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Lecture Slide Notes
Cell Structure, Function, and Early Development
115
Biology
Undergraduate 2
11/13/2012

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Term
Fluorescence microscopy
Definition
a natural substance in the cell or a fluorescent dye binds to a specific cell material and emits longer wavelengths when stimulated by light
Term
Confocal microscopy
Definition
uses fluorescent dyes like fluorescence microscopy but adds a system of focusing on both the stimulating and emitted light in a single plane (sharper 2d images than fluorescence)
Term
Stained bright-field microscopy
Definition
A stain added to preserve cells enhances contrast and reveals details not otherwise visible
Term
Transmission electron microscopy
Definition
10 micro meters
Term
Scanning electron microscopy
Definition
20 micrometers
Term
Freeze-fracture microscopy
Definition
0.1 micrometers
Term
Cell Theory
Definition
first separately formulated by Matthias Schleiden, Theodore Schwann, and Rudolph Virchow.

All living organisms are made of cells. Cells are the smallest units that can sustain life. Cells are the main structural and functional units of life. All cells arise by division of pre-existing cells (life does not arise spontaneously)
Term
Louis Pasteus
Definition
tested out whether life could arise spontaneously or not
Term
Why are cells small?
Definition
The process of diffusion limits their size. Cells need a large surface area to volume ratio.
Term
Three Domains of Life
Definition
Bacteria, Eukarya, Archaea
Term
Prokaryotes
Definition
bacteria, archaea (always unicellular)

-helical, bacilli and cocci shapes
-can form colonies
-DNA free floating, found in area called nucleoid
Term
Eukaryotes
Definition
yeasts, protists, plants, animals, etc (can be unicellular or multicellular)

-has a nucleus
-has a complex cytoplasm with organelles
Term
Similarities between Pro/Eukaryotes
Definition
DNA is genetic material of life, are membrane bound, have ribosomes, similar metabolism, similar chemical compound makeup
Term
Nucleoid
Definition
region in prokaryote where DNA floats
Term
Cell Wall of Prokaryote
Definition
made of rigid peptidoglycan
Term
Periplasmic space
Definition
the space inbetween the second and first outermembrane of a prokaryote
Term
Flagella (prokaryote)
Definition
Spins like a helicopter to move. Clockwise rotation
Term
Pili
Definition
short thread-like structures projecting from the surface that help bacteria adhere to each other and to various surfaces
Term
Alexander Fleming
Definition
discoverer of penicillin
Term
Penicillin
Definition
inhibits the synthesis of the bacterial peptidoglycan cell walls to kill bacteria
Term
Nuclear envelope
Definition
the double membrane bounding the nucleus
Term
Nuclear lamina
Definition
a strong meshwork of filaments under the inner membrane of the nuclear envelope
Term
Nucleoli
Definition
distinct regions within the nucleus where RNA polymerase I transcribes the rDNA
Term
Nuclear pore complexes
Definition
main route of passage through nuclear envelope. Made from 8 protein complexes arranged in a circle.
Term
Nuclear localization signal (NLS)
Definition
is required on proteins destined for import into the nucleus
Term
Mitochondria
Definition
an organelle about the size of a bacterial cell, has its own DNA, ribosomes, makes more than a dozen proteins. Important for energy production, cellular regulation of calcium ions, triggers programmed death. Grow and divide by binary fission. Double membrane organelle.
Term
Cristae
Definition
the folded shelf-like structures within the mitochondria and contain the ATP-synthesizing enzymes
Term
Matrix
Definition
the inner compartment of a mitochondria
Term
Plastid
Definition
present in plants and most protists. double membraned, main function is photosynthesis or storage.
Term
Chloroplasts
Definition
type of plastid that carries out photosynthesis
Term
Grana
Definition
membrane sacks within a chloroplast. The individual sacks called thylakoids
Term
Stroma
Definition
the inside region of chloroplasts. Contains DNA and ribosomes
Term
Chromoplasts
Definition
organelles filled with pigments (red, yellow, orange) that synthesize and store pigments - attractant for pollinating insects.
Term
Leucoplasts
Definition
depots for synthesis and storage of starch and fats. Located in roots and non-photosynthetic tissues
Term
Endosymbiosis
Definition
when larger prokaryotes ingested smaller ones but did not digest them double-membrane organelles were born
Term
Lysosomes
Definition
single membrane vesicles - part of the endo-membrane system. Contains digestive enzymes, breaks down macromolecules
Term
Tay-Sachs disease
Definition
a disease of the lysosomes in which they cannot break down certain membrane glycolipids. Causes blindness, dementia, death by 3-4 years old
Term
Peroxisomes
Definition
granullar or crystalline interiors, destroy toxic peroxides
Term
Plant vacuoles
Definition
storage of toxic waste materials, storage of food or nutrients, provides turgor
Term
3 types of skeletal fibers
Definition
Actin filaments/microfilaments, intermediate filaments, microtubules
Term
Actin filaments
Definition
two primary functions: cell shape and cell movement
Term
Treadmilling
Definition
the assembly at the plus end of an actin filament and disassembly at the minus end (not charged, just names of ends)
Term
Stress fibers
Definition
bundles of actin filaments that help maintain cell shape and keep cells elongated
Term
microvilli
Definition
groups of actin filaments projecting from the cells surface
Term
Focal adhesion
Definition
places where stress fibers attach to the plasma membrane and anchor cells to the substrate
Term
How do amoebas move?
Definition
through microfilaments in the cytoskeleton allowing it to extend its membrane
Term
Microtubules
Definition
maintain cell shape as well, and various kinds of movement (different then those associate with microfilaments)
Term
Dynamic Instability
Definition
switching between growth and shortening at microtubule ends. Happens in microtubules
Term
centrosomes
Definition
aka Microtubule Organizing Centers (MTOCs). The place where microtubules are "organized" in cells.

