Pre-Midterm Flashcards
What is developmental biology?
the study of the changes in the anatomical form (morphology) and physiology of an organism as it progresses through the various stages of its life cycle, and of the intricately coordinated changed in cell and gene activities that control those transitions
What are the different developmental stages?
gametogenesis fertilization cleavage gastrulation organogenesis metamorphosis Maturation and aging
Define teratology?
congenital birth defects and their causes
What occurs in gametogenesis and fertilization?
the sperm and ovum to become a zygote
What occurs in embryonic development?
zygote to hatching and birth
What is “Evo-Devo”?
evolutionary developmental biology
What occurs in metamorphosis?
a larva becomes an adult
What occurs in maturation and aging?
juvenile to an adult to senescence
What occurs in regeneration?
organ repair and replacement
What are different developmental processes?
cell proliferation and tissue growth, apoptosis, cell migration vs. cell adhesion, cell-cell signalling, cell fate specification and cell differentiation, determination of body axes and pattern formation, morphogenesis and organogenesis
What did Roux conclude in his experiments?
each blastomere received only half of the genetic information of the fertilized egg
What experiment did Roux conduct?
used a 2 blastomere frog embryo, destroyed 1 blastomere with a hot needle and found that only one embryo developed
What flaw was in Roux’s design?
when he destroyed one blastomere he left them in contact with the other which got in the way with the differentiation of the intact blastomere
What experiments did Driesch conduct?
took a 4 cell sea urchin and separated the 4 blastomeres and found that four complete embryos developed
What conclusions did Driesch come to?
each blastomere is “totipotent” meaning it is able to form an entire embryo. each nucleus of each blastomere contains the complete genetic information required to form all cell types and tissues of the embryo
How many blastomeres compose a morula?
16
What experiments did Spemann conduct?
took a fertilized salamander egg and put a constriction on the dividing nuclei to one half of the cytoplasm, then at the 16 cell stage let one nucleus through and found the uncleared egg to begin to divide and two complete tadpoles developed
What was the conclusion of Spemann’s experiments?
each nucleus retains all genetic information and remains totipotent, at least until the 16 cell stage
What experiments did Briggs and King conduct?
at the blastula stage they removed a single blastomere cell, removed its nucleus and then inject the blastomere nucleus into an enucleated egg
What is an enucleated egg?
an unfertilized egg that has had its nucleus removed
What were the conclusions of the experiments by Briggs and King?
cells at the blastula stage remained totipotent
Do cells remain totipotent in gastrulation?
at this stage the cells move around and form the three germ layers, the success of development in an enucleated egg declined as passes through gastrulaiotn
What is SCNT?
somatic cell nuclear transfer
- taking a nuclei and placing it into the enucleated cell
What experiments did Gurdon conduct?
he demonstrated that there is not selective gene elimination because he showed that nuclei isolated from cells of organogenesis and later in cell life could form a complete animal when in an enucleated cell
What experiment did Wilmut conduct?
he did the first successful clone of a mammal “dolly”
Will genetic clones have identical phenotypes?
not necessarily, a phenotype is influenced by the genes, environmental factors and epigenetic modifications to chromatin, and randomized processes in development (such as the silencing of an X chromosomes in female)
What did Yamanaka’s experiments do?
he demonstrated that fibroblast cells from the skin of adult mice and humans could be reprogrammed back into an undifferentiated, pluripotent state by infection with a virus expressing the pluripotwncy genes
What are the pluripotent genes?
Oct4 Sox2 Klf4 c-Myc Nanog
What are iPS cells?
induced pluripotent cells- they have the ability to forma variety of distinct, differentiated somatic cells
Define: Pluripotent
their mitotic progeny form all differentiated somatic cell types of the body during normal embryonic development
What is the difference between totipotent and pluripotent?
toti- have the ability to be anything, including the placenta and embryo
pluri- can become any cell of the body
Define: differential gene expression
the genes remain the entire set of genes but selectively transcribes and translates based on the cell type
What are housekeeping genes?
expressed by all or most somatic cell types
- provide proteins for basic cell structure and metabolism
What are tissue-specific genes?
genes that are expressed by only certain cell types
- a cell’s phenotype is determined by the particular group of tissue-specific genes that is expressed
What is the principle of genomic equivalence?
in general, the somatic (all-but-gamete) cells of an organism retain all of their genes throughout development
How is there cell diversity even though they retain all of the information?
through differential gene expression. the same group of genes, expressed in different combinations, can direct the differentiation of many distinct cell types
At what end of genes can there be addition of more info?
at the 3’
What way are genes read?
5’ to 3’
What is a promoter?
at the 5’ end of a gene just before the transcription start site. it is where RNA polymerase 2 binds and begins to create mRNA at the transcription start site
In what order is the functional RNA made in?
