Introduction To Molecular Biology: Marla Grace Costes

Introduction To Molecular Biology
Marla Grace Costes

Contents
 The Genome
 The Cell
 Eukaryotic Cell
 Prokaryotic Cell
 Three Domain of Life
 The General Structure of Nucleic Acid
 DNA
 RNA
 The Central Dogma of Molecular Biology
 DNA Replication
 From DNA to Protein
 Genetic Mutation
 Human genome project
 Functional Genomics/Transcriptomics /Proteomics
Molecular Biology
Molecular biology; the branch of biology that study

gene structure and function at the molecular level.
The Molecular biology field overlaps with other areas,

particularly genetics and biochemistry.
The Molecular biology allows the laboratory to be

predictive in nature; events that occur in the future.
The Genome Database
The genome database is organized in six major organism

groups:
Eukaryotes,
Bacteria,
Archaea,
Viruses,
Viroids and
Plasmids.
Three Domain of Life
 Eukaryotic
 Prokaryotic
 Archaea
Eukaryotic Cell
Eukaryotes are generally

more advanced than
prokaryotes
Eukaryotic Cell
 Eukaryotic cells are found in animals, plants, fungi and

protists cell;
 Cell with a true nucleus, where the genetic material is
surrounded by a membrane;
 Eukaryotic genome is more complex than that of prokaryotes
and distributed among multiple chromosomes;
 Eukaryotic DNA is linear;
 Eukaryotic DNA is complexed with proteins called histones;
 Numerous membrane-bound organelles;
 Complex internal structure;
 Cell division by mitosis.
Prokaryotic Cell
Mariana Ruiz Villarreal, LadyofHats. Source: Wikipedia

Prokaryotic Cell
 Unicellular organisms, found in all environments. These

include bacteria and archaea;
 Without a nucleus; no nuclear membrane (genetic material
dispersed throughout cytoplasm;
 No membrane-bound organelles;
 Cell contains only one circular DNA molecule contained in the
cytoplasm;
 DNA is naked (no histone);
 Simple internal structure; and
 Cell division by simple binary fission.
Archaea
Archaea is prokaryotes;
organisms without nucleus
but some aspects of their
molecular biology are
more similar to those of
.eukaryotes
Saperaud. Source: Wikipedia

The Genome
 Totality of genetic information of an organism.
 Encoded in the DNA (for some viruses, RNA).

The Genome Size
Species/ Number of Chromosomes
Species Number of chromosomes

Human 46
Mouse 40
Rat 42
Fruit flies 8
Bacteria 1
Human Genome
Human Genome; Arranged on multiple chromosomes;

twenty three pairs of chromosomes;
Twenty two pairs (autosomes).
One pair (sex chromosome) (xx) (female) or (xy)
(male).
Humans have 23 pairs of chromosome in every cell

(except mature red blood cells..); Gametes or sex cells
(sperm and eggs) have half the normal complement of
chromosomes.
Human Genome
Jane Ades. Source: National Human Genome Research Institute

Modified from Strachan and Read . Source: http://geneticssuite.net/node/33
General Structure of Nucleic Acid
DNA and RNA are long

chain polymers of small
chemical compound called
nucleotides.
Nucleotides
Nucleotides; ring shaped structures composed of:

Nitrogenous base; these bases are classified based on
their chemical structures into two groups:
Purine;double ringed structure (Adenine and Guanine).
Pyrimidine; single ring structures (cytosine and thymine).
Sugar
Phosphate group
Nucleotides
 DNA: Four different types of nucleotides differ in

nitrogenous base:
 A is for adenine;
 G is for guanine;
 C is for cytosine and
 T is for thymine.
 RNA: thymine base replaced by uracil base.

Nucleotides
Jypx35. Source: Wikipedia

The DNA
Deoxyribonucleic Acid (DNA); the genetic material

of all cellular organisms and most viruses.
DNA; the gigantic molecule which is used to encode
genetic information for all life on Earth.
A human cell contains about 2 meters of DNA. DNA
in the body could stretch to the sun and back almost 100
times. So it is tightly packed.
DNA responsible for preserving, copying and
transmitting information within cells and from
generation to generation.
DNA Double Helix
 Linked as a twisted ladder.

 The curving sides of the ladder represent the
sugar-phosphate backbone of the two DNA
strands; the rungs are the base pairs.
 Possess antiparallel polarity.
 Stabilized by hydrogen bonds between the
bases.
DNA Double Helix
Madprime. Source: Wikipedia

The Gene
The gene; it is a segment within a very long strand of

DNA.
Genes are the basic units of hereditary.
Genes located on chromosome on its place or locus.
Allele; a variant of the DNA sequence at a given
locus. Each allele inherited from a different parent.
The Gene
Source: National Human Genome Research Institute.

