A Glossary of Genetic Terms

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Alleles: different versions of the same gene (found at the same locus but in
homologous chromosomes or in different individuals) that may produce
different phenotypes.
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Allele frequency: the fraction of all the alleles of a gene in a population that
are of one type.
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Assortative mating: a mating scheme that relies on the pairing of unrelated
individuals with similar phenotypes to obtain consistency of type and reinforce
desirable traits.
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Codominant alleles: two alleles that have different effects that are
distinguishable in a heterozygous individual (e.g. AB blood groups)
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Cross-breeding: crossing two different breeds.
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Dominant allele: one that determines the phenotype even when there is only
one copy (i.e. in a heterozygous individual).
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Drift: changes in allele frequencies over time due to chance (as opposed to
selection or mutation).
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Effective population size (Ne): the size of a hypothetical stable,
randomly-mating population that would have the same rate of gene
loss or increase in inbreeding as the real population (size N). As all
finite populations are inbred to some degree and generally do not
choose mates at random, Ne is typically 1/10 N or less,
particularly if fewer males breed than females.
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Epistasis: used to describe the situation where one gene's expression
prevents the expression of another (e.g. you cannot determine
whether an albino would have had black or brown hair, though
these two traits are controlled by separate genes.)
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Fitness (relative): The reproductive success of individuals of a
particular genotype relative to the most fit genotype.
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Fixation: loss of all alleles of a gene but one.
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Founder: an individual drawn from a source population who
contributes genetically to the derived subpopulation.
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Founder effect: changes in allele frequencies that occur when a
subpopulation is formed from a larger one. Typically many rare
and usually undesirable alleles are excluded while a few carried
by the founders get a big boost in frequency.
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Founder equivalents: the number of hypothetical founders that
would have the same diversity as the descendant population.
Generally much smaller than the actual number due to unequal
use and allele loss (gene dropping).
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Gene: that portion of the genome that carries the information
for a single protein. (In cases of proteins with multiple subunits,
there may be a gene for each.)
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Gene dropping: loss of alleles due to genetic drift.
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Genetic bottleneck: when population numbers are temporarily
reduced to a level insufficient to maintain the diversity in the
population.
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Genetic diversity: usually expressed in terms of percentage of genes
that are polymorphic and/or are heterozygous.
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Genome:  (Genome:All the genetic material in the chromosomes of an
INDIVIDUAL; its size is generally given as its total number of base pairs)
which is sometimes misconstrued as "gene pool" (Gene pool: All the
variations of genes in a BREED or species).
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Heritable: passed on from parents to progeny through the
chromosomes/DNA.
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Heritability: the fraction of the variability in a trait that is caused
by genetic differences.
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Heterozygous: carrying two different alleles of a gene.
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Heterozygous advantage: a situation where the heterozygous
genotype for a particular gene shows the highest relative fitness.
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Heterozygous insufficiency: when the heterozyous genotype lacks
sufficient gene product to have the normal phenotype.
(Approximately equivalent to partial dominance.)
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Heterosis: a situation where crossing two inbred lines yields
progeny that are more healthy/vigorous than their parents.
(More commonly used in plant breeding.)
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Homologous chromosomes: in higher plants and animals,
chromosomes are found in nearly identical "homologous"
pairs, one coming from the sire and the other from the dam.
A dog has 39 pairs, or 78 in total. Only one of each, chosen
at random, is passed on through eggs or sperm to the progeny.
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Linebreeding: a scheme that attempts to maintain a high
contribution of one or two ancestors through successive
generations. Often used by breeders for any inbreeding less
intensive than between first-degree relatives.
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Linkage: a measure of how frequently two genes found on the
same chromosome remain together during gamete (egg or sperm)
formation.
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Locus: the location of a gene on a chromosome.
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Map (aka linage map): a drawing showing the location of
and relative distances between genes on a chromosome.
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Mean kinship (mk): a measure of how related an individual is
to the other members of a population. Generally computed as
the average IC for the hypothetical progeny of the individual
mated to all other members of the population (both sexes). A
low average mk for a population indicates that most of the
diversity carried by the  founders has been retained.
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Monomorphic genes: have only one common allele (rare alleles
with frequencies of less than 0.001% may still occur).
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Mutation: a change in the sequence of the base pairs in a DNA
molecule.
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Mutation rate: the number of new mutations that occur per gene
per gamete per generation.
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Outcrossing: mating two individuals of the same breed that
are sufficiently unrelated that the IC of the progeny is lower
than the average of the parents.
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Polymorphic genes: have 2 or more common alleles in the
population.
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Recombination: the reciprocal exchange of portions of two
homologous chromosomes (usually equivalent) during gamete
formation.
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Recombinant frequency (RF): how often two linked genes are
separated by recombination, generally expressed  as a
percentage of total progeny.
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