Chapter 6 A Tour of the Cell.

Chapter 6 A Tour of the Cell

Overview: The Fundamental Units of Life
All organisms are made of cells The cell is the simplest collection of matter that can be alive Cell structure is correlated to cellular function All cells are related by their descent from earlier cells For the Discovery Video Cells, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Figure 6.1 Figure 6.1 How do your brain cells help you learn about biology?

Concept 6.1: Biologists use microscopes and the tools of biochemistry to study cells
Though usually too small to be seen by the unaided eye, cells can be complex © 2011 Pearson Education, Inc.

Microscopy Scientists use microscopes to visualize cells too small to see with the naked eye In a light microscope (LM), visible light is passed through a specimen and then through glass lenses Lenses refract (bend) the light, so that the image is magnified © 2011 Pearson Education, Inc.

Three important parameters of microscopy
Magnification, the ratio of an object’s image size to its real size Resolution, the measure of the clarity of the image, or the minimum distance of two distinguishable points Contrast, visible differences in parts of the sample © 2011 Pearson Education, Inc.

Super- resolution microscopy
Figure 6.2 10 m Human height 1 m Length of some nerve and muscle cells 0.1 m Unaided eye Chicken egg 1 cm Frog egg 1 mm Human egg 100 m Most plant and animal cells Light microscopy 10 m Nucleus Most bacteria Mitochondrion 1 m Figure 6.2 The size range of cells. Smallest bacteria Super- resolution microscopy Electron microscopy 100 nm Viruses Ribosomes 10 nm Proteins Lipids 1 nm Small molecules 0.1 nm Atoms

Length of some nerve and muscle cells
Figure 6.2a 10 m Human height 1 m Length of some nerve and muscle cells Unaided eye 0.1 m Chicken egg 1 cm Figure 6.2 The size range of cells. Frog egg 1 mm Human egg 100 m

Super- resolution microscopy
Figure 6.2b 1 cm Frog egg 1 mm Human egg 100 m Most plant and animal cells Light microscopy 10 m Nucleus Most bacteria Mitochondrion 1 m Smallest bacteria Super- resolution microscopy 100 nm Viruses Electron microscopy Figure 6.2 The size range of cells. Ribosomes 10 nm Proteins Lipids 1 nm Small molecules Atoms 0.1 nm

Electron Microscopy (EM)
Figure 6.3 Light Microscopy (LM) Electron Microscopy (EM) Brightfield Confocal Longitudinal section of cilium Cross section of cilium (unstained specimen) Cilia 50 m Brightfield (stained specimen) 50 m 2 m 2 m Transmission electron microscopy (TEM) Scanning electron microscopy (SEM) Deconvolution Phase-contrast 10 m Differential-interference- contrast (Nomarski) Super-resolution Figure 6.3 Exploring: Microscopy Fluorescence 1 m 10 m

Brightfield (unstained specimen) 50 m Figure 6.3a
Figure 6.3 Exploring: Microscopy

Brightfield (stained specimen) Figure 6.3b
Figure 6.3 Exploring: Microscopy

Figure 6.3c Phase-contrast Figure 6.3 Exploring: Microscopy

Differential-interference- contrast (Nomarski)
Figure 6.3d Differential-interference- contrast (Nomarski) Figure 6.3 Exploring: Microscopy

Figure 6.3e Fluorescence 10 m Figure 6.3 Exploring: Microscopy

Figure 6.3f Confocal Figure 6.3 Exploring: Microscopy 50 m

Figure 6.3fa Confocal 50 m Figure 6.3 Exploring: Microscopy

Figure 6.3fb Confocal 50 m Figure 6.3 Exploring: Microscopy

Figure 6.3g Deconvolution 10 m Figure 6.3 Exploring: Microscopy

Figure 6.3h Super-resolution Figure 6.3 Exploring: Microscopy 1 m

Figure 6.3ha Super-resolution 1 m Figure 6.3 Exploring: Microscopy

Figure 6.3hb Super-resolution 1 m Figure 6.3 Exploring: Microscopy

2 m Cilia Scanning electron microscopy (SEM) Figure 6.3i
Figure 6.3 Exploring: Microscopy 2 m Scanning electron microscopy (SEM)

2 m Longitudinal section of cilium Cross section of cilium
Figure 6.3j Longitudinal section of cilium Cross section of cilium Figure 6.3 Exploring: Microscopy 2 m Transmission electron microscopy (TEM)

LMs can magnify effectively to about 1,000 times the size of the actual specimen
Various techniques enhance contrast and enable cell components to be stained or labeled Most subcellular structures, including organelles (membrane-enclosed compartments), are too small to be resolved by an LM © 2011 Pearson Education, Inc.

TEMs are used mainly to study the internal structure of cells
Two basic types of electron microscopes (EMs) are used to study subcellular structures Scanning electron microscopes (SEMs) focus a beam of electrons onto the surface of a specimen, providing images that look 3-D Transmission electron microscopes (TEMs) focus a beam of electrons through a specimen TEMs are used mainly to study the internal structure of cells © 2011 Pearson Education, Inc.

Recent advances in light microscopy
Confocal microscopy and deconvolution microscopy provide sharper images of three-dimensional tissues and cells New techniques for labeling cells improve resolution © 2011 Pearson Education, Inc.

Cell Fractionation Cell fractionation takes cells apart and separates the major organelles from one another Centrifuges fractionate cells into their component parts Cell fractionation enables scientists to determine the functions of organelles Biochemistry and cytology help correlate cell function with structure © 2011 Pearson Education, Inc.

