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BIS 101: Final_Kliebenstein
UC Davis
111
Biology
Undergraduate 4
12/12/2018

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Term
glycolase
Definition
enz required for cutting out a mis-paired base after replication is finished
Term
photoreactivation repair protein
Definition
*removes thymine dimers caused by UV light
Term
transitions
Definition
*C to T polymorphisms, G to A polymorphisms
*same class of NA
Term
purine dimers
Definition
*molecular lesions formed from ADENINE or GLYCINE bases in DNA via photochemical rxns
Term
transformations
Definition
*a process by which genetic material carried by an individual cell is altered by the incorporation of foreign (exogenos) DNA into its genome
Term
pyrimidine dimers
Definition
*extra bonds formed between THYMINE or CYTOSINE in DNA (cause of mutations)
Term
photolyase
Definition
*uses sunlight to prevent mutations
Term
deamination
Definition
a chemical reaction requiring E that can alter which NA is base paired to another NA
Term
3', 5' exonuclease
Definition
*the repair mech in DNAP that cuts out DNA to repair it when there is a mismatched base pair
Term
SOS/gap repair
Definition
repair that creates random DNA
Term
5', 3' exonuclease
Definition
removes RNA primer
Term
rare base isoforms
Definition
*a spontaneous chemical analog that can alter which NA is base paired to another NA
Term
double strand break repair
Definition
DNA repair mech helps prevent the rapid formation of new species
Term
satellite
Definition
*DNA consists of very large arrays of tandemly repeating, noncoding DNA
Term
TTA,TCG,ATG,CTA,CGTT
Definition
slipped mispairing would not cause a deletion in this DNA sequence
Term
transversion
Definition
*purine to pyrimidine
*pyrimidine to purine
G to C polymorphisms, T to A polymorphisms
*C to A polymorphisms, T to G polymorphisms
*diff class of NA
Term
transcription
Definition
synt of RNA molecule from DNA template
Term
replication
Definition
cellular process that is always mutagenic
Term
excision/ mismatch repair
Definition
the repair mech uses Cytosine methylation to know which strand is newer or which has error
Term
genetics
Definition
the scientific study of heredity
Term
yeast-2 hybrid
Definition
*method used to analyze protein interactions on a genomic scale
Term
yeast-mono hybrid
Definition
*detect binding between protein and DNA
Term
proteomics
Definition
*approach that could help predict if two genes might be epistatic using information about protein amount
Term
transcriptomics
Definition
*an approach that could help predict if two genes might be epistatic using information about transcript accumulation
Term
interaction cluster/ modules
Definition
tool that is used to test if a gene correlates to other genes controlling the phenotype
Term
transposase
Definition
*work in trans to move DNA
Term
comparative genomics
Definition
telomere variation between species is studied in this field
Term
structural genomics
Definition
centromeres w/in a species studied in this field
Term
shotgun sequencing
Definition
combining different DNA seq to get a whole genome
Term
gene knockout library/ collection
Definition
*used to test hypothesis generated by transcriptomics
Term
transposon
Definition
*can move DNA between them if 2 work together
Term
genomics
Definition
*the global study of all genes simultaneously
Term
next generation sequencing
Definition
*tool used to both measure RNA abundance and seq a whole genome
Term
phenotype
Definition
*genetics cares predominantly about
Term
inverted repeat
Definition
*work in cis to move DNA
Term
hub gene
Definition
*key genes that connect clusters of interacting genes
Term
population genomics
Definition
centromere variation within a species studied in this field
Term
qualitative genomics
Definition
*influenced by a single gene
Term
thymidine dimer
Definition
*mutation repaired by a protein that uses light
Term
retrotransposon
Definition
*type of transposable element
Term
nanopore sequencing
Definition
*involved passing a DNA seq through a small nanopore and measuring the change in current (shape)
Term
autonomous transposon
Definition
*small, selfish gentic elements
Term
illumina sequencing
Definition
*technique used to determine series of base pairs in DNA
Term
nonautonomous transposon
Definition
DNA can be moved but cannot move itself
Term
reverse transcriptase
Definition
protein involved in retrotransposon but not DNA transposon movement
Term
TTA,GAA,GAA,GAA,GAA,GAA,CTT
Definition
*slipped mispariring would cause an insertion/deletion in this DNA seq
Term
AA
Definition
*sole component of polypeptide
Term
tRNA synthetase
Definition
*translational component comprised primarily of protein
Term
RNA primer
Definition
*RNA involved in DNA replication
Term
Histone
Definition
*DNA protein involved in packaging
Term
Ligand
Definition
*small chem involved in both transcriptional/ translational control
Term
Sigma
Definition
*bonds to the prokaryotic promoter to ID the transcription start
Term
DNAP 1
Definition
makes new DNA and can do proofreading and cut out RNA
Term
Proteosome
