Bellringer Chemical structures that are involved in physiological processes, such as hemoglobin in blood, insulin that regulates blood glucose levels,

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Bellringer Chemical structures that are involved in physiological processes, such as hemoglobin in blood, insulin that regulates blood glucose levels, and enzymes that regulate body functions, are all made of proteins. Name some parts of the human body that contain proteins. Slide 2 Directions: 1)Answer Review Questions on back: 1.What is the basic subunit for DNA? 2.What are the three parts? 3.Which parts are the backbone? 4.Which nucleotides are purines? 5.Which nucleotides are pyrimidines? 6.How do you tell the difference between the two? 7.What type of bond holds together DNA strands? 2)Cut out the nucleotides from the Nucleotide Bank (right). 3)Match them up with the template strand above based upon base-pairing rules then tape/glue beneath. 4)Determine the sequence (order of the string of nucleotides read left to right) for both the template strand and the new complimentary strand. Label the sequence of the template and complimentary strand on the lines with the nucleotide abbreviation. Construct a DNA model Using Base-pairing Rules. Homework: 25 Pts. Due tomorrow to gain access to DNA Extraction Lab. Template Strand Nucleotide Bank 2 rings 1 ring 3 bonds Template Strand: _G_ __ __ __ __ __ __ __ __ __ __ __ __ __ __ __ __ __ Complementary Strand:___ __ __ __ __ __ __ __ __ __ __ __ __ __ __ __ __ __ G A T T A C A C T G T C A G A A A C C T A A T G T G A C A G T C T T T G Slide 3 Key Ideas What is the process of gene expression? What role does RNA play in gene expression? What happens during transcription? How do codons determine the sequence of amino acids that results after translation? What are the major steps of translation? Do traits result from the expression of a single gene? Slide 4 Objectives: Transcription & Translation Today: Transcription Describe gene expression Explain the role of RNA in gene expression Summarize transcription Practice transcribing a gene. Tomorrow: Translation Explain how codons determine the amino acid sequence of a protein Describe the steps of translation Identify the complexity of gene expression Practice translating a gene. Slide 5 How we get from DNA to traits. Gene Expression Slide 6 Vocabulary Gene expression Transcription Translation RNA mRNA tRNA rRNA RNA polymerase Codon Slide 7 An Overview of Gene Expression So far, weve discussed the structure of DNA being made of nucleotides that contain 1 of 4 different nitrogenous bases. You should know that DNAs job is to store genetic information. Youve also learned the cell cycle. Well be spending the next few days on G1 of the cell cycle. This is the phase where most of living takes place. Its the phase that proteins and traits are made. Slide 8 The Purpose of DNA The purpose of DNA itself is to house the information necessary for heritable traitsmeaning that it holds the information from which proteins are made. This is what living is all about. The DNA in our chromosomes is like books on the shelf of a library just waiting to be read. DNA provides the original information from which proteins are made in a cell, but DNA does not directly make proteins. The Purpose of Life Slide 9 An Overview of Gene Expression, Gene expression is the manifestation of genes (contained in DNA) into specific traits. What does manifestation mean? THE CENTRAL DOGMA OF BIOLOGY = DNA mRNA Protein Trait This process takes place in two main stages, 1. Transcription: the process of copying the directions for traits out of DNA by making mRNA 2. Translation: reading the directions copied in RNA and turning them into the amino acid sequences for the gene. Slide 10 Directions to make HAIR COLOR ACTGAACTGCACTG THE CENTRAL DOGMA OF BIOLOGY Slide 11 Directions for HAIR COLOR Directions for EYE COLOR Directions for SKIN COLOR Directions for HOW TALL YOU ARE Directions for FRECKLES Genes: The basic units of heredity. They are located on specific regions of chromosomes, contained in DNA. There