Nucleic Acids (How much do you recall?) - Structure - Replication - Packaging Refer to chapter 12.1, 12.2 in text.

Nucleic Acids Types of organic molecules; 3 of 4 Polymers of 4 nucleotides Uses: Information transformation from cell generation to generation (DNA) and from genome to protein (RNA) DNA replication (making sure that all cells get the same information), Transcription (DNA sequence directing RNA sequence), and Translation (RNA directing amino acid sequence in proteins). (What do you recall about nucleic acid structure?)

Note: - nucleotides have three parts, which are… - Structure Note: - nucleotides have three parts, which are… - differences between DNA and RNA… ←ribose carbons are numbered 1’ to 5’

↓ triphosphate Note: -complementary base pairing -held together by hydrogen bonds, -to form the double helix. -Chains run in opposite directions: antiparallel covalent bonds here ← H bonds hold 3D structure → NB actually a nucleoside ↓ triphosphate ← phosphodiester linkage is between one 5’C and the previous 3’C original.britannica.com/eb/art-106485/The-hum... Campbell CD 16.1 (1st and 2nd) http://www.pbs.org/wgbh/nova/body/DNA-photograph.html ↑explanation of photo 51 www.web-books.com/MoBio/Free/Ch3A5.htm

organization of eukaryotic DNA Unique DNA: found only one time in a given genome. - These are often protein coding segments, which tend to vary little or none between individuals, and even between species. - RNA- and protein-coding DNA is about 1.5% of the human genome. Repetitive DNA: uh, repeated sequences. typically 5-300 base pairs in length, repeated up to 105 times per genome. - Most of the non-coding DNA is repetitive. transposons can “jump” about the genome by cut/copy and paste of DNA retrotransposons are reverse-transcribed segments from RNA satellite DNA: short repeats (many copies) often clumped at centromere and telomeres. - Often used to evaluate evolutionary relatedness. - These areas are used in forensic DNA “fingerprinting”. (19.4 in text)

- Replication Why would DNA have to be replicated? (Note - answer isn’t written here.) Again, what do you recall of the process? Helix “unzips”. DNA nucleotides brought in and plugged in to proper pair. Result of this semi conservative replication is two identical strands, each composed of one old and one new strand.

Campbell text animations, chapter 16.2 (1st and 2nd activities) YouTube videos: https://www.youtube.com/watch?v=dKubyIRiN84 Starts with packaging. Replication brief, includes helicase, SSBP, Pol III, I, okazaki fragments, ligase http://www.youtube.com/watch?v=4jtmOZaIvS0 Less detail, more realistic

a quick summary… in French

Replication terms: origin of replication replication fork replication bubble helicase → topoisomerase aka → gyrase single-stranded binding protein primase (RNA polymerase) primer deoxynucleoside triphosphate template strand leading strand lagging strand 5’ to 3’ direction DNA polymerase III DNA polymerase I Okazaki fragments ligase →nucleotide excision repair →telomere →telomerase Animations are helpful here, or work from the text.

- In eukaryotes, DNA is wrapped around proteins called histones. - 8 histones are wrapped in two loops of DNA, held in place by a linker (here H1) histone. This is a nucleosome. - This aids in organizing/ further packaging of DNA and has a role in gene regulation. DNA packaging www.accessexcellence.org/RC/VL/GG/nucleosome.php You have about 2 m of DNA in every cell! ↑ Linker histones stabilize this packing, too.

When it comes time for cell division, ← Double helix ← Nucleosomes ← Euchromatin fiber (during G phases) When it comes time for cell division, the DNA will be further “crunched” ← into heterochromatin… Video showing packaging http://www.youtube.com/watch?v=bW5JnYZImJA http://www.geneticengineering.org/chemis/Chemis-NucleicAcid/Graphics/Pack.gif

1. Base pair shape leads to proper matching. Editing: 1. Base pair shape leads to proper matching. 2. DNA polymerases check and correct the work. 3. Subsequent proofing can catch errors later. ↓ but some errors will squeak by… http://en.wikipedia.org/wiki/DNA_repair http://www.nature.com/scitable/topicpage/dna-replication-and-causes-of-mutation-409 … which leads to genetics.

DNA replication in prokaryotes The differences between eukaryotic and prokaryotic DNA: - Prokaryotes have a lone loop of double-stranded DNA. - It is not packaged in nucleosomes. (At 1 mm, still 500 times length of cell...) - Bacteria may have plasmids – independent DNA loops. Comparing the replication processes: - Cell division is organism’s reproduction: binary fission Recall: Not mitosis, because…? - Similar enzymes are at work: helicase, SSB proteins, Pol III, Pol I, ligase…. - Still antiparallel, so Okazaki fragments made. - One origin of replication ….

www.sciencebuddies.org/mentoring/plugin_bacte...

Why does DNA need to be replicated? Why do prokaryotes not have mitosis? Explain leading vs. lagging strand. What are the bases? Match each with its base pair. Which are the purines? “Draw and label a simple diagram of the molecular structure of DNA.” 3.3.5 List all of those DNA replication proteins. Describe what each does. Walk through the process of eukaryotic DNA replication. Nucleosome?

The rest of the terms DON’T FORGET THE VOCABULARY PULLED EARLIER! DNA replication genome transcription repetitive DNA translation transposon nucleotide retrotransposon pyrimidine satellite DNA purine semi conservative nucleoside triphosphate histone complementary base pairing nucleosome double helix euchromatin antiparallel heterochromatin unique DNA plasmid DON’T FORGET THE VOCABULARY PULLED EARLIER!