Centrifuged at 1,000 g (1,000 times the force of gravity) for 10 min
Figure 6.4 TECHNIQUE Homogenization Tissue cells Homogenate Centrifuged at 1,000 g (1,000 times the force of gravity) for 10 min Centrifugation Supernatant poured into next tube Differential centrifugation 20,000 g 20 min 80,000 g 60 min Pellet rich in nuclei and cellular debris Figure 6.4 Research Method: Cell Fractionation 150,000 g 3 hr Pellet rich in mitochondria (and chloroplasts if cells are from a plant) Pellet rich in “microsomes” (pieces of plasma membranes and cells’ internal membranes) Pellet rich in ribosomes

TECHNIQUE Homogenization Tissue cells Homogenate Centrifugation
Figure 6.4a TECHNIQUE Homogenization Tissue cells Figure 6.4 Research Method: Cell Fractionation Homogenate Centrifugation

Centrifuged at 1,000 g (1,000 times the force of gravity) for 10 min
Figure 6.4b TECHNIQUE (cont.) Centrifuged at 1,000 g (1,000 times the force of gravity) for 10 min Supernatant poured into next tube Differential centrifugation 20,000 g 20 min 80,000 g 60 min Pellet rich in nuclei and cellular debris 150,000 g 3 hr Figure 6.4 Research Method: Cell Fractionation Pellet rich in mitochondria (and chloroplasts if cells are from a plant) Pellet rich in “microsomes” Pellet rich in ribosomes

Concept 6.2: Eukaryotic cells have internal membranes that compartmentalize their functions
The basic structural and functional unit of every organism is one of two types of cells: prokaryotic or eukaryotic Only organisms of the domains Bacteria and Archaea consist of prokaryotic cells Protists, fungi, animals, and plants all consist of eukaryotic cells © 2011 Pearson Education, Inc.

Comparing Prokaryotic and Eukaryotic Cells
Basic features of all cells Plasma membrane Semifluid substance called cytosol Chromosomes (carry genes) Ribosomes (make proteins) © 2011 Pearson Education, Inc.

Prokaryotic cells are characterized by having
No nucleus DNA in an unbound region called the nucleoid No membrane-bound organelles Cytoplasm bound by the plasma membrane © 2011 Pearson Education, Inc.

Plasma membrane Cell wall Capsule Flagella
Figure 6.5 Fimbriae Nucleoid Ribosomes Plasma membrane Bacterial chromosome Cell wall Capsule 0.5 m Flagella (a) A typical rod-shaped bacterium (b) A thin section through the bacterium Bacillus coagulans (TEM) Figure 6.5 A prokaryotic cell.

A thin section through the bacterium Bacillus coagulans (TEM)
Figure 6.5a Figure 6.5 A prokaryotic cell. 0.5 m (b) A thin section through the bacterium Bacillus coagulans (TEM)

Eukaryotic cells are characterized by having
DNA in a nucleus that is bounded by a membranous nuclear envelope Membrane-bound organelles Cytoplasm in the region between the plasma membrane and nucleus Eukaryotic cells are generally much larger than prokaryotic cells © 2011 Pearson Education, Inc.

The plasma membrane is a selective barrier that allows sufficient passage of oxygen, nutrients, and waste to service the volume of every cell The general structure of a biological membrane is a double layer of phospholipids © 2011 Pearson Education, Inc.

TEM of a plasma membrane Outside of cell
Figure 6.6 (a) TEM of a plasma membrane Outside of cell Inside of cell 0.1 m Carbohydrate side chains Hydrophilic region Figure 6.6 The plasma membrane. Hydrophobic region Hydrophilic region Phospholipid Proteins (b) Structure of the plasma membrane

(a) TEM of a plasma membrane
Figure 6.6a Outside of cell Inside of cell 0.1 m Figure 6.6 The plasma membrane. (a) TEM of a plasma membrane

Metabolic requirements set upper limits on the size of cells
The surface area to volume ratio of a cell is critical As the surface area increases by a factor of n2, the volume increases by a factor of n3 Small cells have a greater surface area relative to volume © 2011 Pearson Education, Inc.

Surface area increases while total volume remains constant
Figure 6.7 Surface area increases while total volume remains constant 5 1 1 Total surface area [sum of the surface areas (height  width) of all box sides  number of boxes] 6 150 750 Figure 6.7 Geometric relationships between surface area and volume. Total volume [height  width  length  number of boxes] 1 125 125 Surface-to-volume (S-to-V) ratio [surface area  volume] 6 1.2 6

A Panoramic View of the Eukaryotic Cell
A eukaryotic cell has internal membranes that partition the cell into organelles Plant and animal cells have most of the same organelles © 2011 Pearson Education, Inc.

BioFlix: Tour of an Animal Cell
© 2011 Pearson Education, Inc.

BioFlix: Tour of a Plant Cell

ENDOPLASMIC RETICULUM (ER) Nuclear envelope Rough ER Smooth ER
Figure 6.8a ENDOPLASMIC RETICULUM (ER) Nuclear envelope Rough ER Smooth ER Flagellum NUCLEUS Nucleolus Chromatin Centrosome Plasma membrane CYTOSKELETON: Microfilaments Intermediate filaments Microtubules Ribosomes Figure 6.8 Exploring: Eukaryotic Cells Microvilli Golgi apparatus Peroxisome Mitochondrion Lysosome

Animal Cells Fungal Cells 1 m Parent cell 10 m Cell wall Buds
Figure 6.8b Animal Cells Fungal Cells 1 m Parent cell 10 m Cell wall Buds Vacuole Cell 5 m Nucleus Nucleus Nucleolus Mitochondrion Human cells from lining of uterus (colorized TEM) Yeast cells budding (colorized SEM) A single yeast cell (colorized TEM) Figure 6.8 Exploring: Eukaryotic Cells

Animal Cells Human cells from lining of uterus (colorized TEM) 10 m
Figure 6.8ba Animal Cells 10 m Cell Nucleus Nucleolus Figure 6.8 Exploring: Eukaryotic Cells Human cells from lining of uterus (colorized TEM)