In animal cells they consist of a pair of centrioles and surrounded by an ill-defined pericentriolar matrix
Term
Eukaryotic flagella and cilia
Definition
machines for cell motility. Microtubule-machines.

Cross-sections of cilia short a 9+2 pattern
Term
Dynein
Definition
motor proteins which are enzymes that use energy from ATP hydrolysis to make microtubules slide past each other (called walking)
Term
How do vesicles move along microtubules
Definition
use dynein and kinesin motors
Term
Intermediate filaments
Definition
used for structural support, similar in distribution in cells to microtubules but not dynamic. Made of sheets of 8 tetramers

-Nuclear lamins
-Keratin filaments
-Neurofilaments
Term
Epidermolysis Bullosa
Definition
a group of inherited skin diseases that involves formation of blisters following trivial trauma. Due to a defect in mutations in keratin
Term
Three basic mechanisms of transport across membranes
Definition
-Passive Diffusion
-Carrier Mediated Diffusion
-ATP-dependent Transport
Term
Passive Diffusion
Definition
the simplest method of transport across membranes. Flow is with concentration gradient, no energy required nor are carrier proteins. Molecules do not become concentrated on either side. Water and lipid-soluble uncharged molecules
Term
Carrier Mediated Diffusion
Definition
transported molecules are helped by receptor proteins or carriers. Can occur in either direction depending on the concentration gradient
Term
Active (ATP) transport
Definition
carriers use ATP to "pump" molecules against their concentration gradient

-Uniporters
-Symporters
-Antiporters
Term
Uniporters
Definition
transport one substance in one direction
Term
Symporters
Definition
transport two different substances in the same direction
Term
Antiporters
Definition
transport two different substances in opposite directions
Term
Endocytosis
Definition
the process of trasnporting complex particles into the cell across the membrane by forming membrane vesicles
Term
3 Types of Membrane Vesicles
Definition
-Phagocytes
-Pinocytes
-Receptor-mediated endocytosis
Term
Phagocytosis
Definition
large particles and small cells are engulfed inside vesicles
Term
Pinocytosis
Definition
cells take up water into vesicles
Term
Receptor-mediated endocytosis
Definition
a specialized form of endocytosis for taking certain kinds of macromolecules into cells.Uses clathrin molecules
Term
Familial Hypercholesterolemia
Definition
absence of a functional LDL receptor prevents cholesterol from entering cells and it accumulates in the blood
Term
Exocytosis
Definition
process which complex molecules contained in vesicles in the cytoplasm fuse with the membrane and dump their contents outside the cell
Term
Endomembrane System
Definition
Comprised of:
-Rough ER
-Smooth ER
-Golgi Complex
-Vesicles

