Exam 1-Evolution Flashcards

1
Q

What is evolution?

A

any change in inherited traits (allele frequency, permanent) of a population which occur from 1 gen to next, process acts on population NOT individual

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2
Q

What is the fundamental unit of evolution?

A

genetic mutations, ex: DNA replication, carcinogens, radiation

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3
Q

What is natural selection?

A

mechanism of evolution whereby differential survival and reproduction of individuals causes some genetic types to outcompete and replace others; acts on individuals but EFFECTS populations, i.e. better adaptation=live longer=reproduce and pass on traits; the allele is more likely to increase in frequency when it confers higher fitness than the ancestral allele; Traits that promote survival and reproduction become more frequent in populations from one generation to the next.

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4
Q

What is genetic drift?

A

evolution arising from random changes in genetic composition of a population from 1 gen to next; change in frequencies of alleles in a population resulting from the gene pool to make zygotes and from chance variation in the survival and/or reproductive success of individuals; results in nonadaptive evolution

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5
Q

What is the theory of evolution?

A

is a core set of ideas centered around the concept that all species related and gradually change over time

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6
Q

What is the case study-Virus evolution of Sars-Cov-2?

A

spike protein allows cells to be infected, receptor binding site (RBD) is important for gaining access to host cells, sequenced genomes of dif animals that could have transmitted, and 2 dif lineages identified where mutations in RBD occurred, Implication:may be able to control how COVID and other diseases/viruses evolve

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7
Q

What are the 5 postulates of the theory of evolution?

A
  1. Populations change over time
  2. Lineages split generating new species
  3. Descendants diverge extremely from ancestors
  4. living species share common ancestor
  5. Earth is very old
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8
Q

What is common ancestry?

A

common ancestry requires evolution, all living organisms descended from a common ancestor; evidence for CA and against separate ancestry proves evolution

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9
Q

What is separate ancestry

A

theory that species do evolve and produce new species but the different types of organisms had separate ancestors, more evidence for common ancestry

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10
Q

What is the evidence for common ancestry? (4)

A
  1. Biogeography/Geographic distribution
  2. “Deep” similarities/homologies:
  3. Transitional Fossels
  4. Taxonomy:
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11
Q

What is the evidence for common ancestry?

A
  1. Biogeography/Geographic distribution: species (living and fossil) tend to live near closest relative, pattern of similar-looking species living in certain parts of the world (and absent from places they could possibly thrive)
  2. “Deep” similarities/homologies: some species may not look alike but have very similar structures- similar structures may have different functions, if unconstrained (SA) expect dif structures for dif functions ex: vestigial structures, bad design suggest historical constraints
  3. Transitional Fossils: fossils found carry a subset of traits of significant living groups, traits gained stepwise (but don’t confuse with growing complexity)
  4. Taxonomy: trait distribution correlated, groups nested in groups, makes sense statistically

Summary:Abundant data supports CA and evolution

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12
Q

What is a species?

A

populations (or groups of populations) w/in and among which individuals interbreed and outside of which they do not interbreed

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13
Q

Who is accredited for idea of selection?

A

Darwin credited with idea of selection but many other key figures, like:
Carol von Linne: organized life into nested hierarchy (taxa), binomial naming system (ex:homo sapiens, genus species)

Lamarck:argues for evolution and observed growing complexity, but some misconceptions though evol had goal, no extinction just change, adaption occurs via inheritance of acquired changes (ex: giraffe stretches its neck to get food, passed on to offspring who have longer necks)

Thomas Mathus: all species have capacity to increase in number and more individuals are born then can survive and breed

Alfred Russel Wallace: observed biogeographic patterns in Indonesian archipelago, organisms on 1 side of line shared many similarities, but when cross that line, organisms collectively are more similar to those in Australia than neighboring islands, CO-CONCEIVED theory of evolution by natural selection

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14
Q

What are the 4 postulates for natural selection?