Fungal Cells Parent cell Buds 5 m Yeast cells budding (colorized SEM)
Figure 6.8bb Fungal Cells Parent cell Buds 5 m Figure 6.8 Exploring: Eukaryotic Cells Yeast cells budding (colorized SEM)

A single yeast cell (colorized TEM)
Figure 6.8bc 1 m Cell wall Vacuole Nucleus Mitochondrion Figure 6.8 Exploring: Eukaryotic Cells A single yeast cell (colorized TEM)

Rough endoplasmic reticulum
Figure 6.8c Nuclear envelope Rough endoplasmic reticulum NUCLEUS Smooth endoplasmic reticulum Nucleolus Chromatin Ribosomes Central vacuole Golgi apparatus Microfilaments Intermediate filaments CYTOSKELETON Microtubules Figure 6.8 Exploring: Eukaryotic Cells Mitochondrion Peroxisome Chloroplast Plasma membrane Cell wall Plasmodesmata Wall of adjacent cell

Plant Cells Protistan Cells Figure 6.8d Chlamydomonas (colorized SEM)
Flagella Cell 1 m 5 m 8 m Cell wall Nucleus Chloroplast Nucleolus Mitochondrion Vacuole Nucleus Nucleolus Chloroplast Chlamydomonas (colorized SEM) Cells from duckweed (colorized TEM) Cell wall Chlamydomonas (colorized TEM) Figure 6.8 Exploring: Eukaryotic Cells

Plant Cells Cell 5 m Cell wall Chloroplast Mitochondrion Nucleus
Figure 6.8da Plant Cells Cell 5 m Cell wall Chloroplast Mitochondrion Nucleus Nucleolus Figure 6.8 Exploring: Eukaryotic Cells Cells from duckweed (colorized TEM)

Protistan Cells 8 m Chlamydomonas (colorized SEM) Figure 6.8db
Figure 6.8 Exploring: Eukaryotic Cells Chlamydomonas (colorized SEM)

Chlamydomonas (colorized TEM)
Figure 6.8dc Protistan Cells Flagella 1 m Nucleus Nucleolus Vacuole Chloroplast Figure 6.8 Exploring: Eukaryotic Cells Cell wall Chlamydomonas (colorized TEM)

Concept 6.3: The eukaryotic cell’s genetic instructions are housed in the nucleus and carried out by the ribosomes The nucleus contains most of the DNA in a eukaryotic cell Ribosomes use the information from the DNA to make proteins © 2011 Pearson Education, Inc.

The Nucleus: Information Central
The nucleus contains most of the cell’s genes and is usually the most conspicuous organelle The nuclear envelope encloses the nucleus, separating it from the cytoplasm The nuclear membrane is a double membrane; each membrane consists of a lipid bilayer © 2011 Pearson Education, Inc.

Figure 6.9 1 m Nucleus Nucleolus Chromatin Nuclear envelope: Inner membrane Outer membrane Nuclear pore Rough ER Pore complex Surface of nuclear envelope Ribosome Figure 6.9 The nucleus and its envelope. Close-up of nuclear envelope Chromatin 0.25 m 1 m Pore complexes (TEM) Nuclear lamina (TEM)

Close-up of nuclear envelope Chromatin
Figure 6.9a Nucleus Nucleolus Chromatin Nuclear envelope: Inner membrane Outer membrane Nuclear pore Rough ER Pore complex Ribosome Figure 6.9 The nucleus and its envelope. Close-up of nuclear envelope Chromatin

Surface of nuclear envelope
Figure 6.9b 1 m Nuclear envelope: Inner membrane Outer membrane Nuclear pore Figure 6.9 The nucleus and its envelope. Surface of nuclear envelope

0.25 m Pore complexes (TEM) Figure 6.9c
Figure 6.9 The nucleus and its envelope.

1 m Nuclear lamina (TEM) Figure 6.9d
Figure 6.9 The nucleus and its envelope. Nuclear lamina (TEM)

Pores regulate the entry and exit of molecules from the nucleus
The shape of the nucleus is maintained by the nuclear lamina, which is composed of protein © 2011 Pearson Education, Inc.

The DNA and proteins of chromosomes are together called chromatin
In the nucleus, DNA is organized into discrete units called chromosomes Each chromosome is composed of a single DNA molecule associated with proteins The DNA and proteins of chromosomes are together called chromatin Chromatin condenses to form discrete chromosomes as a cell prepares to divide The nucleolus is located within the nucleus and is the site of ribosomal RNA (rRNA) synthesis © 2011 Pearson Education, Inc.

Ribosomes: Protein Factories
Ribosomes are particles made of ribosomal RNA and protein Ribosomes carry out protein synthesis in two locations In the cytosol (free ribosomes) On the outside of the endoplasmic reticulum or the nuclear envelope (bound ribosomes) For the Cell Biology Video Staining of Endoplasmic Reticulum, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Free ribosomes in cytosol
Figure 6.10 0.25 m Free ribosomes in cytosol Endoplasmic reticulum (ER) Ribosomes bound to ER Large subunit Small subunit Figure 6.10 Ribosomes. TEM showing ER and ribosomes Diagram of a ribosome

Free ribosomes in cytosol
Figure 6.10a 0.25 m Free ribosomes in cytosol Endoplasmic reticulum (ER) Ribosomes bound to ER Figure 6.10 Ribosomes. TEM showing ER and ribosomes

Concept 6.4: The endomembrane system regulates protein traffic and performs metabolic functions in the cell Components of the endomembrane system Nuclear envelope Endoplasmic reticulum Golgi apparatus Lysosomes Vacuoles Plasma membrane These components are either continuous or connected via transfer by vesicles © 2011 Pearson Education, Inc.