are thousands of genes written into each of the 23 chromosomes in our cells. They come from the original genes given to us from mom & dad. Slide 12 So What Does a Real Gene Look Like? Pro-melanin-concentrating hormone tacagcgtgt ggcattctcc ccacattctc cttcggcttt acggagcagc aaacaggatg gcgaagatga gcctctcttc ctacatgtta atgctggcct tttctttgtt ttctcacggc attttacttt cggcctccaa gtccatcagg aacgtagaag cgacatagt atttaataca ttcaggatgg ggaaagcctt tcagaaggaa ataccgcagaagatcggt tgttgctcct tctctggaag gatacaaaaa tgatgagagc ggcttcatga aggatgaaga tgacaagacc acaaaggtac gtgtatgcag tctgcctttt attgcactag agatgaaaac gatgtttaca attataagcc acccagaagt aaattttgta ttttaatttt ataaataggc tacatacag tcattgtgtg tattaagata actaggaaaa cgtcatacaa accaggcatt tccccattct atccagaatc ttgtatcttg tctcgcatat ggaggtaaag acagtataca gcatcttaga actgatcagc aagaatgttg tacaactgta ttctagctct actctgaaga agacagctgg gatacaaacc aatcttctct tcacagaaca caggctccaa gcagaatctc gtaactcacg gtctgcccct cagtctggct gtaaaacctt acctcgctct gaaaggacca gcagtcttcc cagctgagaa tggagttcag aatactgagt ccacacagga aaagagggaa attggggatg aagaaaactc agctaaattt cccataggaa ggagagattt tgacagtgag tagccttcta aacatgcaat tcctacatat taattttata aaagagctct gagcttcact gagttggatc tgaccataac aaaatcaaga ccatagttca gttctatcaa atagtaggca gcccacgtca aaatggggaa tttttcaaaa tcagtaatag tggtttgttt tattctggat tcattataag tccacagatt ctcttaattc tgtgtggtaa ttatagtcat tgtttgttcc ttttcagtgc tcaggtgtat gctgggacga gtctaccgac cctgttggca agtctgatac ctgctggtcc acaacatcct ttcagaagaa aacgattcat tgcaagtgga gagaaaagcc cttaatgttg atgtaacttg tgtatcatcc taaatgtctg ttttaaaaga aactggttac aatatgtaaa tgctatgtaa atgatatgct ttgacttgtg cattaaactt cacaaaaatt ctgcata -http://www.ncbi.nlm.nih.gov/gene/24659#reference-sequences Slide 13 Hemoglobin Gene tac cacgacagaggacggctgttctggttgcagttccggcgga ccccgttccaaccgcgcgtgcgaccgctcataccacgcctcc gggacctctcctacaaggacaggaaggggtggtggttctggat gaagggcgtgaagctggactcggtgccgagacgggtccaatt cccggtccgttcttccaccggctgcgcgactggttgcggcacc gcgtgcacctgctgtacgggttgcgcgacaggcgggactcgc tggacgtgcgcgtgttcgaagcccacctgggccagttgaagtt cgaggattcggtgacggacgaccactgggaccggcgggtgg aggggcggctcaagtggggacgccacgtgcggagggacct gttcaaggaccgaagacactcgtggcacgactggaggtttatg gcaattcgacctcggagccatcgtcaaggaggacggtctacc cggagggttgcccgggaggaggggaggaacgtggccggga aggaccagaaacttatttcagactcacccgccg http://www.bio.davidson.edu/courses/Bio111/Hemo mut.html Slide 14 Gene Transcription and Translation Where Does it Occur? Slide 15 RNA: A Major Player All of the steps in gene expression involve RNA. What exactly is RNA, & how does is compare to DNA? First, like DNA, RNA is a nucleic acid made of nucleotide subunits linked together. Slide 16 RNA vs. DNA RNA is a nucleic acid like DNA But RNA differs from DNA in 3 ways. 1. First, RNA usually is composed of one strand of nucleotides rather than two strands. a. The exception occurs in viruses 2. Second, RNA nucleotides contain the five- carbon sugar ribose rather than the sugar deoxyribose. 3. Third, RNA nucleotides have a nitrogenous base called uracil (U) instead of the base thymine (T). a. Uracil (U) is complementary to adenine (A) whenever RNA pairs with another nucleic acid. Slide 17 DNA vs RNA Structure Deoxyribose Nucleic Acid = DNA Is missing one oxygen in the ribose sugar. Ribose Nucleic Acid = RNA Has all oxygens Slide 18 Slide 19 Visual Concept: Ribonucleic Acid (RNA) Slide 20 RNA: A Major Player In cells, three types of RNA complement DNA and translate the genetic code into proteins. 1. Messenger RNA (mRNA) is produced when DNA is transcribed into RNA. The mRNA carries instructions for making a protein from a gene and delivers the instructions to the site of translation. Slide 21 RNA: A Major Player 2. Transfer RNA (tRNA) reads the instructions carried by the mRNA at the site of translation, then translates the mRNA sequence into protein subunits called amino acids. 