Dominant and Recessive
 Dominant
 The one pair of allele that masks the effect of the
other when present in the same cell.
 Recessive
 The one pair of allele that is masked by the other
when present in the same cell and capable of
producing its characteristics phenotype in the
organism only when two alleles is present and
identical.
Dominant and Recessive
Gene Structure
 Most of the genes consist of; short coding

sequences or exons are interrupted by a longer
intervening noncoding sequence or introns;
although a few genes in the human genome
have no introns.
DNA Organization
DNA molecules
complexed with other
proteins, especially basic
proteins called histones to
form a substance known as
chromatin.
DNA Organization
The RNA
 Three major classes of RNA: messenger (mRNA),

transfer (tRNA) and ribosomal (rRNA). Minor
classes of RNA include small nuclear RNA; small
nucleolar RNA;……….
 RNA is a single stranded; the pyrimidine base uracil

(U) replaces thymine and ribose sugar replaces
deoxyribose.
Messenger RNA/ mRNA
 Transcripts of structural genes.

 Encode all the information necessary for the synthesis
of a polypeptide of protein.
 The 5' terminus is capped by 7 methyguanosine
triphosphate.
 Synthesis of the poly (A) tail involves cleavage of its
3' end and then the addition of about 200 adenine
residues.
 Intermediate carrier of genetic information; deliver
genetic information to the cytoplasm.
mRNA
Transfer RNA/ tRNA
 All the tRNAs share a common secondary structure

resembles a cloverleaf: They have four base- paired
stems defining three stem-loops (the D loop,
anticodon loop, and T loop) and the acceptor stem.
 tRNA carry correct amino acids to their position

along the mRNA template to be added to the growing
polypeptide chain.
tRNA
Ribosomal RNA/ rRNA
The central component of the ribosome.
Ribosome; factory for protein synthesis; composed of

ribosomal RNA and ribosomal proteins (known as a
Ribonucleoproteinor RNP).
rRNA provides a mechanism for decoding mRNA into

amino acids.
The Central Dogma of Molecular Biology
 DNA molecules serve as templates for either

complementary DNA strands during the
process of replication or complementary RNA
during the process of transcription.
 RNA molecules serve as a template for

ordering amino acids by ribosomes during
protein synthesis.
The Central Dogma of Molecular Biology
DNA Replication
 The DNA duplication.

 The transfer the genetic information from a
parent to a daughter cell.
 The DNA base sequences are precisely copied.

DNA Replication
. Source: National Institute of General Medical Sciences

George Rice. Montana State University.
Source: http://serc.carleton.edu/microbelife/research_methods/genomics/replication.html
Post-Replicative Modification of DNA
 Methylation; one of the major post- replicative

reactions.
 Site of methylation of eukaryotic DNA is always on

cytosine residues in CG dinucleotide.
 DNA methylation plays an important role for

epigenetic gene regulation in development and
disease.
Gene Expression
Transcription
RNA polymerase makes a copy of information in
the gene (complementary RNA) complementary
.to one strands of DNA
Translation
Occurs on ribosomes, messenger RNA decoded or
translated to determine the sequence of amino acid in
. the protein being synthesized
From DNA to Protein
Ashcraft. Source: http://creationwiki.org/File:Gene_expression.PNG

Ribosomes
 Factory for protein synthesis.
 Composed of ribosomal RNA and ribosomal

proteins (known as a Ribonucleoprotein or RNP).
 Translate (mRNA) to build polypeptide chains using

amino acids delivered by (tRNA).
The Protein
 Proteins are chain like polymers of a few or

many thousands of amino acids.
 Amino acids: (3-nucleotide RNA sequences)

(codon).
Four levels of Protein Structure
 Primary protein structure: Sequence of a chain of

amino acid.
 Secondary protein structure: A chain of amino
acids linked by hydrogen bonds.
 Tertiary protein structure: It occurs when certain
attraction occurs between alpha helices and pleated
sheets.
 Quaternary protein structure: Protein containing
more than one amino acid chains.
Four levels of Protein Structure
LadyofHats. Source:Wikipedia
Genetic Mutation
A mutation is a change in
the DNA sequence or
arrangement of DNA.
Yassine Mrabet . Source:Wikipedia

Common Tools of Molecular Biology
Human Genome Project
 HGP is an international project aiming for:

 Sequencing and localization of the base sequence
that makes up human DNA.

 Store this information in databases.
 Mapping of human genome requires a set of
landmarks; some of this landmarkers are genes but

many more are nameless stretches of DNA such as
RFLPs, VNTRs, STSs.
Human Genome Project
 1990, American geneticists started an ambitious quest

to map and sequence the entire human genome.
 1999, the final draft of human chromosome 22.
 2000, the final draft of human chromosome 21.
 2001, working draft of the whole human genome.
 2004, the finished sequence of the euchromatic part
of human genome.
Functional Genomics / Transcriptomics/ Proteomics
 Functional Genomics
 The study of expression of large number of genes.
 Transcriptomics
 The study of transcriptomes (all the transcripts an
organism makes at any given time).