Definition
allows for rapid regulation of a process
Term
Mass spectrometry
Definition
*genomics tool studies protein-proetin interact in test tube
Term
dideoxy seq
Definition
*a chemical approach to seq a genome
Term
Quantitative genomics
Definition
*a field of research focused on studying complex traits
Term
photolyase
Definition
activity prevents mutations both during and after DNA replication
Term
photolyase
Definition
prevents mutations caused by UVB
Term
photolyase
Definition
the only direct DNA repair mech
Term
photolyase
Definition
splits thymine dimers in the presence of visible light
Term
3',5' exonuclease
Definition
prevents mutations during replication
Term
rare base isoforms
Definition
a chem process that can alter NA bind sites that is inherent to the NA
Term
double strand break repair
Definition
broke DNA initiates homologous recomb between sister/non chromatids and results in rejoining of broken ends DNA
Term
satellite
Definition
main component of func centromeres
Term
satellite
Definition
form main structural constituent of heterochromatin
Term
excision/mismatch repair
Definition
repair mech cuts out DNA to repair when have mismatched(unnatural) base pair in DNA
Term
yeast-2 hybrid
Definition
an approach that could help predict if 2 genes might be epistatic using protein info
Term
yeast-2 hybrid
Definition
genomics tool studies protein-protein interactions in living cells
Term
yeast-2 hybrid
Definition
if yeast cells test + for particular reporter protein, then 2 proteins had to have interaction w/in yeast nuc
Term
yeast- mono hybrid
Definition
bait inserted upstream b4 promoter, prey fused to activating domain (activates reporter)
Term
proteomics
Definition
analyzes proteins on genomic scale
Term
proteomics
Definition
study of structure and func of proteins in human body
Term
transcriptomics
Definition
a genomic analysis of mRNA accumulation
Term
transcriptomics
Definition
study of RNA patterns
Term
transposase
Definition
allows a piece of DNA to become mobile
Term
transposase
Definition
enz recognizes host DNA and cuts/ glues transposons in/out of genome
Term
comparative genomics
Definition
field of research interested in change (centromeres)
Term
comparative genomics
Definition
sim/diff in gene content, func, and organization amoung genomes of diff org
Term
structural genomics
Definition
organization/ seq of genetic info in a genome
Term
gene knockout library/ collection
Definition
can be used to ask how many genes are essential in org
Term
gene knockout library/ collection
Definition
tests if a gene alters a phenotype
Term
transposon
Definition
a piece of DNA that is mobile
Term
genomics
Definition
the study of whole genomes including genes/ func
Term
next generation sequencing
Definition
measures global seq polymorphism or transcript abundance (microarray)
Term
phenotype
Definition
what genomics is trying to predict
Term
inverted repeat
Definition
leads to hairpin form on the RNA during transcription
Term
hub gene
Definition
proteomics/transcriptomics have led research to puzzle about this
Term
population genomics
Definition
large scale comparison of DNA seq of populations
Term
thymidine dimer
Definition
pair of abnormally chem bonded thymine bases in DNA resulting from damage by UV radiation
Term
retrotransposon
Definition
copy and paste
Term
autonomous transposon
Definition
encode the ability to move themselves around and /or replicate themselves w/in genome
Term
mass spectrometry
Definition
studies all chem /in a cell
Term
missense
Definition
changes AA b/c changed base
Term
silent
Definition
AA stays the same
Term
nonsense
Definition
STOP
Term
heritability
Definition
*the fraction of the phenotypic variation that is caused by genetically inherited variation
*determines the response to selection
*describes the ability to predict the progeny phenotype from parents phenotype
Term
phylogenetic tree shows
Definition
*genetic distance between ind
Term
phylogenetic tree does not show
Definition
*time since last common ancestor
*direction of evolution of optimal genotype
*who was the last common ancestor
*rate of evolution
Term
H2
Definition
Vgenetic / Vpheno
Term
LacZ
Definition
*own DNA inserted
*important for finding sp seq of DNA
Term
MCS
Definition
*insert DNA
*restriction enzymes
*choose fragments, move to Lac Z
*multiple cloning site
Term
AMPr
Definition
*w/ AMPr= untransformed cells
* view diff DNA/ vector that got in
Term
OriP
Definition
*replicate
*amplifies DNA
Term
Selection
Definition
collect what lives
Term
screening
Definition
compare two plates
Term
autotrophic
Definition
no synthesis
Term
Chargaffs Rules
Definition
1) CG and AT present in different amounts
2) purine A = pyrimidine T
purine G = pyrimdine C
*purine (A,G) = pyrimidine (C,T)
Term
dideoxynicleotides
Definition
*triosphosphate
*dideoxyribose
*flourescent tag

**lacks 3’OH (stop synth, see last base)
Term
molecule that regulates transcription by directly interacting w/ TF
Definition
*tryptophan
*lactose
*cAMP
Term
dioxynucleotide
Definition
*deoxyribose
*triosphosphate
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