3. Ribosomal RNA (rRNA) is an RNA molecule that is part of the structure of ribosomes. Recall from CH7, ribosomes are the cellular structure where protein production occurs. Slide 22 Objectives Define Transcription Summarize the steps of transcription In order to help keep this straight, make a chart like the one below. StepMajor events 1 2 3 Slide 23 Transcription: Reading the Gene Transcription is the process of creating a copy of a gene in DNA as an mRNA molecule. Transcription Steps 1. INITIATION: Transcription begins when the enzyme RNA polymerase binds to the specific DNA sequence in the gene that is called the promoter. - The promoters role is to signal the RNA polymerase where to start transcription. - The DNA always contains the sequence TAC for the start signal. Slide 24 Transcription: Reading the Gene Step 1 Slide 25 Transcription: Reading the Gene 2. ELONGATION: RNA polymerase then unwinds and separates the two strands of the DNA double helix to expose the DNA bases on each strand. RNA polymerase adds RNA nucleotides. Slide 26 Transcription: Reading the Gene Step 1 Slide 27 Transcription: Reading the Gene, 3. TERMINATION: RNA polymerase moves along the bases on the DNA strand and adds complementary RNA nucleotides to a growing mRNA as it reads the DNA of the gene until it reaches the stop signal. Remember that in transcription U matches with A, not T like in replication. The A still matched to T though. - As RNA polymerase moves down the DNA strand, a single strand of mRNA grows. - Just as there is a start signal on the DNA, signaling the start of the gene, there is a stop signal as well. - This region is specially designed to let the RNA polymerase know when the gene ends & therefore when to stop transcription. - This stop signal is one of 3 DNA sequences: - ATT, ATC, or ACT. - What would the RNA sequences be? - UAA, UAG, or UGA Slide 28 Transcription: Reading the Gene Step 1 Slide 29 Visual Concept: Transcription Slide 30 Transcription Slide 31 Concept Check What is the point of transcription? What enzyme is used in transcription? What are the signals for starting and stopping a gene? Why is mRNA necessary? Slide 32 Review A gene is similar to a recipe. Gene expression is like the process of baking a secret cake recipe, complicated because the recipe is written in a language the chefs dont understand. It is written as one long sentence composed of just one word. The word is written in the language of the nitrogenous bases, A, T, G, & C A gene is written in a unique language that must be transcribed by a messenger that speaks the language of the chefs. The way the recipe is delivered to the chefs (the ribosomes) in the cytoplasm (the bakery) is by the messenger mRNA. mRNA copies the recipe during transcription and delivers it to the bakery in the cytoplasm for translation to occur (decoding the recipe in a different language to allow for baking the recipe). In the cytoplasm the recipe is translated into the language of proteins (amino acids) and finally made into proteins. Finally, the secret cake is made. Now its your turn to read the recipe. Slide 33 Practice Transcriptionmaking an mRNA complement to the gene in DNA. Examine the DNA sequence above. Look through and identify the promoter region containing the start signal of DNA. Underline it. Do the same for the stop signal. Write an RNA sequence of bases using the complement to the entire DNA sequence using the RNA bases (A-U-C-G), starting with the sequence of the start site all the way until you reach one of the 3 stop sequences. Only write the RNA sequence that complements the DNA sequence from the start to stop signals. You have 5 minutes. Ask questions if you need to. DNA= TCTACAGGAGCGCTGGCAAGACTGCCG RNA= You make it. Slide 34 Practice o Find the start sequenceunderline it. o Find the stop sequenceunderline it. o Starting with the start sequence, transcribe the gene using the RNA bases. o What you end up with is an mRNA transcript of the gene contained in the DNA. DNA: TCTACAGGTGCAAGACTGCCG mRNA: Slide 35 In-class Exercise/HW Practice Transcribing: Youre going to play the role of the messenger now. You need to be able to take a DNA sequence and identify the mRNA that will copy the recipe, the gene for a protein, so the recipe can be made by the ribosomes. Gene Xlr23: CGAACCTACAGTTCCGCGTCGGGCTAGACTGGCAATG 1. Copy this sequence down on a sheet of paper. 