The Endoplasmic Reticulum: Biosynthetic Factory
The endoplasmic reticulum (ER) accounts for more than half of the total membrane in many eukaryotic cells The ER membrane is continuous with the nuclear envelope There are two distinct regions of ER Smooth ER, which lacks ribosomes Rough ER, surface is studded with ribosomes For the Cell Biology Video ER and Mitochondria in Leaf Cells, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Smooth ER Nuclear envelope Rough ER ER lumen Cisternae Transitional ER
Figure 6.11 Smooth ER Nuclear envelope Rough ER ER lumen Cisternae Transitional ER Ribosomes Transport vesicle 200 nm Smooth ER Rough ER Figure 6.11 Endoplasmic reticulum (ER).

Smooth ER Rough ER Nuclear envelope ER lumen Cisternae Transitional ER
Figure 6.11a Smooth ER Rough ER Nuclear envelope Figure 6.11 Endoplasmic reticulum (ER). ER lumen Cisternae Transitional ER Ribosomes Transport vesicle

200 nm Smooth ER Rough ER Figure 6.11b
Figure 6.11 Endoplasmic reticulum (ER).

Functions of Smooth ER The smooth ER Synthesizes lipids
Metabolizes carbohydrates Detoxifies drugs and poisons Stores calcium ions © 2011 Pearson Education, Inc.

Functions of Rough ER The rough ER
Has bound ribosomes, which secrete glycoproteins (proteins covalently bonded to carbohydrates) Distributes transport vesicles, proteins surrounded by membranes Is a membrane factory for the cell © 2011 Pearson Education, Inc.

The Golgi Apparatus: Shipping and Receiving Center
The Golgi apparatus consists of flattened membranous sacs called cisternae Functions of the Golgi apparatus Modifies products of the ER Manufactures certain macromolecules Sorts and packages materials into transport vesicles For the Cell Biology Video ER to Golgi Traffic, go to Animation and Video Files. For the Cell Biology Video Golgi Complex in 3D, go to Animation and Video Files. For the Cell Biology Video Secretion From the Golgi, go to Animation and Video Files. © 2011 Pearson Education, Inc.

cis face (“receiving” side of Golgi apparatus)
Figure 6.12 cis face (“receiving” side of Golgi apparatus) 0.1 m Cisternae Figure 6.12 The Golgi apparatus. trans face (“shipping” side of Golgi apparatus) TEM of Golgi apparatus

0.1 m TEM of Golgi apparatus Figure 6.12a
Figure 6.12 The Golgi apparatus. TEM of Golgi apparatus

Lysosomes: Digestive Compartments
A lysosome is a membranous sac of hydrolytic enzymes that can digest macromolecules Lysosomal enzymes can hydrolyze proteins, fats, polysaccharides, and nucleic acids Lysosomal enzymes work best in the acidic environment inside the lysosome © 2011 Pearson Education, Inc.

Animation: Lysosome Formation Right-click slide / select “Play”

A lysosome fuses with the food vacuole and digests the molecules
Some types of cell can engulf another cell by phagocytosis; this forms a food vacuole A lysosome fuses with the food vacuole and digests the molecules Lysosomes also use enzymes to recycle the cell’s own organelles and macromolecules, a process called autophagy For the Cell Biology Video Phagocytosis in Action, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Figure 6.13 Figure 6.13 Lysosomes.
Vesicle containing two damaged organelles 1 m Nucleus 1 m Mitochondrion fragment Lysosome Peroxisome fragment Digestive enzymes Lysosome Lysosome Peroxisome Plasma membrane Figure 6.13 Lysosomes. Digestion Food vacuole Mitochondrion Digestion Vesicle (a) Phagocytosis (b) Autophagy

1 m Nucleus Lysosome Digestive enzymes Lysosome Plasma membrane
Figure 6.13a 1 m Nucleus Lysosome Digestive enzymes Figure 6.13 Lysosomes. Lysosome Plasma membrane Digestion Food vacuole (a) Phagocytosis

Figure 6.13aa 1 m Nucleus Figure 6.13 Lysosomes. Lysosome

Vesicle containing two damaged organelles
Figure 6.13b Vesicle containing two damaged organelles 1 m Mitochondrion fragment Peroxisome fragment Lysosome Figure 6.13 Lysosomes. Peroxisome Digestion Mitochondrion Vesicle (b) Autophagy

Vesicle containing two damaged organelles
Figure 6.13bb Vesicle containing two damaged organelles 1 m Mitochondrion fragment Figure 6.13 Lysosomes. Peroxisome fragment

Vacuoles: Diverse Maintenance Compartments
A plant cell or fungal cell may have one or several vacuoles, derived from endoplasmic reticulum and Golgi apparatus © 2011 Pearson Education, Inc.

Food vacuoles are formed by phagocytosis
Contractile vacuoles, found in many freshwater protists, pump excess water out of cells Central vacuoles, found in many mature plant cells, hold organic compounds and water © 2011 Pearson Education, Inc.

Video: Paramecium Vacuole

Central vacuole Cytosol Central vacuole Nucleus Cell wall Chloroplast
Figure 6.14 Central vacuole Cytosol Central vacuole Nucleus Figure 6.14 The plant cell vacuole. Cell wall Chloroplast 5 m

Cytosol Central vacuole Nucleus Cell wall Chloroplast 5 m
Figure 6.14a Cytosol Central vacuole Nucleus Cell wall Figure 6.14 The plant cell vacuole. Chloroplast 5 m

The Endomembrane System: A Review
The endomembrane system is a complex and dynamic player in the cell’s compartmental organization © 2011 Pearson Education, Inc.

