DNA sequencing mapping pdf.pdf

Unlock the mysteries of life with our latest episode on DNA sequencing! Join us on a captivating journey into the world of genetics as we delve deep into the fascinating process of decoding the fundamental building blocks of life.

🔍 In this episode, we demystify the complexities of DNA sequencing, exploring the cutting-edge technologies and methodologies that scientists use to unravel the secrets hidden within our genetic code. From the revolutionary Sanger sequencing to the high-throughput wonders of Next-Generation Sequencing (NGS), we break down the techniques that have shaped our understanding of genetics.

🔬 Get ready to witness the incredible precision and innovation behind modern DNA sequencing machines, as we showcase how they read, analyze, and interpret the four-letter alphabet that comprises our genetic information. We'll explore the significance of DNA sequencing in various fields, from medicine and forensics to evolutionary biology and personalized genomics.

🌐 Join us as we interview leading experts in the field, gaining insights into the latest advancements and future possibilities of DNA sequencing technology. Learn about the impact of sequencing on medical diagnostics, disease research, and the development of personalized therapies.

📊 Dive into the world of bioinformatics, where powerful algorithms make sense of the vast amount of data generated by DNA sequencing. Discover how this information is transforming our understanding of human evolution, biodiversity, and the interconnectedness of all living organisms.

👩‍🔬 Whether you're a science enthusiast, student, or simply curious about the intricacies of life, this episode promises to unravel the wonders of DNA sequencing in an accessible and engaging manner. Don't miss out on this illuminating exploration of the code that defines us all!

1. DNA sequencing

2. Steps to map the GEnome
Markers to
generate
highly
saturated map
Physical map
Sequencing
for the whole
genome

3. Steps to map the GEnome
Markers to
generate
highly
saturated map
Physical map
Sequencing
for the whole
genome

4. Why Genome Sequencing?

5. For many recombinant DNA experiments,
knowledge of a DNA sequence is a prerequisite for
its further manipulation
1.DNA sequencing followed by computer-assisted searching for restriction
endonuclease cleavage sites is often the fastest method for obtaining a
detailed restriction map.
2.Computer-assisted identification of protein-coding regions (ORF) within
the DNA sequence followed by computer-assisted similarity searches of
DNA and protein databases can lead to important insights into the
function and structure of a cloned gene and its product.
3.The DNA sequence is a prerequisite for a detailed analysis of the 5’ and 3’
noncoding regulatory regions of a gene.
4.DNA sequence information is essential for site-directed mutagenesis.
5.Small amounts of DNA sequence information ( “STS” or “EST “) are the
basis of methods for mapping and ordering large DNA segments cloned
into YACs, BACs, or cosmids

6. Main methods for sequencing DNA
The Enzymatic method
Dideoxy or Chain –
termination method
(developed by Sanger and
Coulson)
The Chemical method
(developed by Maxam and
Gilbert)
First Generation sequencing
= Maxam-Gilbert sequencing
=Sanger sequencing
=chain termination sequencing

7. THE DIDEOXY or
ENZYMATIC SEQUENCING METHOD
•based on DNA synthesis in the presence ofdideoxynucleotides.
•a DNA polymerase is utilized tosynthesize
➢a labeled
➢complementary copy of theDNAtemplate
•based on electrophoretic procedures using high –resolution
denaturing polyacrylamide gels (sequencing gels)
•electropherograms

8. THE DIDEOXY or
ENZYMATIC SEQUENCING METHOD

10. Single-stranded DNA template for the sequence of
interest
DNA polymerase
a section of labeled primer
the 4 normal deoxynucleotides triphosphate (dNTPs )
ddATP ddTTP ddCTP ddGTP

12. Manual

13. Single-stranded DNA template for the sequence of
interest
DNA polymerase
a section of labeled primer
the 4 normal deoxynucleotides triphosphate (dNTPs )
ddATP
ddTTP
ddCTP
ddGTP
Each with
different
fluorescent
label