2. Identify the start sequence within the DNA above (underline it). 3. From the start sequence, count in groups of three until you reach one of the three stop signals. 4. What is the stop sequence (underline it). 5. Just below the DNA sequence you copied, transcribe the DNA into a sequence of mRNA for the gene Xlr23. Tomorrow we will use this sequence to practice translation. Slide 36 Reflections What did you learn today? Design an acronym of pneumonic device to remember the types of RNA and steps in transcription. Slide 37 In-class Exercise/HW Practice Transcribing: Youre going to play the role of the messenger now. You need to be able to take a DNA sequence and identify the mRNA that will copy the recipe, the gene for a protein, so the recipe can be made by the ribosomes. Gene Xlr23: CGAACCTACAGTTCCGCGTCGGGCTAGACTGGCAATG 1. Copy this sequence down on a sheet of paper. 2. Identify the start sequence within the DNA above (underline it). 3. From the start sequence, count in groups of three until you reach one of the three stop signals. 4. What is the stop sequence (underline it). 5. Just below the DNA sequence you copied, transcribe the DNA into a sequence of mRNA for the gene Xlr23. Tomorrow we will use this sequence to practice translation. Slide 38 Objectives Day 2 Explain how codons determine the amino acid sequence of a protein Describe the steps of translation Identify a complexity of gene expression This is a short lecture so stay focused. Slide 39 The Genetic Code: Three- Letter Words What is the mRNA you decoded for gene Xlr23? CGAACCTACAGTTCCGCGTCGGGCTAGACTGG AUGUCAAGGCGCAGCCCGAUCUGA Save this and well move on What do you notice that is similar about the start and stop sequences? There is significance in the number 3 in RNA. It corresponds to whats called a codon. A codon is a three-nucleotide sequence in mRNA. DNA mRNA Slide 40 The Genetic Code: Three- Letter Words A codon is a key that corresponds to 1 of 20 amino acids. An amino acid is the building block of a protein. Codons also act as the start or stop signal for translation. These signals are referred to as start and stop codons on mRNA in genetics. So the start codon isAUG (signals the start of the gene) The stop codons are UAA, UGA, UAG (signals the end) Slide 41 Slide 42 The Genetic Code: Three- Letter Words Refer to you handout. There are 64 mRNA codons. The mRNA that is created in transcription is actually a collection of a series of 3- nucleotide sequences called codons. So each gene will contain nucleotides in multiples of 3 Slide 43 The Genetic Code: Three- Letter Words Your practice from last night Notice that the length of the gene is a multiple of 3 This is the way all genes arein multiples of 3. This is why I asked you to count by threes until you reached the stop codon. AUG-UCA-AGG-CGC-AGC-CCG-AUC-UGA AUGUCAAGGCGCAGCCCGAUCUGA Slide 44 The Genetic Code: Three-Letter Words Each codon specifies for only one amino acid, but several amino acids have more than one codon. See leucine This system of matching codons and amino acids is called the genetic code. The genetic code is based on codons that each represent a specific amino acid. This is the translation tool that helps to translate the mRNA from the nucleotide language into the language of amino acids. Slide 45 Codons in mRNA Figure 13. The amino acid coded be a specific mRNA codon can be determined by following the three steps below. What amino acid does the codon GAA code for? Slide 46 Translation: RNA to Proteins Translation is the process that changes the mRNA molecule into the complementary amino acid sequence. Takes place in the cytoplasm occurs in a sequence of 5 steps Involves all three kinds of RNA and results in a complete polypeptide. Slide 47 Translation: RNA to Proteins Translation relies upon the tRNA molecule to act as the go- between for mRNA codon & the amino acid that corresponds to it. There is only one specific amino acid for each codon. The mRNA gets matched up with the right tRNA molecule because of the anti-codon region An anticodon is a three- nucleotide sequence on tRNA that is