Nucleus Rough ER Smooth ER Plasma membrane Figure 6.15-1
Figure 6.15 Review: relationships among organelles of the endomembrane system. Plasma membrane

Nucleus Rough ER Smooth ER cis Golgi Plasma membrane trans Golgi
Figure Nucleus Rough ER Smooth ER cis Golgi Figure 6.15 Review: relationships among organelles of the endomembrane system. Plasma membrane trans Golgi

Concept 6.5: Mitochondria and chloroplasts change energy from one form to another
Mitochondria are the sites of cellular respiration, a metabolic process that uses oxygen to generate ATP Chloroplasts, found in plants and algae, are the sites of photosynthesis Peroxisomes are oxidative organelles For the Cell Biology Video ER and Mitochondria in Leaf Cells, go to Animation and Video Files. For the Cell Biology Video Mitochondria in 3D, go to Animation and Video Files. For the Cell Biology Video Chloroplast Movement, go to Animation and Video Files. © 2011 Pearson Education, Inc.

The Evolutionary Origins of Mitochondria and Chloroplasts
Mitochondria and chloroplasts have similarities with bacteria Enveloped by a double membrane Contain free ribosomes and circular DNA molecules Grow and reproduce somewhat independently in cells © 2011 Pearson Education, Inc.

The Endosymbiont theory
An early ancestor of eukaryotic cells engulfed a nonphotosynthetic prokaryotic cell, which formed an endosymbiont relationship with its host The host cell and endosymbiont merged into a single organism, a eukaryotic cell with a mitochondrion At least one of these cells may have taken up a photosynthetic prokaryote, becoming the ancestor of cells that contain chloroplasts © 2011 Pearson Education, Inc.

Endoplasmic reticulum Nucleus
Figure 6.16 Endoplasmic reticulum Nucleus Engulfing of oxygen- using nonphotosynthetic prokaryote, which becomes a mitochondrion Nuclear envelope Ancestor of eukaryotic cells (host cell) Mitochondrion Engulfing of photosynthetic prokaryote At least one cell Figure 6.16 The endosymbiont theory of the origin of mitochondria and chloroplasts in eukaryotic cells. Chloroplast Nonphotosynthetic eukaryote Mitochondrion Photosynthetic eukaryote

Mitochondria: Chemical Energy Conversion
Mitochondria are in nearly all eukaryotic cells They have a smooth outer membrane and an inner membrane folded into cristae The inner membrane creates two compartments: intermembrane space and mitochondrial matrix Some metabolic steps of cellular respiration are catalyzed in the mitochondrial matrix Cristae present a large surface area for enzymes that synthesize ATP © 2011 Pearson Education, Inc.

Figure 6.17 10 m Intermembrane space Outer Mitochondria membrane DNA Inner Mitochondrial DNA Free ribosomes in the mitochondrial matrix membrane Cristae Figure 6.17 The mitochondrion, site of cellular respiration. Matrix Nuclear DNA 0.1 m (a) Diagram and TEM of mitochondrion (b) Network of mitochondria in a protist cell (LM)

Free ribosomes in the mitochondrial matrix membrane
Figure 6.17a Intermembrane space Outer membrane DNA Inner Free ribosomes in the mitochondrial matrix membrane Cristae Figure 6.17 The mitochondrion, site of cellular respiration. Matrix 0.1 m (a) Diagram and TEM of mitochondrion

Outer membrane Inner membrane Cristae Matrix 0.1 m
Figure 6.17aa Outer membrane Inner membrane Figure 6.17 The mitochondrion, site of cellular respiration. Cristae Matrix 0.1 m

Network of mitochondria in a protist cell (LM)
Figure 6.17b 10 m Mitochondria Mitochondrial DNA Figure 6.17 The mitochondrion, site of cellular respiration. Nuclear DNA (b) Network of mitochondria in a protist cell (LM)

Chloroplasts: Capture of Light Energy
Chloroplasts contain the green pigment chlorophyll, as well as enzymes and other molecules that function in photosynthesis Chloroplasts are found in leaves and other green organs of plants and in algae © 2011 Pearson Education, Inc.

Chloroplast structure includes
Thylakoids, membranous sacs, stacked to form a granum Stroma, the internal fluid The chloroplast is one of a group of plant organelles, called plastids © 2011 Pearson Education, Inc.

Figure 6.18 The chloroplast, site of photosynthesis.
Ribosomes 50 m Stroma Inner and outer membranes Granum Chloroplasts (red) DNA Thylakoid Intermembrane space 1 m Figure 6.18 The chloroplast, site of photosynthesis. (a) Diagram and TEM of chloroplast (b) Chloroplasts in an algal cell

(a) Diagram and TEM of chloroplast
Figure 6.18a Ribosomes Stroma Inner and outer membranes Granum DNA Figure 6.18 The chloroplast, site of photosynthesis. Thylakoid Intermembrane space 1 m (a) Diagram and TEM of chloroplast

Stroma Inner and outer membranes Granum 1 m Figure 6.18aa
Figure 6.18 The chloroplast, site of photosynthesis. 1 m

(b) Chloroplasts in an algal cell
Figure 6.18b 50 m Chloroplasts (red) Figure 6.18 The chloroplast, site of photosynthesis. (b) Chloroplasts in an algal cell

Peroxisomes: Oxidation
Peroxisomes are specialized metabolic compartments bounded by a single membrane Peroxisomes produce hydrogen peroxide and convert it to water Peroxisomes perform reactions with many different functions How peroxisomes are related to other organelles is still unknown © 2011 Pearson Education, Inc.

1 m Chloroplast Peroxisome Mitochondrion Figure 6.19
Figure 6.19 A peroxisome.

Concept 6.6: The cytoskeleton is a network of fibers that organizes structures and activities in the cell The cytoskeleton is a network of fibers extending throughout the cytoplasm It organizes the cell’s structures and activities, anchoring many organelles It is composed of three types of molecular structures Microtubules Microfilaments Intermediate filaments For the Cell Biology Video The Cytoskeleton in a Neuron Growth Cone, go to Animation and Video Files For the Cell Biology Video Cytoskeletal Protein Dynamics, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Figure 6.20 Figure 6.20 The cytoskeleton. 10 m

Roles of the Cytoskeleton: Support and Motility
The cytoskeleton helps to support the cell and maintain its shape It interacts with motor proteins to produce motility Inside the cell, vesicles can travel along “monorails” provided by the cytoskeleton Recent evidence suggests that the cytoskeleton may help regulate biochemical activities © 2011 Pearson Education, Inc.

