.*1$! 01&9+! .1*3! .&)-5&2! (+.*13&-(*+! 1&-#$1! -#&+!-#$*1$-()&2!,1$0()-(*+';!%5-!-#$1$!('!&29&4'!'*3$!,*''(%(2(-4!*.!$11*1'!(+!

M#&,-$1!N >?@ABC??H!DE@!>O>PFD"AOEH!

Figure 5.1 Polydactyly

is an example of a

human trait that can be

studied by pedigree

analysis

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Figure 5.2 Symbols

used in drawing a

pedigree.

Figure 5.3 A pedigree

consistent with AD

inheritance.

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

Figure 5.4 Two

pedigrees consistent with

XD inheritance.

Figure 5.5 Some types

of rickets may follow an

XD mode of inheritance.

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Figure 5.6 A pedigree

consistent with AR

inheritance.

Figure 5.7 Many inborn

errors of metabolism,

such as phenylketonuria

(PKU) are inherited as

AR. Newborns are often

tested for a few of the

most common metabolic

diseases.

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Figure 5.8 A pedigree consistent with XR inheritance. Figure 5.9 Some forms of colour

blindness are inherited as XR-traits.

Colour blindness is diagnosed using tests

such as this Ishihara Test.

Figure 5.10

Stephen Hawking

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Figure 5.11

Individuals in this

pedigree are labeled

with numbers to make

discussion easier

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Figure 5.12

Allele frequencies may

also be studied on the

population level.

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Page 155: BIOL207_text_2011_final

Photo and Illustration Credits 

Ch Fig source author license1 1 0 flickr eclectic echoes CC: AND

1 1 original unknown PD

1 2 original Deyholos CC: AN

1 3

J. Exp. Med. 98:21, 1953 Austrian, Robert pending

1 4 original Deyholos CC: AN

1 5 Wikipedia Colm, Graham PD

1 6 Wikipedia (modified) Adenosine, Deyholos CC: AS

1 7 Wikipedia Ströck, Michael GFDL

1 8 original Deyholos CC: AN

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1 10 flickr Westby, Max CC: ANS

1 10 flickr Joly, David CC: ANS

1 10 Wikipedia Altun, Zeynep F. CC: AS

1 10 Wikipedia Masur GFDL

1 10 Wikipedia Azul GFDL

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2 1 flickr: TheJCB

Zhang et al. (2007) J. Cell Biol. 177:231-242. CC: ANS

2 2 Wikipedia Wheeler, Richard GFDL

2 3 unknown unknown pending

2 4 original Deyholos CC: AN

2 5 BMC unknown pending

2 6 PLoS Genetics

Somma MP et al. (2008) PLoS Genets 4(7): e1000126 PD

2 7 original Deyholos CC: AN

2 8 PLoS Genetics

Chelysheva, L. et al (2008) PLoS Genetics PD

2 9 original Deyholos CC: AN

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2 11 Wikipedia NHGRI PD

2 12 Wikipedia Zephyris GFDL

2 13 flickr Bell, Darwin CC: AN

2 14 flickr Elissa Lei, Ph.D. @ NIH CC: A

3 1 flickr Guthier, Christian CC: A

3 2 Wikipedia Ruiz, Mariana PD

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3 9 Wikipedia PAR PD

4 1 flickr ecstaticist CC: ANS

4 2 PLoS Biology

Zarbalis, K. et al (2004) PLoS Biology PD

4 3 original Deyholos CC: AN

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U.S. Air Force photo/Staff Sgt Eric T. Sheler PD

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5 12 flickr Stern, Zach CC: AND

6 1 flickr Gossamer1013 CC: AND

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6 5 flickr Curley, John CC: AN

6 5 flickr Romans, Phil CC: AND

6 5 flickr Miss Chien CC: AND

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7 4 Wikipedia Morgan PD

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7 10 NCBI NIH PD

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8 11 flickr 457088634_585df11af5_o pending

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12 7 Wikipedia

Splettstoesser, Thomas based on Cho et al. Science 265 pp. 346, 1994 CC: AS

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