Information

Book: Investigations in Molecular Cell Biology (O'Connor) - Biology


The text introduces students to molecular cell biology within the context of a semester-long research project in functional genomics. In the Pathways over Time project, students study the evolutionary conservation of genes in methionine synthesis. Each chapter includes both theoretical background material as well as detailed experimental procedures. Chapters can be used alone or in combination, depending on the course.

Thumbnail: A diagram of a typical prokaryotic cell. (Public Domain; Mariana Ruiz Villarreal, LadyofHats).


BIOL 2040 Investigations in Molecular Cell Biology

Use Zotero to help you to collect, manage, and cite your references. With Zotero you can attach PDFs, notes, and images to your citations, organize them into collections for different projects, and create bibliographies.

  • Free & open-source with a robust user community & documentation
  • Sync desktop app with cloud-based account
  • Store and organize records and PDFs
  • Share citation records with anyone
  • Plugins/Add-ons for MS Word, Google Docs, and Libre Office

To learn about other citation tools, check out our Citation Tools comparison chart.


Molecular Biology of the Cell

The original idea of a book such as MBoC belonged exclusively to James Watson. In the early 1970s, he wisely spotted a latent hurdle for his long-time vision of transforming the whole biology field into a molecular science. He recognized that the knowledge of cell biology at the time was almost entirely based on light and electron microscopy investigations, and for students this hardly integrated any new molecular biology. Therefore, Watson believed in the need for a new textbook that would combine these two fields. As Martin Raff recalls, for Watson producing MBoC would be a “very important way of modernising the way cell biology was taught and perhaps even how cell biology was done.”

From Beyond a pedagogical tool: 30 years of Molecular Biology of the Cell

Now in it’s 6th edition, Molecular Biology of the Cell (MBoC), a classic university biology textbook, and it’s lighter companion book, Essential Cell Biology (in its 4th edition), continue to offer students a “new and invigorating outlook on what cells are and what they do.”

Authors and publisher of the first Molecular Biology of the Cell, published in 1983. From left: Bruce Alberts, Keith Roberts, Martin Raff, Gavin Borden (publisher), James Watson, Dennis Bray and Julian Lewis. Image ©Keith Roberts.

Video Resources

The resources for recent editions include animations and videos such as this one, from the MBoC 6th edition.

MBOC Authors at Nugent Terrace in June 2014. From left to right: Keith Roberts, Martin Raff, David Morgan, John Wilson, Sandy Johnson, Bruce Alberts and Peter Walter.

The London House and the Beatles

Since 1985, the authors of the Molecular Biology of the Cell have gathered at this 19th century home in St. John’s Wood, London for writing meetings.

The home is near the zebra crossing at Abbey Road made famous by the Beatles, which inspired this back cover for the MBoC 3rd edition, and a string of Beatles’ album-inspired back covers for MBoC and Essential Cell Biology texts. See all of the Beatles-themed covers on this blog >>

Authors of MBoC 3 imitating the famous Abbey Road cover.

Back cover of MBoC 5th edition, referencing the Revolver album.

Help album on the back cover of ECB 3rd edition.

MBoC 4th edition back cover copy of the Sgt Pepper’s Lonely Hearts Club Band album cover.

Back cover of MBoC 6th edition Please Please Me homage.


CELLULAR AND MOLECULAR BIOLOGY (Code: CELL)

This is an interdisciplinary field that studies the structure, function, intracellular pathways, and formation of cells. Studies involve understanding life and cellular processes specifically at the molecular level.

Subcategories:

Cell Physiology
Cellular Immunology
Genetics
Molecular Biology
Neurobiology
Other

Cell Physiology (PHY): The study of the cell cycle, cell function, and interactions between cells or between cells and their environment. In general, projects could address physiology of membrane transport, neuron transmission, muscle contraction, the digestion of food, circulation of blood, contraction of muscles, or movement and production of nutrients in plant cells.In general, projects could address physiology of membrane transport, neuron transmission, muscle contraction, the digestion of food, circulation of blood, contraction of muscles, or movement and production of nutrients in plant cells.

Cellular Immunology (IMM): The study of the structure and function of the immune system at the cellular level. This includes investigations of innate and acquired (adaptive) immunity, the cellular communication pathways involved in immunity, cellular recognition and interactions between antigens and antibodies.

