1. Define phylogeny and explain how phylogenies are used.
Phylogeny: The evolutionary history of a species or group of related species.
Use of phylogenies: Helps scientists understand evolutionary relationships and construct phylogenetic trees.
2. Define systematics.
Systematics: A branch of biology that classifies organisms and determines their evolutionary relationships.
3. What is binomial nomenclature?
A system for naming species using two parts: genus and species.
4. What are the two components of every binomial name?
Genus (capitalized)
Species (lowercase)
5. What are the taxonomic categories in hierarchical order?
Domain, Kingdom, Phylum, Class, Order, Family, Genus, Species
Mnemonic: Dear King Philip Came Over For Good Spaghetti
6. Which organisms are more closely related: those in the same phylum or the same order?
Same order → More specific category than phylum.
7. What does a branch point in a phylogenetic tree represent?
A common ancestor from which two lineages diverged.
8. Define sister taxa.
Sister taxa: Groups that share an immediate common ancestor and are each other's closest relatives.
9. How can a phylogenetic tree be drawn differently while still showing the same information?
It can be horizontal, vertical, or diagonal—only the branching pattern matters, not the orientation.
10. In a phylogenetic tree, are humans more closely related to frogs or lizards? Explain.
Lizards → Humans and lizards share a more recent common ancestor than humans and frogs.
11. What does it mean for a phylogenetic tree to be rooted?
A rooted tree has a branch representing the most recent common ancestor of all taxa in the tree.
12. Why are fishes considered the basal taxon?
They are the earliest diverging lineage in a given tree.
13. Three key points about phylogenetic trees that cannot be determined:
a. Actual ages of species
b. Exact amount of genetic change
c. Whether one taxon evolved from another
14. How are phylogenetic trees inferred?
By analyzing morphological (physical) and molecular (DNA/protein) similarities.
15. Differentiate between homologous and analogous structures.
Homologous: Similar due to shared ancestry (e.g., whale fin & bat wing).
Analogous: Similar due to convergent evolution (e.g., bird wing & butterfly wing).
16. Why is it important to distinguish homologous from analogous structures?
Only homologous traits should be used to infer evolutionary relationships.
17. How can DNA homologies be determined after genetic changes?
By aligning gene sequences and identifying conserved regions.
18. If species A and B look alike but have different gene sequences, while species B and C look different but have similar gene sequences, which are more closely related?
B and C (genetic similarity is more reliable than appearance).
19. What is a clade?
A group including an ancestor and all its descendants (monophyletic group).
20. Why is Group I monophyletic?
It includes a single ancestor and all its descendants.
21. Why is Group II paraphyletic?
It includes an ancestor but not all descendants.
22. Why is Group III polyphyletic?
It includes taxa with different ancestors.
23. What is a shared derived character?
A new trait that evolved in a clade but not in ancestors.
24. Why is hair a shared derived character for mammals but a backbone is not?
Hair evolved in mammals only (derived), while backbones appeared earlier (ancestral).
25. Why is a lancelet considered the outgroup in Figure 26.12?
It shares the fewest derived characters with the other taxa.
26. What animals belong to a clade starting with four limbs?
Amphibians, reptiles, birds, and mammals.
27. How does maximum parsimony apply to phylogenetic trees?
The simplest explanation (fewest evolutionary changes) is most likely correct.
28. What does a phylogenetic tree represent?
A hypothesis about evolutionary relationships.
29. What evidence suggests birds are closely related to crocodiles?
DNA, fossil evidence, and shared derived traits (e.g., similar heart structure, nest-building behavior).
30. How does a genome help determine evolutionary relationships?
DNA sequences reveal genetic similarities and divergence over time.
31. Which method shows fungi are more closely related to animals than plants?
rRNA gene comparison (changes slowly over time).
32. Which method reveals Native American ancestry?
Mitochondrial DNA (mtDNA) (evolves quickly).
33. What are orthologous genes?
Genes in different species from a common ancestor (e.g., human and mouse hemoglobin genes).
34. What are paralogous genes?
Genes duplicated within a species that evolve independently (e.g., human hemoglobin genes).
35. Why are mice good model organisms for studying human diseases?
They share many homologous genes with humans.
36. What does it mean when genes are conserved?
They remain unchanged over time, indicating descent from a common ancestor.
37. What are molecular clocks?
Models that estimate the time of evolutionary divergence based on DNA mutations.
38. How do molecular clocks work?
Assume mutations accumulate at a constant rate over time.
39. When did HIV emerge according to molecular clocks?
Around 1930.