Receptor for motor protein
Figure 6.21 Vesicle ATP Receptor for motor protein Motor protein (ATP powered) Microtubule of cytoskeleton (a) Microtubule Vesicles 0.25 m Figure 6.21 Motor proteins and the cytoskeleton. (b)

Microtubule 0.25 m Vesicles (b) Figure 6.21a
Figure 6.21 Motor proteins and the cytoskeleton. (b)

Components of the Cytoskeleton
Three main types of fibers make up the cytoskeleton Microtubules are the thickest of the three components of the cytoskeleton Microfilaments, also called actin filaments, are the thinnest components Intermediate filaments are fibers with diameters in a middle range For the Cell Biology Video Actin Network in Crawling Cells, go to Animation and Video Files. For the Cell Biology Video Actin Visualization in Dendrites, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Table 6.1 The Structure and Function of the Cytoskeleton
10 m 10 m 5 m Table 6.1 The Structure and Function of the Cytoskeleton Column of tubulin dimers Keratin proteins Actin subunit Fibrous subunit (keratins coiled together) 25 nm 7 nm 812 nm   Tubulin dimer

Column of tubulin dimers
Table 6.1a 10 m Table 6.1 The Structure and Function of the Cytoskeleton Column of tubulin dimers 25 nm   Tubulin dimer

Table 6.1aa 10 m Table 6.1 The Structure and Function of the Cytoskeleton

10 m Actin subunit 7 nm Table 6.1b
Table 6.1 The Structure and Function of the Cytoskeleton Actin subunit 7 nm

Table 6.1bb 10 m Table 6.1 The Structure and Function of the Cytoskeleton

5 m Keratin proteins Fibrous subunit (keratins coiled together)
Table 6.1c 5 m Table 6.1 The Structure and Function of the Cytoskeleton Keratin proteins Fibrous subunit (keratins coiled together) 812 nm

Table 6.1cc 5 m Table 6.1 The Structure and Function of the Cytoskeleton

Microtubules Microtubules are hollow rods about 25 nm in diameter and about 200 nm to 25 microns long Functions of microtubules Shaping the cell Guiding movement of organelles Separating chromosomes during cell division For the Cell Biology Video Transport Along Microtubules, go to Animation and Video Files. For the Cell Biology Video Movement of Organelles in Vivo, go to Animation and Video Files. For the Cell Biology Video Movement of Organelles in Vitro, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Centrosomes and Centrioles
In many cells, microtubules grow out from a centrosome near the nucleus The centrosome is a “microtubule-organizing center” In animal cells, the centrosome has a pair of centrioles, each with nine triplets of microtubules arranged in a ring © 2011 Pearson Education, Inc.

Longitudinal section of one centriole
Figure 6.22 Centrosome Microtubule Centrioles 0.25 m Longitudinal section of one centriole Figure 6.22 Centrosome containing a pair of centrioles. Microtubules Cross section of the other centriole

Longitudinal section of one centriole
Figure 6.22a 0.25 m Longitudinal section of one centriole Figure 6.22 Centrosome containing a pair of centrioles. Microtubules Cross section of the other centriole

Video: Paramecium Cilia

Power stroke Recovery stroke
Figure 6.23 Direction of swimming (a) Motion of flagella 5 m Direction of organism’s movement Figure 6.23 A comparison of the beating of flagella and motile cilia. Power stroke Recovery stroke (b) Motion of cilia 15 m

Figure 6.23a Figure 6.23 A comparison of the beating of flagella and motile cilia. 5 m

Figure 6.23b Figure 6.23 A comparison of the beating of flagella and motile cilia. 15 m

Cilia and flagella share a common structure
A core of microtubules sheathed by the plasma membrane A basal body that anchors the cilium or flagellum A motor protein called dynein, which drives the bending movements of a cilium or flagellum © 2011 Pearson Education, Inc.

Animation: Cilia and Flagella Right-click slide / select “Play”

Outer microtubule doublet Plasma membrane
Figure 6.24 0.1 m Outer microtubule doublet Plasma membrane Dynein proteins Central microtubule Radial spoke Microtubules Cross-linking proteins between outer doublets (b) Cross section of motile cilium Plasma membrane Basal body 0.5 m 0.1 m (a) Longitudinal section of motile cilium Triplet Figure 6.24 Structure of a flagellum or motile cilium. (c) Cross section of basal body

Longitudinal section of motile cilium
Figure 6.24a Microtubules Plasma membrane Basal body Figure 6.24 Structure of a flagellum or motile cilium. 0.5 m (a) Longitudinal section of motile cilium

Outer microtubule doublet Plasma membrane
Figure 6.24b 0.1 m Outer microtubule doublet Plasma membrane Dynein proteins Central microtubule Radial spoke Cross-linking proteins between outer doublets (b) Cross section of motile cilium Figure 6.24 Structure of a flagellum or motile cilium.