complementary to an mRNA codon. Slide 48 There are two important regions of a tRNA. The area where the amino acid attaches & The anticodon region, which is complementary to the codon of mRNA The anticodon always decides which amino acid is carried. AMINO ACID GOES HERE ANTICODON tRNA matches mRNA here Slide 49 The Steps to Translation Slide 50 Translation: RNA to Proteins, Step 1 A ribosome attaches to the mRNA The UAC (methionine) tRNA attaches to the start codon on mRNA within the ribosome. Step 2 The tRNA molecule that has the correct anticodon and amino acid binds to the second codon on the mRNA. A peptide bond then forms between the two amino acids, and the first tRNA is released from the ribosome. Slide 51 Translation: RNA to Proteins, Step 3 The ribosome then moves one codon down the mRNA, kicking the 1 st tRNA out. The amino acid chain continues to grow as each new amino acid binds to the chain and the previous tRNA is released. Step 4 This process is repeated until one of three stop codons is reached. A stop codon does not have an anticodon, so protein production stops. Slide 52 Translation: RNA to Proteins, Step 5 The newly made polypeptide falls of the ribosome, the tRNA leaves the ribosome, & the ribosome falls apart. Translation is complete & the polypeptide is free to go get processed into a protein in either the ER or the Golgi. This is where translation ends but it doesnt have to be the only protein made. Repeating Translation Many copies of the same protein can be made rapidly from a single mRNA molecule because several ribosomes can translate the same mRNA at the same time. Slide 53 Translation: RNA to Proteins Slide 54 AUG UCA AGG CGC AGC CCG AUC UGA Start Codon Other amino codons Stop Codon Methionine UAC Serine AGU PEPTIDE BOND FORMS: Then the ribosome moves forward RIBOSOME Start Codon: Always triggers the attraction of the tRNA for methionine. Anticodon mRNA Slide 55 AUG UCA AGG CGC AGC CCG AUC UGA UAC Serine AGU Anticodon mRNA Methionine Slide 56 AUG UCA AGG CGC AGC CCG AUC UGA ? UCC AGU Serine PEPTIDE BOND FORMS: Then the ribosome moves forward The growing chain of amino acids is a polypeptide, or in other wordsa protein Anticodon mRNA Methionine Slide 57 AUG UCA AGG CGC AGC CCG AUC UGA UCC ? GCG ? PEPTIDE BOND FORMS: Then the ribosome moves forward Anticodon mRNA Serine Methionine Slide 58 AUG UCA AGG CGC AGC CCG AUC UGA GCG ? UCG ? PEPTIDE BOND FORMS: Then the ribosome moves forward ? Anticodon mRNA Serine Methionine Slide 59 AUG UCA AGG CGC AGC CCG AUC UGA UCG ? GGC ? PEPTIDE BOND FORMS: Then the ribosome moves forward ? Anticodon mRNA ? Serine Methionine Slide 60 AUG UCA AGG CGC AGC CCG AUC UGA GGC ? UAG ? PEPTIDE BOND FORMS: Then the ribosome moves forward ? Anticodon mRNA ? ? Serine Methionine Slide 61 AUG UCA AGG CGC AGC CCG AUC UGA UAG ? ? Anticodon mRNA ? ? ? Once the stop codon is reached translation terminates. There is no tRNA for the stop codon so the ribosome know to detach. The newly formed polypeptide then leaves to get processed. Serine Methionine Slide 62 Slide 63 Complexities of Gene Expression The relationship between genes and their effects is complex. Not 1 simple outcome 1 gene = multiple traits Multiple genes required for 1 trait 1 gene = 1 trait The environment can also affect gene expression. Some genes are expressed only at certain times or under specific conditions. Variations and mistakes can occur at each of the steps in replication and expression. The final outcome of gene expression is affected by the environment of the cells, the presence of other cells, and the timing of gene expression. In summary, one gene can be used for many trait outcomes. Slide 64 7 different trait possibilities for the same gene. Slide 65 Summary Gene expression produces proteins by transcription and translation. This process takes place in two stages, both of which involve RNA. In cells, three types of RNA complement DNA and translate the genetic code into proteins. During transcription, the information in a specific region of DNA (a gene) is transcribed, or copied, into mRNA. Slide 66 Summary, continued The genetic