40. Two problems with molecular clocks:
a. Mutation rates are not always constant.
Plants evolved from green algae (charophytes).
Five Key Traits Shared with Green Algae:
Rings of cellulose-synthesizing proteins
Peroxisome enzymes
Structure of flagellated sperm
Formation of a phragmoplast
Sporopollenin (prevents drying out)
Sporopollenin: A polymer that protects spores and zygotes from drying out, allowing colonization of land.
Alternation of Generations (Life Cycle):
Key Events: Fertilization and meiosis
Gametophyte (n) → produces gametes via mitosis
Sporophyte (2n) → produces spores via meiosis
Derived Traits of Plants for Terrestrial Life:
Sporangia: Organs where spores are produced
Spores: Haploid cells that grow into gametophytes
Cuticle: Waxy layer that prevents water loss
Apical meristems: Regions of active growth in roots and shoots
Stomata: Pores for gas exchange
Vascular tissue: Conducts water and nutrients
Seed: A plant embryo with a food supply and protective coat
Gymnosperms: Plants with "naked" seeds (e.g., pine trees)
Angiosperms: Flowering plants with seeds in fruit (e.g., apple trees)
Dominant Generation: Gametophyte (haploid, n)
Reproductive Structures:
Antheridium: Produces sperm
Archegonium: Produces eggs
Sporophyte (2n) produces spores via meiosis
Spore Dispersal: By wind or water
Fertilization: Requires water; sperm swims to egg
First plants to grow tall due to vascular tissue.
Types of Vascular Tissue:
Xylem: Transports water and minerals
Phloem: Transports sugars and nutrients
Competitive Advantage of Vascular Plants:
Grow taller → better access to sunlight
Structural support from lignin
Roots: Absorb water and anchor plants
Leaves: Increase surface area for photosynthesis
Dominant Generation: Sporophyte (diploid, 2n)
Moist Environment Required: Sperm needs water to reach the egg
Three Components of a Seed
Embryo – Young developing plant
Food Supply – Provides nutrients
Seed Coat – Protection
Five Common Characteristics of Seed Plants
Reduced gametophyte stage
Heterospory (microspores & megaspores)
Ovules
Pollen production
Seeds
Why Pollen & Seeds Are Important for Land Adaptation
Pollen: Eliminates need for water for fertilization
Seeds: Provide protection & nourishment, allow dormancy
Advantages of Miniaturized Gametophytes
Protection from environmental stress
Dependent on sporophyte for nutrients
No need for water for fertilization
Enhanced dispersal mechanisms
Heterospory (Two Types of Spores & Their Development)
Megaspore → Develops into female gametophyte → Produces eggs
Microspore → Develops into male gametophyte → Produces sperm
Pollination Purpose
Transfer of pollen to ovules for fertilization
Advantages of Pollen Over Free-Swimming Sperm
No dependence on water
Increased dispersal distance
Advantages of Seeds Over Spores
Can remain dormant until favorable conditions
Contain stored food for the embryo
Can be transported long distances
Four Phyla of Gymnosperms
Cycadophyta (cycads)
Ginkgophyta (Ginkgo biloba)
Gnetophyta (Ephedra, Gnetum, Welwitschia)
Coniferophyta (conifers: pines, firs, spruces)
Five Examples of Coniferophyta
Pines
Firs
Spruces
Redwoods
Cedars
Gymnosperm Life Cycle (Pine Life Cycle Highlights)
Sporophyte (tree) produces cones
Male cones make pollen; female cones make ovules
Wind pollination transfers pollen
Fertilization occurs inside ovule
Seed forms & disperses
Seed germinates into new sporophyte
Why Gymnosperm Seeds Are "Naked"
They are not enclosed in fruits (develop on cone scales)
What "Covers" Angiosperm Seeds?
