Evolutionary Biology: Speciation, Phylogenetics, and Biogeography Exam Notes, Exams of Biology

A comprehensive overview of key concepts in evolutionary biology, focusing on speciation, phylogenetic analysis, and biogeography. It covers various species concepts, mechanisms of reproductive isolation, and the processes driving speciation, including allopatric and sympatric speciation. The document also explores phylogenetic tree construction, historical and ecological biogeography, and factors influencing species distribution, such as island biogeography and vicariance. It is useful for students studying evolution, genetics, and ecology, offering a detailed review of essential topics and terminology in the field. Definitions, examples, and key events in the history of life on earth, making it a valuable resource for exam preparation and deeper understanding of evolutionary processes.

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Bio 345 Evolution FINAL EXAM SET
Biological Species Concept (BSC): -
Species are groups of actually or potentially interbreeding natural populations that are โ˜‘๏ธ๎˜‚
reproductively isolated from other such groups (Mayr, 1942)
If the species can mate and have fertile offspring
Phylogenetic Species Concept (PSC): -
A phylogenetic species is an irreducible cluster of organisms diagnosably different from โ˜‘๏ธ๎˜‚
other such clusters, and within which there is a parental pattern of ancestry and descent (Cracraft,
1989).
Introgression: -
Gene exchange across distantly related speciesโ˜‘๏ธ๎˜‚
(Horizontal Gene Transfer)
Introgression: -
The movement, the incorporation, of genes from one genetically distinct population โ˜‘๏ธ๎˜‚
(usually considered a species) into another.
Geographic isolation: -
Reduction or prevention of gene flow between populations by an extrinsic barrier to โ˜‘๏ธ๎˜‚
movement, such as topographic features or unfavorable habitat.
Reproductive isolation: -
Reduction or prevention of gene flow between populations by genetically determined โ˜‘๏ธ๎˜‚
differences between them.
Allopatric populations: -
Populations occupying separated geographic areas.โ˜‘๏ธ๎˜‚
Parapatric populations: -
Populations occupying adjacent geographic areas, meeting at the border.โ˜‘๏ธ๎˜‚
Sympatric populations -
Populations occupying the same geographic area and capable of encountering each other.โ˜‘๏ธ๎˜‚
Hybrid zone: -
A region where genetically distinct populations meet and interbreed to some extent, โ˜‘๏ธ๎˜‚
resulting in some individuals of mixed ancestry (i.e., hybrids).
Sister species: -
two species descended from single ancestral speciesโ˜‘๏ธ๎˜‚
Distinguished by chromosome rearrangements: inversions and reciprocal translocations (especially)
lead to reduced hybrid fertility
Premating barriers: -
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Bio 345 Evolution FINAL EXAM SET

Biological Species Concept (BSC): - โ˜‘๏ธ Species are groups of actually or potentially interbreeding natural populations that are reproductively isolated from other such groups (Mayr, 1942) If the species can mate and have fertile offspring Phylogenetic Species Concept (PSC): - โ˜‘๏ธ A phylogenetic species is an irreducible cluster of organisms diagnosably different from other such clusters, and within which there is a parental pattern of ancestry and descent (Cracraft, 1989). Introgression: - โ˜‘๏ธ Gene exchange across distantly related species (Horizontal Gene Transfer) Introgression: - โ˜‘๏ธ The movement, the incorporation, of genes from one genetically distinct population (usually considered a species) into another. Geographic isolation: - โ˜‘๏ธ Reduction or prevention of gene flow between populations by an extrinsic barrier to movement, such as topographic features or unfavorable habitat. Reproductive isolation: - โ˜‘๏ธ Reduction or prevention of gene flow between populations by genetically determined differences between them. Allopatric populations: - โ˜‘๏ธ Populations occupying separated geographic areas. Parapatric populations: - โ˜‘๏ธ Populations occupying adjacent geographic areas, meeting at the border. Sympatric populations - โ˜‘๏ธ Populations occupying the same geographic area and capable of encountering each other. Hybrid zone: - โ˜‘๏ธ A region where genetically distinct populations meet and interbreed to some extent, resulting in some individuals of mixed ancestry (i.e., hybrids). Sister species: - โ˜‘๏ธ two species descended from single ancestral species Distinguished by chromosome rearrangements: inversions and reciprocal translocations (especially) lead to reduced hybrid fertility Premating barriers: -

โ˜‘๏ธ Features that impede transfer of gametes to members of other species Postmating, prezygotic barriers: - โ˜‘๏ธ Mating or gamete transfer occurs, but zygotes are not formed Postzygotic barriers: - โ˜‘๏ธ Hybrid zygotes are formed but have reduces fitness Dobzhansky-Muller Incompatibility: - โ˜‘๏ธ hybrid sterility gradually evolves over time due to incompatible interactions between genes Haldane's Rule: - โ˜‘๏ธ one sex manifests sterility or inviability Causes of Speciation: - โ˜‘๏ธ Ecological, Reproducitve isolation, Polyploidy, Genetic Drift Ecological: - โ˜‘๏ธ ecologically-based divergent selection produces barriers to gene flow, reproductive isolation evolves as a byproduct of ecological adaptations to a changing environment Reproductive Isolation Reinforcement: - โ˜‘๏ธ selection against low fitness hybrids drives selection for prezygotic isolation Polyploidy: - โ˜‘๏ธ unreduced gametes, more common in plants Genetic drift: - โ˜‘๏ธ random fixation of alleles, aka founder effect or peripatric speciation Reading phylogenetic trees - โ˜‘๏ธ Lineage. Node, Root Lineage - โ˜‘๏ธ a species, population or gene as we follow its descendants through time Node: - โ˜‘๏ธ split when ancestral lineage divides into two descendant lineages Root: - โ˜‘๏ธ common ancestor of all organisms in the phylogeny Inferring Phylogenies - โ˜‘๏ธ Synapomorphies, Monophyletic, Outgroups, Only homologous characters can be used to infer phylogenies Synapomorphies - โ˜‘๏ธ (derived characters that are shared by a group of organisms) are evidence for a common ancestor