Genetics (GEN): The study of molecular genetics focusing on the structure and function of genes at a molecular level.genes, genetic variation, and heredity in living cells. These projects explore the consequences of genome variation on human cell biology, and thus gene function in health and disease. Furthermore, projects may study the impact of naturally-occurring and engineered genome mutations in human iPS cells, their differentiated derivatives, and other cell types.

Molecular Biology (MOL): The study of biology at the molecular level. Chiefly concerns itself with understanding the interactions between the various systems of a cell, including the interrelationships of DNA, RNA and protein synthesis and learning how these interactions are regulated, such as during transcription and translation, the significance of introns and exons or coding issues.

Neurobiology (NEU) : The study of the structure and function of the nervous system at the cellular or molecular level. This area focuses on the study of cells of the nervous system and the organization of these cells into functional circuits that process information and mediate behavior. Some neurobiology focuses on the molecular structures of the brain and nervous system. Larger complete systems, like the function and structure of the cerebral cortex, may be studied. Projects can look at biological factors that impact learning or mood, or how early genetic material develops into various areas of the brain.

OTH Other (OTH): Studies that cannot be assigned to one of the above subcategories. If the project involves multiple subcategories, the principal subcategory should be chosen instead of Other.


Graduate and undergraduate students studying biochemistry, molecular biology, biotechnology, and cell biology

Part I: Manipulation of DNA
Advanced Alternatives Within Part I
1. Getting Oriented Practicing With Micropipettes
2. Purification and Digestion of Plasmid (Vector) DNA
3. Completion of Vector Preparation and Polymerase Chain Reaction Amplification of egfp
4. Preparation of Insert DNA (egfp) PCR Product
5. DNA Ligation and Transformation of Escherichia coli

Part II: Screening Transformants
Advanced Alternatives Within Part II
6. Screening of Transformants, Part I
7. Screening of Transformants, Part II
8. Analysis of DNA Sequence From a Positive Clone, Part II

Part III: Expression, Detection, and Purification of Recombinant Proteins from Bacteria
Advanced Alternatives Within Part III
9. Expression of Fusion Protein from Positive Clones, SDS_PAGE and Western Blot: Part I
10. Expression of Fusion Protein from Positive Clones, SDS_PAGE, and Western Blot: Part II
11. Extraction of Recombinant Protein From Escherichia coli Using a Glutathione Affinity Column
12. Analysis of Purification Fractions

Part IV: Analysis of mRNA Levels
13. Total RNA Purification
14. Analysis of gst::egfp mRNA Levels by RT-qPCR: Part I
15. Analysis of gst::egfp mRNA Levels by RT-qPCR: Part II
16. Analysis of gst::egfp mRNA Levels by Semiquantitative RT-PCR: Part I
17. Analysis of gst::egfp mRNA Levels by Semiquantitative RT-PCR: Part II

Part V: Modulation of Gene Expression
18. Culturing Mammalian Cells
19. Transient Transfection of Mammalian Cells
20. RNAi-Mediated Knockdown of EGFP: Part I
21. RNAi-Mediated Knockdown of EGFP: Part II
22. RNAi-Mediated Knockdown of EGFP: Part III
23. CRISPR-Mediated Knockout of EGFP: Part I
24. CRISPR-Mediated Knockout of EGFP: Part II
25. Advanced CRISPR: Part I
26. Advanced CRISPR: Part II
27. Interim Laboratory Session
28. Advanced CRISPR: Part IV
29. Advanced CRISPR: Part V
30. Advanced CRISPR: Part VI

Appendix
A: Equipment
B: Prep List
C: Preparation of Competent Escherichia coli Cells
D: Pre-Lab Questions


Molecular and Cellular Biology (MCB)

The Molecular and Cellular Biology (MCB) concentration emphasizes the intersection of modern cellular biology research with medicine and society. It is rooted in the investigation of biological processes based on the study of molecules and their interactions in the context of cells and tissues, and how the genome orchestrates cell behavior. MCB is therefore ideally suited to students who wish to study molecular and cellular processes at the heart of both normal physiology and disease. In doing so, MCB concentrators will explore contemporary subjects spanning genomics, systems biology, immunology, cancer biology, the microbiome, global health, and infectious disease.