Fruit (derived from ovary)
Function of Flowers
Specialized reproductive structures
Attract pollinators for fertilization
Parts of a Flower & Their Functions
Sepals – Protect bud
Petals – Attract pollinators
Stamens (Anther + Filament) – Male reproductive structures
Carpel (Stigma + Style + Ovary) – Female reproductive structures
Botanical Definition of a Fruit
Mature ovary that encloses seeds
Two Functions of Fruits
Protect seeds
Aid in dispersal
Cross-Pollination vs. Self-Pollination
Cross-Pollination: Pollen from one plant fertilizes another
Self-Pollination: Pollen fertilizes ovules of the same plant
Evolutionary Advantage of Cross-Pollination
Increases genetic variation
Double Fertilization (Two Events Occur)
One sperm fertilizes egg → Forms zygote
One sperm fertilizes central cell → Forms endosperm (food source)
Key Results of Double Fertilization
Ovule → Seed
Zygote → Embryo
Endosperm → Nutrient tissue for embryo
Differences Between Monocots & Eudicots
| Characteristic | Monocots | Eudicots |
|---------------|---------|---------|
| Cotyledons | 1 | 2 |
| Leaf veins | Parallel | Net-like |
| Flower parts | Multiples of 3 | Multiples of 4 or 5 |
| Stem vascular bundles | Scattered | Arranged in a ring |
Importance of Seed Plants to Humans
Food: Grains, fruits, vegetables, nuts
Wood: Timber, paper, construction
Medicines: Many drugs derived from plants (e.g., aspirin from willow bark)
Threats to Plant Diversity
Deforestation
Habitat destruction
Climate change
Overharvesting
_________
_________
_________
_________
_________
Derived Characters on Phylogenetic Tree:
(a) Flowers
(b) Embryos
(c) Seeds
(d) Vascular tissue
Organs: Root, Stem, Leaf
Tissues: Dermal, Vascular, Ground
Cells: Parenchyma, Collenchyma, Sclerenchyma, Xylem, Phloem
Functions: Anchorage, Water/Nutrient Absorption, Storage
Types:
Taproot System: One main root, deep soil penetration (e.g., dicots)
Fibrous Root System: Many small roots, prevents erosion (e.g., monocots)
Root Hairs: Increase surface area for absorption
Function: Support, Transport, Storage
Nodes: Points where leaves attach
Internodes: Stem segments between nodes
Buds:
Apical Buds: Primary growth (length)
Axillary Buds: Potential for new branches
Specialized Stems:
Rhizomes – underground stems (e.g., ginger)
Tubers – storage stems (e.g., potato)
Stolons – horizontal stems (e.g., strawberries)
Function: Photosynthesis
Types:
Simple Leaf – Single undivided blade
Compound Leaf – Multiple leaflets
Specialized Leaves:
Tendrils (climbing)
Spines (protection)
Storage Leaves (water retention)
Reproductive Leaves (produce plantlets)
Untitled Flashcards Set
1. Define phylogeny and explain how phylogenies are used.
Phylogeny: The evolutionary history of a species or group of related species.
Use of phylogenies: Helps scientists understand evolutionary relationships and construct phylogenetic trees.
2. Define systematics.
Systematics: A branch of biology that classifies organisms and determines their evolutionary relationships.
3. What is binomial nomenclature?
A system for naming species using two parts: genus and species.
4. What are the two components of every binomial name?
Genus (capitalized)
Species (lowercase)
5. What are the taxonomic categories in hierarchical order?
Domain, Kingdom, Phylum, Class, Order, Family, Genus, Species
Mnemonic: Dear King Philip Came Over For Good Spaghetti
6. Which organisms are more closely related: those in the same phylum or the same order?
Same order → More specific category than phylum.
7. What does a branch point in a phylogenetic tree represent?
A common ancestor from which two lineages diverged.
8. Define sister taxa.
Sister taxa: Groups that share an immediate common ancestor and are each other's closest relatives.
9. How can a phylogenetic tree be drawn differently while still showing the same information?
It can be horizontal, vertical, or diagonal—only the branching pattern matters, not the orientation.
10. In a phylogenetic tree, are humans more closely related to frogs or lizards? Explain.
Lizards → Humans and lizards share a more recent common ancestor than humans and frogs.
11. What does it mean for a phylogenetic tree to be rooted?
A rooted tree has a branch representing the most recent common ancestor of all taxa in the tree.
12. Why are fishes considered the basal taxon?
They are the earliest diverging lineage in a given tree.
13. Three key points about phylogenetic trees that cannot be determined:
a. Actual ages of species
b. Exact amount of genetic change
c. Whether one taxon evolved from another
14. How are phylogenetic trees inferred?
By analyzing morphological (physical) and molecular (DNA/protein) similarities.
15. Differentiate between homologous and analogous structures.
Homologous: Similar due to shared ancestry (e.g., whale fin & bat wing).
Analogous: Similar due to convergent evolution (e.g., bird wing & butterfly wing).
16. Why is it important to distinguish homologous from analogous structures?
Only homologous traits should be used to infer evolutionary relationships.
17. How can DNA homologies be determined after genetic changes?
By aligning gene sequences and identifying conserved regions.