code is based on codons that each represent a specific amino acid. Translation occurs in a sequence of steps, involves three kinds of RNA, and results in a complete polypeptide. The relationship between genes and their effects is complex. Despite the neatness of the genetic code, every gene cannot be simply linked to a single outcome. Slide 67 In Class Exercise CGAACCTACAGTTCCGCGTCGGGCTAGACTGGCAATG AUGUCAAGGCGCAGCCCGAUCUGA Complete the Gene. Translation is the last step of gene expression as it forms the final polypeptide. Your exercise today is to take the gene we transcribed into mRNA yesterday and translate it into a polypeptide. Write your polypeptide as a series of circles with the name of the corresponding amino acid within. This is the protein for the gene you transcribed. Check these off with me to make sure you got it Tomorrow youll have to transcribe & translate a much bigger gene. Methionine ? ?? ? ?? Slide 68 Codons in mRNA AUG UCA AGG CGC AGC CCG AUC UGA Slide 69 How are you progressing? Answers to IC/HW Exercise mRNA = AUGUCAAGGCGCAGCCCGAUCUGA Poly peptide chain = Methionine Serine Arginine Serine Proline Isoleucine Slide 70 Practice the Process: Find, transcribe and translate the gene into a polypeptide sequence. DNA: GCAATACGTAAATAGATCTATCGC mRNA: Polypeptide: AUG CAU UUA UCU AGA UAG Met-His-Leu-Ser-Arg-(stop) Slide 71 Complement Gene (DNA) mRNA (codon) Anticodon TAUA ATAU GCGC CGCG Rosetta Stone of Genetics Slide 72 Fill in the lines for the following sequences. Complement :___________________________________________________________________ Gene: ____________________________________________________________________ mRNA: AUG - ACU - AGC - UGG - GGG - UAU - UAC - UUU - UAG tRNA: ___________________________________________________________________ AA: ___________________________________________________________________ ATGACTAGCTGGGGGTATTACTTTTAG TACTGATCGACCCCCATAATGAAAATC UACUGAUCGACCCCCAUAAUGAAAAUC MET-THR-SER-TYR-GLY-TYR-TYR-PHE-STOP Slide 73 Fill in the lines for the following sequences. ComplementATG GeneTACATG mRNAUGUGAU tRNACUCUUGAUU Amino Acidalapro Slide 74 Fill in the lines for the following sequences. ComplementATGGAGTGTGATGCCTACAACCCTTAA GeneTACCTCACACTACGGATGTTGGGAATT mRNAAUGGAGUGUGAU GCU GCC GCA GCG UACAAC CCU CCC CCA CCG UAA tRNAUACCUCACACUACGAUGUUGGGAAUU Amino AcidMETGLUCYSAST asparta te alaTYRASP asparagi ne pro XXX TGT GAT(GCC)TACAAC(AAC)TAA XXXCTCACACTA(CGG)XXXTTG(GGA)ATT AUGGAGXXXXXX(GCC)UACAAC(CCU)UAA UACXXXACACUA(CGG)AUGXXX(GGA)XXX MET-GLU-CYS-VAL-XXX-TYR-THR-XXX-STOP Slide 75 TRX/TRL: CW/HW: Using the Genetic Code HW Genetic Code of Keratin Keratin is one of the proteins in hair. The gene for keratin is transcribed and translated by certain skin cells just underneath the growing hair. The sequence below is part of the mRNA molecule that is transcribed from the gene for keratin. Analysis 1. Determine the sequence of amino acids that will result from the translation of the segment of mRNA above. Use the genetic code in Figure 13. _____Methionine Serine Arginine Glutamic Acid Phenylalanine Serine - __________ 2. Determine the anticodon of each tRNA molecule that will bind to this mRNA segment. _____UAC AGA GCA CUU AAA AGG ______________________________________________________________________ 3. Critical Thinking Recognizing Patterns: Determine the sequence of nucleotides in the segment of template DNA from which this mRNA strand was transcribed. ____TAC AGA GCA CTT AAA AGG ______________________________________________________________________________ 4. Critical Thinking Recognizing Patterns: Determine the sequence of nucleotides in the segment of DNA that is complementary to the DNA segment that is described in item 3. ____ATG TCT CGT GAA TTT TCC ______________________________________________________________________________ Slide 76 Transcription/Translation Lab Working with a partner, analyze the gene Xlr24 to determine the DNA sequence of the gene, the sequence of the mRNA, and the sequence of the amino acids that will form the polypeptide. Answer the associated questions. This is a 100pt lab due next Monday.