Functions:
-Sequestration
-Transport
-Chemical modification
Term
Golgi Apparatus
Definition
chemical modifications of proteins or carbohydrates destined either to be package materials in vesicles or for secretion
Term
Flow of materials in the Golgi
Definition
cis (inside) -> medial (middle) -> trans (outside)
Term
Extracellular Matrix
Definition
connective tissue forming a fibrous network between cells on the outside cell surface
Term
Plant Cell Walls
Definition
gives rigidity and strength, builds and holds shape, glues cell together, limits entry of large molecules and toxic materials, provides a stable osmotic environment by preventing osmotic lysis
Term
3 Types of Animal Cell Junctions
Definition
Tight junctions, desmosomes, and gap junctions
Term
Tight junctions
Definition
form a "quilted" seal, barring any movement of dissolved materials through the space between epithelial cells
Term
Desmosomes
Definition
link adjacent cells tightly but permit materials to move around them in the intercellular space
Term
Gap Junctions
Definition
let adjacent cells communicate. Made of connexins
Term
Prokaryote DNA
Definition
usually a single circular chromosome
Term
4 Stages of the Eukaryotic Cell Cycle
Definition
DNA synthesis "S" phase, Mitosis "M" phase, The stage between M and S Gap 1 "G1", and the stage between S and M Gap 2 "G2"
Term
Interphase
Definition
G1, S, G2
Term
Cyclin-dependent kinases (Cdks)
Definition
enzymes which tightly control cell cycles. Cyclin only available in G1 phase, Cdk is always present
Term
Histones
Definition
proteins that help DNA become tightly folded
Term
Chromatin
Definition
the complex of DNA with the histones
Term
Nucleosome
Definition
basic building block of chromatin
Term
Chromatid
Definition
each copy of DNA. two chromatids are held together at the centromere
Term
Karyotype
Definition
a display of all the chromosomes of an organism
Term
Prophase
Definition
the cytoskeleton breaks down, the endo-membrane system disperses. The chromatin condenses to the mitotic chromosome form. The centrosomes move to the opposite sides of the nucleus and become the 2 poles of the mitotic spindle
Term
Prometaphase
Definition
the nuclear envelope breaks down. A kinetochore forms at the centromere of each chromatid. The microtubules attach to the chromosomes which can now move to build the spindle.
Term
Metaphase
Definition
the chromosomes are aligned at the "metaphase plate" the center of the spindle -- the mitotic spindle looks static but the microtubules are highly dynamic. Building of the mitotic spindle is completed. Metaphase checkpoint.
Term
Anaphase
Definition
the cohesin protein holding the two chromatids of each chromosome together are destroyed. One of the chromatids of each duplicated chromosome moves to one pole, and the other chromatid moves to the opposite pole.
Term
Telophase
Definition
The cleavage furrow (animal cells) or cell plate (plant cells) forms. The spindle microtubules disassemble. A nuclear envelope re-forms around the cluster of chromosomes at each pole. The chromosomes de-condense to the interphase form.
Term
Spindle makeup
Definition
Kinetochore microtubules, interpolar microtubules, astral microtubules
Term
How does anaphase occur?
Definition
Cohesin molecules holding the two chromatids of each duplicated chromosome together are destroyed
Term
Cytokinesis
Definition
aka Cell Cleavage. Usually starts at the beginning of telophase. The contractile ring forms and creates the cleavage furrow. For plants the cell wall is not pinched but a new cell wall is built.
Term
Diploid cells
Definition
Have two complete sets of chromosomes (one from each parent)
Term
Haploid cells
Definition
Have only one complete set of chromosomes
Term
Haplotic Organisms
Definition
Protists, fungi, some green algae. The zygote (egg) is the only diploid cell in the life cycle.
Term
Diplontic Organisms
Definition
Animals, brown algae, some fungi. The gametes are the only haploid cells in the life cycle
Term
Gene re-assortment
Definition
occurs during meiosis as egg cells and sperm cells are formed and when egg cells and sperm cells combine to form the new individual
Term
Synapsis
Definition
the process where the 2 homologs of each pair of chromosomes become attached to each other
Term
Crossing over
Definition
(or genetic recombination) occurs between the chromatids of the two homologs, results in reciprocal exchange of DNA - causes reassortment of genes.
Term
Gametogenesis
Definition
Consists of spermatogenesis for males and oogenesis for females
Term
Spermatogenesis
Definition
Germ cell (2n) -> spermatogonium (2n) -> 2 primary spermatocytes (2n)-> 2 secondary spermatocytes (n)-> 4 spermatids (n)-> 4 sperm cells (n)
Term
Oogenesis
Definition
Female germ cell (2n) -> oogonium (2n) -> primary oocyte (2n) -> secondary oocyte (n) & first polar body -> ootid (n) & second polar body -> ovum (egg) (n) & polar bodies degrade
Term
Sperm Cells
Definition
3 main pars:
-The head (acrosome)
-The neck or midpiece
-The tail (flagellum) (9+2 arrangement)
Term
Fertilization Steps
Definition
Sperm cell contacts the jelly coat, the acrosomal reaction "fires", acrosomal enzymes digest the jelly coat, a sperm protein called bindin binds to bindin receptors on the eggs surface, and the cortical vesicles are expelled from the egg by exocytosis and dump their contents between the vitelline envelope and plasma membrane
Term
Zygote
Definition
a fertilized egg
Term
Development of zygote
Definition
zygote -> 2 cell -> 4 cell -> 8 cell -> morula -> bastula -> gastrula
Term
Blastomeres
Definition
the name of cells at the early stages of Phase 1. The name of the cells making up the morula
Term
Blastocoel
Definition
a fluid-filled cavity during the blastula stage
Term
3 Primary Germ Layers
Definition
Ectoderm, mesoderm, and endoderm
Term
Ectoderm
Definition
the outermost layer (forms nervous system, skin, hair and nails) - Animal pole
Term
Mesoderm
Definition
the middle layer (forms the skeletal system, bones, heart, kidneys, blood vessels)
Term
Endoderm
Definition
the innermost layer (develops into the respiratory tract, liver, pancreas, gut) - Vegetal pole
Term
Gastrulation
Definition
the formation of the 3 primary germ layers from the set up determined in the blastula stage
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