18. If species A and B look alike but have different gene sequences, while species B and C look different but have similar gene sequences, which are more closely related?
B and C (genetic similarity is more reliable than appearance).
19. What is a clade?
A group including an ancestor and all its descendants (monophyletic group).
20. Why is Group I monophyletic?
It includes a single ancestor and all its descendants.
21. Why is Group II paraphyletic?
It includes an ancestor but not all descendants.
22. Why is Group III polyphyletic?
It includes taxa with different ancestors.
23. What is a shared derived character?
A new trait that evolved in a clade but not in ancestors.
24. Why is hair a shared derived character for mammals but a backbone is not?
Hair evolved in mammals only (derived), while backbones appeared earlier (ancestral).
25. Why is a lancelet considered the outgroup in Figure 26.12?
It shares the fewest derived characters with the other taxa.
26. What animals belong to a clade starting with four limbs?
Amphibians, reptiles, birds, and mammals.
27. How does maximum parsimony apply to phylogenetic trees?
The simplest explanation (fewest evolutionary changes) is most likely correct.
28. What does a phylogenetic tree represent?
A hypothesis about evolutionary relationships.
29. What evidence suggests birds are closely related to crocodiles?
DNA, fossil evidence, and shared derived traits (e.g., similar heart structure, nest-building behavior).
30. How does a genome help determine evolutionary relationships?
DNA sequences reveal genetic similarities and divergence over time.
31. Which method shows fungi are more closely related to animals than plants?
rRNA gene comparison (changes slowly over time).
32. Which method reveals Native American ancestry?
Mitochondrial DNA (mtDNA) (evolves quickly).
33. What are orthologous genes?
Genes in different species from a common ancestor (e.g., human and mouse hemoglobin genes).
34. What are paralogous genes?
Genes duplicated within a species that evolve independently (e.g., human hemoglobin genes).
35. Why are mice good model organisms for studying human diseases?
They share many homologous genes with humans.
36. What does it mean when genes are conserved?
They remain unchanged over time, indicating descent from a common ancestor.
37. What are molecular clocks?
Models that estimate the time of evolutionary divergence based on DNA mutations.
38. How do molecular clocks work?
Assume mutations accumulate at a constant rate over time.
39. When did HIV emerge according to molecular clocks?
Around 1930.
40. Two problems with molecular clocks:
a. Mutation rates are not always constant.
Plants evolved from green algae (charophytes).
Five Key Traits Shared with Green Algae:
Rings of cellulose-synthesizing proteins
Peroxisome enzymes
Structure of flagellated sperm
Formation of a phragmoplast
Sporopollenin (prevents drying out)
Sporopollenin: A polymer that protects spores and zygotes from drying out, allowing colonization of land.
Alternation of Generations (Life Cycle):
Key Events: Fertilization and meiosis
Gametophyte (n) → produces gametes via mitosis
Sporophyte (2n) → produces spores via meiosis
Derived Traits of Plants for Terrestrial Life:
Sporangia: Organs where spores are produced
Spores: Haploid cells that grow into gametophytes
Cuticle: Waxy layer that prevents water loss
Apical meristems: Regions of active growth in roots and shoots
Stomata: Pores for gas exchange
Vascular tissue: Conducts water and nutrients
Seed: A plant embryo with a food supply and protective coat
Gymnosperms: Plants with "naked" seeds (e.g., pine trees)
Angiosperms: Flowering plants with seeds in fruit (e.g., apple trees)
Dominant Generation: Gametophyte (haploid, n)
Reproductive Structures:
Antheridium: Produces sperm
Archegonium: Produces eggs
Sporophyte (2n) produces spores via meiosis
Spore Dispersal: By wind or water
Fertilization: Requires water; sperm swims to egg
First plants to grow tall due to vascular tissue.