16. chain termination sequencing
methodology
standard chain termination
•employs radioactivelabels
•visualized by autoradiography
•Four reaction tubes
Automated sequencing
•Employs fluoro-labeling
•visualized by fluorescent
detector which can discriminate
between the differentlabels
•Safer than using isotopes
•Single tube

17. THE CHEMICAL SEQUENCING METHOD
•only end-labeled fragments are observed following
autoradiography of the sequencing gel
•based on the ability of Hydrazine, Dimethyl sulfate
(DMS) or Formicacid to specifically modify bases
within the DNA molecule

18. THE CHEMICAL SEQUENCING METHOD
DMS (G) methylates nitrogen 7 (N7) of G, which then
opens between carbon 8 and nitrogen 9
(Piperidine then displaces the modified G
from its sugar)
Formic acid (G+A) weakens A and G glycosidic bonds
(The purines can then be displaced with
piperidine)
Hydrazine (T+C) splits the rings of T and C.
(The fragments then displaced by piperidine)
NaCl (C) In the presence of NaCl, only C reacts with
hydrazine
(The modified C can then be displaced with
piperidin)
Piperidine catalyze strand breakage at these modified
nucleotides.

20. What is the difference
between generated
sequence from sanger
and Maxam-Gilbert?

21. Next-Generation Sequencing (NGS)
•Despite many technical improvements during this era, the limitations
of automated Sanger sequencing showed a need for new and
improved technologies for sequencing large numbers of human
genomes
•The major advance offered by NGS is the ability to produce an
enormous volume of data cheaply -in some cases over one billion
short reads per instrument run

22. Sequence By Synthesis(SBS)
Pal Nyren'sPyrosequencing Method
1.a non-electrophoretic
2.real-time DNA-sequencing method
•Based on sequencing by synthesis that relies on the detection of
Pyrophosphate (PPi) released during the DNA polymerization reaction
•Pyrosequencing® technology is sequencing by synthesis, a simple-to-
use technique for accurate and quantitative analysis of DNA
sequences.

23. Sequence By Synthesis(SBS)
Pal Nyren'sPyrosequencing Method
4 Enzymes 2 substrates
Apyrase
luciferase
ATP
sulfurylase
DNA
polymerase
adenosine 5”
phosphosulfate
(APS)
luciferin

24. Step 1
Step 2
Step 3Step 4
Step 5
A sequencing primer is hybridized into a single
stranded PCR amplicon that serves as a template,
and incubated with the enzymes:
1.DNA polymerase
2.ATP sulfurylase
3.Luciferase
4.Apyrase
substrates:
1.(APS)
2.luciferin.

25. Step 1
Step 2
Step 3Step 4
Step 5
The first deoxyribonucleotide triphosphate (dNTP)
is added to the reaction .
■ DNA polymerase catalyzes the incorporation of
the deoxyribonucleotide triphosphate into the
DNA strad, if it is complementary to the base in
the template strand.
■ Each incorporation event is accompanied by
release of pyrophosphate (PPi) in a quantity
equimolar to the amount of incorporated
nucleotide.

26. Step 1
Step2
Step 3Step 4
Step 5
ATP sulfurylase converts PPi to ATP in the presence of
adenosine 5' phosphosulfate (APS).
■This ATP drives the luciferase-mediated conversion of
luciferin to oxyluciferin that generates visible light in
amounts that are proportional to the amount of ATP.
■The light produced in the luciferase-catalyzed
reactionis detected by a charge-coupled device (CCD)
chip and seen as a peak in the raw data output
(Pyrogram).
■The height of each peak (light signal) is proportional
to the
number of nucleotides incorporated.

27. Step 1
Step2
Step 3Step 4
Step 5
Apyrase, a nucleotide-degrading enzyme, continuously
degrades unincorporated
nucleotides and ATP.
• When degradation is complete, another nucleotide is
added.

28. Step 1
Step2
Step 3Step 4
Step 5