Outer microtubule doublet
Figure 6.24ba 0.1 m Outer microtubule doublet Dynein proteins Central microtubule Radial spoke Cross-linking proteins between outer doublets Figure 6.24 Structure of a flagellum or motile cilium. (b) Cross section of motile cilium

Cross section of basal body
Figure 6.24c 0.1 m Triplet Figure 6.24 Structure of a flagellum or motile cilium. (c) Cross section of basal body

Cross section of basal body
Figure 6.24ca 0.1 m Triplet Figure 6.24 Structure of a flagellum or motile cilium. (c) Cross section of basal body

How dynein “walking” moves flagella and cilia
Dynein arms alternately grab, move, and release the outer microtubules Protein cross-links limit sliding Forces exerted by dynein arms cause doublets to curve, bending the cilium or flagellum For the Cell Biology Video Motion of Isolated Flagellum, go to Animation and Video Files. For the Cell Biology Video Flagellum Movement in Swimming Sperm, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Figure 6.25 How dynein “walking” moves flagella and cilia.
Microtubule doublets ATP Dynein protein (a) Effect of unrestrained dynein movement Cross-linking proteins between outer doublets ATP Anchorage in cell Figure 6.25 How dynein “walking” moves flagella and cilia. (b) Effect of cross-linking proteins 1 3 2 (c) Wavelike motion

(a) Effect of unrestrained dynein movement
Figure 6.25a Microtubule doublets ATP Figure 6.25 How dynein “walking” moves flagella and cilia. Dynein protein (a) Effect of unrestrained dynein movement

Anchorage in cell Cross-linking proteins between outer doublets ATP 1
Figure 6.25b Cross-linking proteins between outer doublets ATP 1 3 2 Anchorage in cell Figure 6.25 How dynein “walking” moves flagella and cilia. (b) Effect of cross-linking proteins (c) Wavelike motion

Microfilaments (Actin Filaments)
Microfilaments are solid rods about 7 nm in diameter, built as a twisted double chain of actin subunits The structural role of microfilaments is to bear tension, resisting pulling forces within the cell They form a 3-D network called the cortex just inside the plasma membrane to help support the cell’s shape Bundles of microfilaments make up the core of microvilli of intestinal cells © 2011 Pearson Education, Inc.

Microfilaments (actin filaments)
Figure 6.26 Microvillus Plasma membrane Microfilaments (actin filaments) Figure 6.26 A structural role of microfilaments. Intermediate filaments 0.25 m

Microfilaments that function in cellular motility contain the protein myosin in addition to actin
In muscle cells, thousands of actin filaments are arranged parallel to one another Thicker filaments composed of myosin interdigitate with the thinner actin fibers © 2011 Pearson Education, Inc.

Figure 6.27 Microfilaments and motility.
Muscle cell 0.5 m Actin filament Myosin filament Myosin head (a) Myosin motors in muscle cell contraction Cortex (outer cytoplasm): gel with actin network 100 m Inner cytoplasm: sol with actin subunits Extending pseudopodium Figure 6.27 Microfilaments and motility. (b) Amoeboid movement Chloroplast 30 m (c) Cytoplasmic streaming in plant cells

Muscle cell 0.5 m Actin filament Myosin filament Myosin head
Figure 6.27a Muscle cell 0.5 m Actin filament Myosin filament Myosin Figure 6.27 Microfilaments and motility. head (a) Myosin motors in muscle cell contraction

Figure 6.27aa 0.5 m Figure 6.27 Microfilaments and motility.

Cortex (outer cytoplasm): gel with actin network
Figure 6.27b Cortex (outer cytoplasm): gel with actin network 100 m Inner cytoplasm: sol with actin subunits Figure 6.27 Microfilaments and motility. Extending pseudopodium (b) Amoeboid movement

Chloroplast 30 m (c) Cytoplasmic streaming in plant cells
Figure 6.27c Chloroplast 30 m Figure 6.27 Microfilaments and motility. (c) Cytoplasmic streaming in plant cells

Localized contraction brought about by actin and myosin also drives amoeboid movement
Pseudopodia (cellular extensions) extend and contract through the reversible assembly and contraction of actin subunits into microfilaments © 2011 Pearson Education, Inc.

Cytoplasmic streaming is a circular flow of cytoplasm within cells
This streaming speeds distribution of materials within the cell In plant cells, actin-myosin interactions and sol-gel transformations drive cytoplasmic streaming © 2011 Pearson Education, Inc.

Video: Cytoplasmic Streaming

Intermediate Filaments
Intermediate filaments range in diameter from 8–12 nanometers, larger than microfilaments but smaller than microtubules They support cell shape and fix organelles in place Intermediate filaments are more permanent cytoskeleton fixtures than the other two classes For the Cell Biology Video Interphase Microtubule Dynamics, go to Animation and Video Files. For the Cell Biology Video Microtubule Sliding in Flagellum Movement, go to Animation and Video Files. For the Cell Biology Video Microtubule Dynamics, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Concept 6.7: Extracellular components and connections between cells help coordinate cellular activities Most cells synthesize and secrete materials that are external to the plasma membrane These extracellular structures include Cell walls of plants The extracellular matrix (ECM) of animal cells Intercellular junctions For the Cell Biology Video Ciliary Motion, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Cell Walls of Plants The cell wall is an extracellular structure that distinguishes plant cells from animal cells Prokaryotes, fungi, and some protists also have cell walls The cell wall protects the plant cell, maintains its shape, and prevents excessive uptake of water Plant cell walls are made of cellulose fibers embedded in other polysaccharides and protein © 2011 Pearson Education, Inc.

Plant cell walls may have multiple layers
Primary cell wall: relatively thin and flexible Middle lamella: thin layer between primary walls of adjacent cells Secondary cell wall (in some cells): added between the plasma membrane and the primary cell wall Plasmodesmata are channels between adjacent plant cells For the Cell Biology Video E-cadherin Expression, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Secondary cell wall Primary cell wall Middle lamella 1 m
Figure 6.28 Secondary cell wall Primary cell wall Middle lamella 1 m Central vacuole Cytosol Figure 6.28 Plant cell walls. Plasma membrane Plant cell walls Plasmodesmata

Secondary cell wall Primary cell wall Middle lamella 1 m Figure 6.28a
Figure 6.28 Plant cell walls. 1 m

10 m RESULTS Distribution of cellulose synthase over time
Figure 6.29 RESULTS 10 m Figure 6.29 Inquiry: What role do microtubules play in orienting deposition of cellulose in cell walls? Distribution of cellulose synthase over time Distribution of microtubules over time