Types of Vascular Tissue:
Xylem: Transports water and minerals
Phloem: Transports sugars and nutrients
Competitive Advantage of Vascular Plants:
Grow taller → better access to sunlight
Structural support from lignin
Roots: Absorb water and anchor plants
Leaves: Increase surface area for photosynthesis
Dominant Generation: Sporophyte (diploid, 2n)
Moist Environment Required: Sperm needs water to reach the egg
Three Components of a Seed
Embryo – Young developing plant
Food Supply – Provides nutrients
Seed Coat – Protection
Five Common Characteristics of Seed Plants
Reduced gametophyte stage
Heterospory (microspores & megaspores)
Ovules
Pollen production
Seeds
Why Pollen & Seeds Are Important for Land Adaptation
Pollen: Eliminates need for water for fertilization
Seeds: Provide protection & nourishment, allow dormancy
Advantages of Miniaturized Gametophytes
Protection from environmental stress
Dependent on sporophyte for nutrients
No need for water for fertilization
Enhanced dispersal mechanisms
Heterospory (Two Types of Spores & Their Development)
Megaspore → Develops into female gametophyte → Produces eggs
Microspore → Develops into male gametophyte → Produces sperm
Pollination Purpose
Transfer of pollen to ovules for fertilization
Advantages of Pollen Over Free-Swimming Sperm
No dependence on water
Increased dispersal distance
Advantages of Seeds Over Spores
Can remain dormant until favorable conditions
Contain stored food for the embryo
Can be transported long distances
Four Phyla of Gymnosperms
Cycadophyta (cycads)
Ginkgophyta (Ginkgo biloba)
Gnetophyta (Ephedra, Gnetum, Welwitschia)
Coniferophyta (conifers: pines, firs, spruces)
Five Examples of Coniferophyta
Pines
Firs
Spruces
Redwoods
Cedars
Gymnosperm Life Cycle (Pine Life Cycle Highlights)
Sporophyte (tree) produces cones
Male cones make pollen; female cones make ovules
Wind pollination transfers pollen
Fertilization occurs inside ovule
Seed forms & disperses
Seed germinates into new sporophyte
Why Gymnosperm Seeds Are "Naked"
They are not enclosed in fruits (develop on cone scales)
What "Covers" Angiosperm Seeds?
Fruit (derived from ovary)
Function of Flowers
Specialized reproductive structures
Attract pollinators for fertilization
Parts of a Flower & Their Functions
Sepals – Protect bud
Petals – Attract pollinators
Stamens (Anther + Filament) – Male reproductive structures
Carpel (Stigma + Style + Ovary) – Female reproductive structures
Botanical Definition of a Fruit
Mature ovary that encloses seeds
Two Functions of Fruits
Protect seeds
Aid in dispersal
Cross-Pollination vs. Self-Pollination
Cross-Pollination: Pollen from one plant fertilizes another
Self-Pollination: Pollen fertilizes ovules of the same plant
Evolutionary Advantage of Cross-Pollination
Increases genetic variation
Double Fertilization (Two Events Occur)
One sperm fertilizes egg → Forms zygote
One sperm fertilizes central cell → Forms endosperm (food source)
Key Results of Double Fertilization
Ovule → Seed
Zygote → Embryo
Endosperm → Nutrient tissue for embryo
Differences Between Monocots & Eudicots
| Characteristic | Monocots | Eudicots |
|---------------|---------|---------|
| Cotyledons | 1 | 2 |
| Leaf veins | Parallel | Net-like |
| Flower parts | Multiples of 3 | Multiples of 4 or 5 |
| Stem vascular bundles | Scattered | Arranged in a ring |
Importance of Seed Plants to Humans
Food: Grains, fruits, vegetables, nuts
Wood: Timber, paper, construction
Medicines: Many drugs derived from plants (e.g., aspirin from willow bark)
Threats to Plant Diversity
Deforestation
Habitat destruction
Climate change
Overharvesting
_________
_________
_________
_________
_________
Derived Characters on Phylogenetic Tree:
(a) Flowers
(b) Embryos
(c) Seeds
(d) Vascular tissue
Organs: Root, Stem, Leaf
Tissues: Dermal, Vascular, Ground
Cells: Parenchyma, Collenchyma, Sclerenchyma, Xylem, Phloem
Functions: Anchorage, Water/Nutrient Absorption, Storage
Types:
Taproot System: One main root, deep soil penetration (e.g., dicots)
Fibrous Root System: Many small roots, prevents erosion (e.g., monocots)
Root Hairs: Increase surface area for absorption
Function: Support, Transport, Storage
Nodes: Points where leaves attach
Internodes: Stem segments between nodes
Buds:
Apical Buds: Primary growth (length)
Axillary Buds: Potential for new branches
Specialized Stems:
Rhizomes – underground stems (e.g., ginger)
Tubers – storage stems (e.g., potato)
Stolons – horizontal stems (e.g., strawberries)
Function: Photosynthesis
Types:
Simple Leaf – Single undivided blade
Compound Leaf – Multiple leaflets
Specialized Leaves:
Tendrils (climbing)
Spines (protection)
Storage Leaves (water retention)
Reproductive Leaves (produce plantlets)