5’ to 3’, because 3’ is preferable to add to so the template is made off of the 3’ to 5’ strand of DNA
What end of DNA is preferable for adding nucleotides?
the 3’ end
What free group is at the 5’ end?
phosphide
What free group is at the 3’ end?
hydroxide
What is the transcription termination site?
RNA polymerase 2 continues making mRNA until it reaches the transcription termination site, then it dissociates from the DNA template
What different processes occur to the pre-mRNA?
5’ methyl guanosine cap
3’ poly A tail
splicing
What is the purpose of the 7-methylguanosine cap?
addition to the 5’ end allows the processed mRNA that exits the nucleus to bind the ribosomes and get translates
- may also protect from degradation by exonucleases
What is the purpose of the poly-A tail?
helps to protect the 3’ end of the mRNA transcript from degradation by exonuclease, and probably facilitates its attachment to ribosomes
What are introns?
regions of the RNA that are not included in the mature RNA
What are exons?
the portions of pre-RNA that remains intact to become mature mRNA
What is splicing?
the removal of introns and ligation of axons to allow for uninterrupted protein coding domain within the mature mRNA
What is the UTR?
the untranslated regions at the 5’ and 3’ ends of mature mRNA
How is differential expression displayed through transcription?
a gene may be actively transcribed into RNA or may be transcriptionally inactive
How is differential expression displayed through processing?
the nuclear pre-mRNA transcript must be properly processed to for functional mRNA
- 7methylguanosine cap
- poly a tail
- removal of introns and splicing axons together (can have alternative splicing here)
What is alternative splicing?
can yield different mRNA from the same pre-mRNA through a different combination of exons
- allows it to code for multiple protein products
How can differential gene expression occur at the level of RNA stability and turnover?
the longevity of mRNA transcripts can differ
- if newly formed mRNA transcript is rapidly degraded, it can not bind ribosomes and form a protein product
Wha is miRNA?
microRNA and they are small non-coding RNA that attach to specific mRNA in cytoplasm and either inhibit their translation or selectively target them for degradation
How is differential gene expression displayed at the level of translation?
mRNA may be prevented from binding to ribosomes and being translated into a polypeptide
How is differential gene expression displayed at the level of post-translational modifications?
to forma functional protein, the polypeptide must be properly folded
- different modifications can affect folding ability
- proteolytic processing affects tissue-specific functions
What are common post-translational modifications?
prenylaiton disulfide bonds hydroxylation sulfation methylation phosphorylation glycosylaiton acyl lipidation
How do post-translational modifications affect a peptide?
they affect the protein folding, but also protein localization, binding partners, and stability
At what levels is there differential gene expression?
transcription processing RNA stability and turnover translation post-translational modifications
What are transcription factors?
proteins that bind to specific nucleotide sequences in a gene’s promoter or to other regulatory sequences (enhancers and silencers) to control levels of gene transcription
What are activator transcription factors?
stimulate transcription of their target genes
What are repressor transcription factors?
suppress transcription of their target genes
What are general transcription factors?
they are present in most cell types
What are tissue-specific transcription factors?
they are selectively present in only certain cell types, at specific anatomical sites, or at specific time points in development
What is a promoter?
a regulatory element of the gene located within 200 bp upstream (5’) of the transcription start site
- contains the basal promoter sequences and serve as a docking site for general transcription factors where binding is required to recruit RNA polymerase 2 to the gene’s transcription start site
What are common promoter regions?
TATA box
CAAT box
GC box
What is the first protein to bind to the TATA/Inr basal promoter sequence?
TBP which is a subunit of the TFllD complex
What is the sequential assembly of general transcription factors?
TF2D complex
TF2A
TF2H
- then can recruit, and phosphorylate to activate RNA polymerase 2 so it is more likely to form the template
Do the basal promoter sequences play a role in differential gene expression?
no
Do the general transcription factors play a role in differential gene expression?
no
What are enhancers?
regulatory nucleotide sequences of 50-1000bp that can be located anywhere within the same chromosome (5’, 3’ or within an intron)
- serve as docking sites for tissue-specific or stage-specific transcription factors. which are activator transcription factors that are present only in some various cell types of the body
What binds to enhancers?
tissue-specific or stage-specific transcription factors
What occurs when a tissue-specific transcription factor binds to an enhancer?
it helps to activate the gene’s promoter and increases the efficiency of the gene’s transcription to physiologically relevant levels
Is an enhancer is far away, how will it get closer to a promoter?
DNA bending and mediator proteins bring together enhancers and promoters
- brings together
Where is Pax6 located?
it is a transcription factor present only in the nuclei of cells in developing eyes (lens, cornea, and retina), pancreas, and neural tube
- crucial for eye formation
Does having a specific transcription factor mean a gene is expressed?
no, they must act in combination with other transcription factors for cell-specific gene activation