Monophyletic - โ˜‘๏ธ ncludes most recent common ancestor and all species after (clade) True or False: Populations can diverge and evolve reproductive isolation if gene flow is high, counteracting divergence by selection and genetic drift. - โ˜‘๏ธ False, Populations cannot diverge and evolve reproductive isolation if gene flow is high, counteracting divergence by selection and genetic drift. Is there a positive correlation between geographic distance and speciation frequency - โ˜‘๏ธ Yes, Speciation is more likely on larger islands Widely distributed species becomes fragmented into allopatric populations by? - โ˜‘๏ธ Climate Change How does sympatric speciation occur? - โ˜‘๏ธ when an ancestral population splits into two species without any geographic isolation What is this an example of? Insects that feed on a narrow range of host plants, such as the Rhagoletis apple maggot fly

  • Strong preference for mating and egg-laying on specific host plants - โ˜‘๏ธ Sympatric Speciation True or False: Sympatric speciaiton is more common than allopatric speciation - โ˜‘๏ธ False; sympatric speciation is less likely than allopatric speciation because genetic recombination breaks down novel genetic combinations that may form new species Homolgy - โ˜‘๏ธ Possession of a derived character by two or more species that is inherited from their common ancestor. what are mass extinctions associated with? - โ˜‘๏ธ Rapid Drops in Sea Level What is LUCA? - โ˜‘๏ธ All organisms we know of stem from this single common ancestor Life - โ˜‘๏ธ group of molecules capable of capturing energy and using it to replicate, and thus undergo evolution Abiotic chemical reactions produce - โ˜‘๏ธ Simple Organic Molecules Precambrian - โ˜‘๏ธ Most of earth's time

Cyanobacteria produced oxygen 2.5 BYA, changing atmospheric oxygen concentrations significantly over time Events: Life origin: 3.4 BYA Archaea/Bacteria: 2 BYA Endosymbionts: descended from bacteria and evolved via phagocytosis (mitochondria and chloroplasts) Eukaryotes: 1.9-1.7 BYA Palezoic - โ˜‘๏ธ 542-252 MYA Cambrian explosion: rapid diversification of multicellular organisms Colonization of land by end of Devonian: First terrestrial vertebrates evolved from lobe-finned fish Ichthyostega have both lobe-finned and tetrapod features Tikaalik: partly terrestrial animals that could flex elbows and wrists First winged insects in Carboniferous period (gigantic) End-Permian Mass Extinction: - โ˜‘๏ธ 80% of species extinct in 200 KYA Huge volcanic interruption in Siberia Mesozoic - โ˜‘๏ธ 252-66 MYA Flora: dominated by gymnosperms (coniferous, cycads) Origin of angiosperms (flowering plants) Insect diversification associated with flowering plants Mammals: 300 genera arose Only 3 lineages alive today: monotremes (platypus), marsupials, placenta K/Pg Extinction: Cretaceous/Palogene period, 66 MYA, led to high Iridium concentrations due to meteor impact Cenozoic - โ˜‘๏ธ 66 MYA - today *Mammals coexisted with dinosaurs, did not undergo adaptive radiation when they were wiped out Megafaunal extinction: large animals died off at end of Pleistocene, 10 KYA, except in Africa Associated with human hunting activities and climate change combination Historical biogeography - โ˜‘๏ธ historical circumstances are mostly responsible for distribution different species Ecological biogeography - โ˜‘๏ธ ecological factors operating at the present time best explain species distributions Species have a definite site or region of origin Species achieve a broader distribution by dispersal Species become modified and give rise to descendants species in the various regions to which they disperse - โ˜‘๏ธ Origins of Species Emphasis

Rate of what declined over geological time? - โ˜‘๏ธ Background extinctions Correlation between extinction and origination - โ˜‘๏ธ 1. Ecologically specialized species higher extinction rates because of vulnerability to your environment.

  1. Species with broad geographic ranges lower extinction rates because of ability to adapt in new environments Paranthropus - โ˜‘๏ธ Hominin species were diverse at the time This lineage did probably not contribute to modern humans EPAS1 gene - โ˜‘๏ธ Allows hemoglobin to carry more oxygen Tibetans have this in abundance and share this with Denisovans therefore humans bred with Denisovans at one point Huge outlier on the graph compared to the genes shared with the Han Chinese Height...Stabilizing or directional selection? - โ˜‘๏ธ Stabilizing for females (aggregated at the mean), directional to the right for males (sexual selection pushing the curve to the right derived character state - โ˜‘๏ธ newer, evolved character state ancestral character - โ˜‘๏ธ a character that evolved in a common ancestor of both groups MRCA - โ˜‘๏ธ most recent common ancestor Bootstrapping - โ˜‘๏ธ bootstrapping is used with parsimony. some of the data is discarded and a phylogeny is generated. After doing that many times, if we consistently get the same phylogeny, then we become confident that is the true phylogeny, because multiple, somewhat different data sets yield the same answer. Bootstrapping is often used to assess the degree of confidence in the individual branches of a tree. conservative characters - โ˜‘๏ธ Features that evolve slowly and are retained with little or no change for long periods of evolutionary time. mosaic evolution -

โ˜‘๏ธ a pattern of evolution in which the rate of evolution in one functional system varies from that in other systems. different characters at different rates