10 m Distribution of cellulose synthase over time Figure 6.29a
Figure 6.29 Inquiry: What role do microtubules play in orienting deposition of cellulose in cell walls? Distribution of cellulose synthase over time

10 m Distribution of microtubules over time Figure 6.29b
Figure 6.29 Inquiry: What role do microtubules play in orienting deposition of cellulose in cell walls? Distribution of microtubules over time

The Extracellular Matrix (ECM) of Animal Cells
Animal cells lack cell walls but are covered by an elaborate extracellular matrix (ECM) The ECM is made up of glycoproteins such as collagen, proteoglycans, and fibronectin ECM proteins bind to receptor proteins in the plasma membrane called integrins For the Cell Biology Video Cartoon Model of a Collagen Triple Helix, go to Animation and Video Files. For the Cell Biology Video Staining of the Extracellular Matrix, go to Animation and Video Files. For the Cell Biology Video Fibronectin Fibrils, go to Animation and Video Files. © 2011 Pearson Education, Inc.

Figure 6.30 Extracellular matrix (ECM) of an animal cell.
Collagen EXTRACELLULAR FLUID Polysaccharide molecule Proteoglycan complex Carbo- hydrates Fibronectin Core protein Integrins Proteoglycan molecule Plasma membrane Proteoglycan complex Figure 6.30 Extracellular matrix (ECM) of an animal cell. Micro- filaments CYTOPLASM

Collagen EXTRACELLULAR FLUID Proteoglycan complex Fibronectin
Figure 6.30a Collagen EXTRACELLULAR FLUID Proteoglycan complex Fibronectin Integrins Plasma membrane Figure 6.30 Extracellular matrix (ECM) of an animal cell. CYTOPLASM Micro- filaments

Polysaccharide molecule
Figure 6.30b Polysaccharide molecule Carbohydrates Core protein Figure 6.30 Extracellular matrix (ECM) of an animal cell. Proteoglycan molecule Proteoglycan complex

Functions of the ECM Support Adhesion Movement Regulation

Cell Junctions Neighboring cells in tissues, organs, or organ systems often adhere, interact, and communicate through direct physical contact Intercellular junctions facilitate this contact There are several types of intercellular junctions Plasmodesmata Tight junctions Desmosomes Gap junctions © 2011 Pearson Education, Inc.

Plasmodesmata in Plant Cells
Plasmodesmata are channels that perforate plant cell walls Through plasmodesmata, water and small solutes (and sometimes proteins and RNA) can pass from cell to cell © 2011 Pearson Education, Inc.

Cell walls Interior of cell Interior of cell Plasmodesmata
Figure 6.31 Cell walls Interior of cell Interior of cell Figure 6.31 Plasmodesmata between plant cells. Plasma membranes 0.5 m Plasmodesmata

Tight Junctions, Desmosomes, and Gap Junctions in Animal Cells
At tight junctions, membranes of neighboring cells are pressed together, preventing leakage of extracellular fluid Desmosomes (anchoring junctions) fasten cells together into strong sheets Gap junctions (communicating junctions) provide cytoplasmic channels between adjacent cells © 2011 Pearson Education, Inc.

Animation: Tight Junctions Right-click slide / select “Play”

Animation: Desmosomes Right-click slide / select “Play”

Figure 6.32 Exploring: Cell Junctions in Animal Tissues
Tight junctions prevent fluid from moving across a layer of cells Tight junction TEM 0.5 m Tight junction Intermediate filaments Desmosome TEM 1 m Figure 6.32 Exploring: Cell Junctions in Animal Tissues Gap junction Ions or small molecules Space between cells TEM Extracellular matrix Plasma membranes of adjacent cells 0.1 m

Tight junctions prevent fluid from moving across a layer of cells
Figure 6.32a Tight junctions prevent fluid from moving across a layer of cells Tight junction Intermediate filaments Desmosome Gap junction Figure 6.32 Exploring: Cell Junctions in Animal Tissues Ions or small molecules Plasma membranes of adjacent cells Space between cells Extracellular matrix

Tight junction TEM 0.5 m Figure 6.32b
Figure 6.32 Exploring: Cell Junctions in Animal Tissues TEM 0.5 m

Figure 6.32c Figure 6.32 Exploring: Cell Junctions in Animal Tissues TEM 1 m

Figure 6.32d Figure 6.32 Exploring: Cell Junctions in Animal Tissues TEM 0.1 m

The Cell: A Living Unit Greater Than the Sum of Its Parts
Cells rely on the integration of structures and organelles in order to function For example, a macrophage’s ability to destroy bacteria involves the whole cell, coordinating components such as the cytoskeleton, lysosomes, and plasma membrane © 2011 Pearson Education, Inc.

Figure 6.33 Figure 6.33 The emergence of cellular functions. 5 m

Figure 6.UN01 Summary table, Concepts 6.3–6.5
Nucleus (ER) (Nuclear envelope) Figure 6.UN01 Summary table, Concepts 6.3–6.5

Figure 6.UN01a Summary table, Concept 6.3
Nucleus (ER) Figure 6.UN01a Summary table, Concept 6.3

Figure 6.UN01b Summary table, Concept 6.4
(Nuclear envelope) Figure 6.UN01b Summary table, Concept 6.4

Figure 6.UN01c Figure 6.UN01c Summary table, Concept 6.5

Figure 6.UN02 Figure 6.UN02 Appendix A: answer to Figure 6.22 legend question

Figure 6.UN03 Figure 6.UN03 Appendix A: answer to Figure 6.24 legend question

Figure 6.UN04 Figure 6.UN04 Appendix A: answer to Concept Check 6.2, question 2

Chapter 6 A Tour of the Cell.

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Chapter 6 A Tour of the Cell.

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