A
  1. Individuals w/in species variable due to mutations creating new alleles (segregation and independent assortment making news combos)
  2. Individuals pass alleles to offspring
  3. In every gen, some individuals are more successful at surviving and reproducing than others, more offspring are produced than can survive
  4. Survival and reproduction of individuals are NOT random, successful individuals are those with alleles
    + allelic combos that best adapt them to their environment
    ex:mice with white fur are camouflaged on white sand, brown mice have poor camo, composition of population changes from 1 gen to next
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15
Q

What is Darwinian fitness?

A

traits that allow organisms to have greater reproductive success will be favored, expected net reproductive success (combining survival and reproduction)

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16
Q

What is the significance of the Darwins Finches experiment?

A

Experiment: during favorable years, species share food= lacks strong selective pressure on beak size, during drought, small seed plants died=strong selective pressure favoring finches with large beaks, when not in drought mean finch beaks shifted to lower/normal range

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17
Q

What is selective breeding/artificial selection?

A

where humans select phenotypic traits of interest in organisms

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18
Q

What does artificial selection tell us about natural selection?

A

lessons from art selection: pop can contain alleles that confer traits favored by humans, tend to increase in frequency or become fixed, new mutations can occur, surprising amount of morphological diversity can arise very quicky

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19
Q

What are the 10 misconceptions about selection?

A
  1. Evolution is defined as natural selection occurring over time (evolution in inherited traits, natural selection is an aspect of evolution and fitness)
  2. Evolution tends to result in more complex organisms over time
  3. Evolution occurs when the environment changes
  4. Natural selection generates genetic variation in populations
  5. Natural selection assumes that beneficial mutations are more common than deleterious mutations
  6. Natural selection assumes that all mutations are equally likely
  7. natural selection assumes that mutations arise more often when organisms are porly adapted to their environment
  8. Selection favors traits that promote speciation
  9. Selection favors traits that reduce the risk of extinction
  10. Complex traits in living organisms are there too help the organisms survive or reproduce in their current environement
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20
Q

What is the significance of the “Monkey Trial” 1925?

A

teacher in Tenessee taught evol which was against the law, found guilty and evol was banned in classrooms however when Cold War began, brought evol back to classroom to compete + produce mathematicians, scientist, etc.

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21
Q

What is speciation/lineage-splitting?

A
  1. Geographic isolation
  2. isolation allows for genetic differentiation given environment + cannot reproduce with other groups
  3. lineages isolated long enough lose the ability to interbreed or if they do produce offspring sterile, involves cessation of gene flow, allow descendant lineages to evolve independently- to acquire dif traits over time
    NOT tied to trait evolution
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22
Q

What are the three big ideas of evolution?

A
  1. common ancestry unites all life. diverse living species descend from common ancestors
  2. Populations evolve, genetic composition of populations change over time
  3. Natural selection provides direction, adaptations explained by natural selection and other related processes
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23
Q

How is relatedness determined?

A

by recency of a common ancestor

24
Q

What is a clade?

A

comprises ALL descendants of an ancestral lineage, all members of clade share a more recent ancestor than outside of clade; members of clade equally related to any species outside the clade

25
Q

What is a node?

A

when the descendant lineages 1st become genetically isolated; do NOT represent character/trait

26
Q

What does a tree represent?

A

relationship w/in sexual populations are reticulate (represent web/network), defined as set of clades

27
Q

What is a root?

A

common ancestor lineage of all organisms

28
Q

How to write/define a clade?

A

Use parathesis, more related species are in parenthesis together vs species outside of clade

29
Q

What is a taxon?

A

any named group of organisms

30
Q

Where does character evolution occur?

A

Along branches, NOT at nodes

31
Q

What is autamorphy?

A

evolutionary novelty/derived character; should mark clades/monophyletic groups

32
Q

What is plesiomorphic?

A

pre-existing/ancestral character; do not mark the monophyletic group, lost in subsequent lineages and descendants

33
Q

What is synapomorphy?

A

derived character shared by 2 or more lineages

34
Q

What is paraphyletic?

A

group consisting of an ancestor and SOME of its descendants but not all

35
Q

What is polyphyletic?

A

a group containing some but not ALL descendants and excludes ancestor

36
Q

What is polytomy?