 Proteomics
 The study of proteomes (the set of expressed
proteins in a given type of cells or an organism at a

given time under defined conditions).
Source: European Bioinformatics Institute. http://www.ebi.ac.uk/microarray/biology_intro.html
Application of Molecular Biology
 Research
 Diagnosis
 Transplantation
 Paternity
 Forensic analysis
 Gene therapy
 Drug Design
 ……
References and Further Reading
 Ali Khalifa. Applied molecular biology; eds: ( Fathi Tash and Sanna Eissa). 109 pages. Egypt.
University Book Center. 2002. Available in paper copy from the publisher.
 Bruce Alberts, Alexander Johnson, Julian Lewis, Martin Raff, Keith Roberts, and Peter Walter.
Molecular Biology of the cell. 1392 pages. Garland Science; 5 edition (November 16,
2007).ISBN. 9780815341055. Available in paper copy from the publisher.
 Daniel H. Farkas. DNA Simplified: The Hitchhiker's Guide to DNA. 110 pages. Washington, DC:
AACC Press, 1996, ISBN 0-915274-84-1. Available in paper copy from the publisher.
 Daniel P. Stites, Abba T. Terr. Basic Human Immunology: 336 Pages. Appleton & Lange
(November 1990). ISBN. 0838505430. Available in paper copy from the publisher.
 Innis, David H. Gelfand, John J. Sninsky. PCR Applications: Protocols for Functional Genomics:
566 pages. Academic Press; 1 edition (May 17, 1999). ISBN:0123721865. Available in paper
copy from the publisher.
 Robert F. Mueller, Ian D. Young. Emery's Elements of Medical Genetics: Publisher: Churchill
Livingstone. 1995. ISBN. 044307125X. Available in paper copy from the publisher.
 Robert F. Weaver. Molecular Biology. 600 Pages. Fourth Edition. McGraw-Hill International
Edition. ISBN 978-0-07-110216-2. Available in paper copy from the publisher.
 William B. Coleman, Gregory J. Tsongalis. Molecular Diagnostics. For the Clinical Laboratorian:
592 pages. Humana Press; 4th Printing. edition (August 15, 2005). ISBN 1588293564. Available
in paper copy from the publisher.
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you

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Introduction To Molecular Biology

Marla Grace Costes

Molecular biology; the branch of biology that study

The Molecular biology field overlaps with other areas,

The Molecular biology allows the laboratory to be

The genome database is organized in six major organism

Eukaryotes are generally

 Eukaryotic cells are found in animals, plants, fungi and

Mariana Ruiz Villarreal, LadyofHats. Source: Wikipedia

 Unicellular organisms, found in all environments. These

Saperaud. Source: Wikipedia

 Totality of genetic information of an organism.

 Encoded in the DNA (for some viruses, RNA).

Species Number of chromosomes

Human Genome; Arranged on multiple chromosomes;

Humans have 23 pairs of chromosome in every cell

Jane Ades. Source: National Human Genome Research Institute

DNA and RNA are long

Nucleotides; ring shaped structures composed of:

 DNA: Four different types of nucleotides differ in

 RNA: thymine base replaced by uracil base.

Jypx35. Source: Wikipedia

Deoxyribonucleic Acid (DNA); the genetic material

 Linked as a twisted ladder.

Madprime. Source: Wikipedia

The gene; it is a segment within a very long strand of

Source: National Human Genome Research Institute.

 Most of the genes consist of; short coding

 Three major classes of RNA: messenger (mRNA),

 RNA is a single stranded; the pyrimidine base uracil

 Transcripts of structural genes.

 All the tRNAs share a common secondary structure

 tRNA carry correct amino acids to their position

The central component of the ribosome.

Ribosome; factory for protein synthesis; composed of

rRNA provides a mechanism for decoding mRNA into

 DNA molecules serve as templates for either

 RNA molecules serve as a template for

 The DNA duplication.

 The DNA base sequences are precisely copied.

. Source: National Institute of General Medical Sciences

 Methylation; one of the major post- replicative

 Site of methylation of eukaryotic DNA is always on

 DNA methylation plays an important role for

Ashcraft. Source: http://creationwiki.org/File:Gene_expression.PNG

 Factory for protein synthesis.

 Composed of ribosomal RNA and ribosomal

 Translate (mRNA) to build polypeptide chains using

 Proteins are chain like polymers of a few or

 Amino acids: (3-nucleotide RNA sequences)

 Primary protein structure: Sequence of a chain of

Yassine Mrabet . Source:Wikipedia

 HGP is an international project aiming for:

that makes up human DNA.

 Mapping of human genome requires a set of

landmarks; some of this landmarkers are genes but

 1990, American geneticists started an ambitious quest

organism makes at any given time).