A

three or more lineage splits simultaneously due to uncertainty about order of branching

37
Q

What is homology?

A

similarity due to common ancestry; single trait evolves multiple times independently but look similar, can be traced to an evolutionary origin in a common ancestor

38
Q

What is parsimony?

A

hypothesis invokes fewest changes is most likely to be true

ingroup: group of interest
outgroup: provide orientation

39
Q

What is convergence?

A

independent appearance in different lineages of similar derived characters
ex: wings in birds and insects

40
Q

What is reversal?

A

loss of derived traits in a lineage, resulting in a return to ancrstral conditions

41
Q

What is homoplasy?

A

non-homology, correspondence or similarity in form or function that is NOT attributable to common ancestry, ex: wings of insects and birds, same function but arose separately

42
Q

What is a cladogram?

A

branch length proportional, no info on rate of evolution

43
Q

What is a phylogram?

A

branch length proportional to something, sometimes it can be proportional to average # of substitutions per site (on nucleotides), amount of evolution

44
Q

What is a molecular clock?

A

if rate of substitution is constant then it means there is a molecular clock. True rate of substitution could be the same, yet the actual # of substitutions could be different; relaxed molecular clock where there are random (Smallish) variations in rate of evol. from branch to branch. IF molecular clock or relaxed clock apply, can convert branches to be proportional to time

45
Q

What is bootstrap support (bs)?

A

value gives indication of statistical confidence of given clade, BS>90 we have confidence while BS<70 indicates lo confidence

46
Q

What is fossil calibration?

A

can date and put fossil on the tree, can assume that nodes BEFORE fossil are at least said found fossils age but CANNOT assume that nodes AFTER fossil are less than the age of the fossil

47
Q

What are the challenges of Phylogenetic inference?

A

3 important assumptions about characters (traits or DNA)

  1. They are independent
  2. They are homologous
  3. rate of evolution is relatively equal
48
Q

What is genetic saturation?

A

multiple substitutions @ same site or identifical substitutions in different sequences such that resulting sequence rate lower than divergence when occurred so if mutation rate fast @ a particular nucleotide sequence compared to other lineages, if it reverts back it will seem like no substitution occured meaning the same mutation rate is upheld ( even tho it should be higher)

49
Q

What is long-branch attraction?

A

Because so many mutational changes occurred that inference deems taxa more related (when they are actually not)

50
Q

What is horizontal gene transfer?

A

sharing genetic material between organisms not in parent-child relationship (ex:microbes, bacteria)

51
Q

What is hybridization?

A

2 species can hybridized to give rise to new trait so genetic signature will be from each parental lineage and is depicted on phylogenetic networks (instead of trees)

52
Q

What is introgression?

A

when have hybridization but individual backcrosses w/ 1 parental lineage

53
Q

What is gene duplication?

A

often lose copy of gene after duplication which results in an artificial signature, so species may be incorrectly deemed to be more related if they have lost the same copy of the gene

54
Q

What is divergence?

A

lineage speciation, divergence is a gradual process and just before speciation is grey zone.

55
Q

What is incomplete lineage sorting?

A

Genes SEEM to trace back to common ancestor before divergence of lineages so it appears that they have shared ancestry; certain genes look like share CA bc share ANCESTOR prior to divergence.

This is based on the idea that species and the genes that define them are constantly evolving over time, and that because of this different genes are at different stages of divergence between population and species. If we imagine a set of three related populations which have all descended from a single ancestral population, we can start to see how incomplete lineage sorting could occur. Our ancestral population likely has some genetic diversity, containing multiple alleles of the same locus. In a true phylogenetic tree, we would expect these different alleles to ‘sort’ into the different descendent populations, such that one population might have one of the alleles, a second the other, and so on, without them sharing the different alleles between them.

56
Q

What are the types of homoplasy?

A
  1. Convergence: independent evolution of same feature from DIFFERENT ancestral condition
  2. Parallel evolution: independent evolution of SAME feature from SAME ancestral condition
  3. Reversal Secondary Loss: Reversion to ancestral condition; back mutations @ DNA sequence level can lead to long-branch attraction