Through coursework and hands-on research, students will have the opportunity to investigate many of the questions central to modern biology and medicine. The MCB faculty is dedicated to supporting undergraduate research, and we encourage students to join the laboratory of an MCB faculty member or a laboratory in one of the Harvard-affiliated centers. We consider the senior thesis to be the capstone academic experience, and the concentration will provide extensive support to seniors to make thesis writing an enriching experience.
MCB students are also assigned a Tutor from the Board of Tutors in Biomedical Sciences to provide both intellectual support and professional mentorship. An MCB student typically meets with his or her assigned Tutor regularly throughout the semester, either individually or in small groups, to read and discuss primary literature or relevant texts tailored to the student’s interests. MCB graduates will be informed citizens who can understand and evaluate the impact of new research discoveries in the life sciences as they unfold at a breathtaking and accelerating pace. Graduates will stand poised to pursue a broad range of careers in biological and medical research, public and global health, science policy, law and intellectual property, business, education, and science writing.


Fundamentals of Molecular Structural Biology

Fundamentals of Molecular Structural Biology reviews the mathematical and physical foundations of molecular structural biology. Based on these fundamental concepts, it then describes molecular structure and explains basic genetic mechanisms. Given the increasingly interdisciplinary nature of research, early career researchers and those shifting into an adjacent field often require a "fundamentals" book to get them up-to-speed on the foundations of a particular field. This book fills that niche.

Fundamentals of Molecular Structural Biology reviews the mathematical and physical foundations of molecular structural biology. Based on these fundamental concepts, it then describes molecular structure and explains basic genetic mechanisms. Given the increasingly interdisciplinary nature of research, early career researchers and those shifting into an adjacent field often require a "fundamentals" book to get them up-to-speed on the foundations of a particular field. This book fills that niche.


Success

Dan Smith, &rsquo89

At Bob Jones University I encountered an environment where students were encouraged and challenged to develop in the mental, physical, spiritual and social aspects of life. This liberal arts educational approach contributes to the “complete” development of an individual. Within the science faculty I found men and women who were knowledgeable, honorable and sincere in their investment in my life. Considering the precept that “a student becomes like his teacher,” the intangible investments above and beyond the knowledge of a specific discipline continue to influence my life and the lives of those with whom I live and work. Now in the years since completing undergraduate studies (and subsequent advanced degrees), I trust these investments are producing returns with new investments in the lives of others through research projects, teaching and scientific collaborations.


Research Focus

Dr. Hanson has two different research programs, related through their dependence on modern methods for examining genome sequences and gene expression. Her research in plant biology has always focused on the genome-containing organelles of plants, chloroplasts and mitochondria. Reflecting their prokaryotic origins, gene expression in these organelles differs from that of nuclear genes. In particular, organelle genes are often organized in operons that undergo considerable post-transcriptional processing, including RNA editing. The nuclear genome exerts significant control of organelle gene expression through the action of nuclear-encoded proteins targeted to the organelle. Research goals include identification of the components of the organelle RNA editing apparatus and an RNA/protein complex that suppresses the expression of an abnormal mitochondrial protein. Another study utilizes synthetic biology methods to introduce CO2-concentrating microcompartments into chloroplasts. A third project concerns engineering of the carbon-fixing enzyme Rubisco in chloroplasts in order to enhance the efficiency of photosynthesis. A second research area is the pathophysiology of the human illness Chronic Fatigue Syndrome (CFS), also known as Myalgic Encephalomyelitis (ME). Individuals with this illness often have evidence of immune system activation and dysfunction. One current project is examining metabolism of immune cells and metabolites in plasma. Another project aims to identify differences in gene expression and cargo of extracellular vesicles at baseline and following exercise in healthy and in subjects diagnosed with ME/CFS


Centres and excellence programs

CBP is engaged in several research centers as well as excellence and synergy programs with focus on interdisciplinary research.

Center for Advanced Bioimaging (CAB) Denmark, UCPH (Ivana Novak)
https://cab.ku.dk/

NOVO Synergy program (Stine Falsig Pedersen)
SYNERGY: Investigating the potential of the protein-membrane co-structural dynamics. https://synergy.ku.dk/

The Advanced National Danish Technology Foundation (Per Amstrup Pedersen)
Industrial Biomimetics in Sensing and Separation (IBISS)
http://www.ibiss.dtu.dk/

The Innovation Foundation (Per Amstrup Pedersen)
Membrane Energy Technologies (MEMENTO)

UCPH Excellence Programme for Interdisciplinary Research (Søren Tvorup Christensen and Lotte Bang Pedersen)
Global genes, local concerns: Legal, ethical and scientific challenges in cross-national biobanking exploitation.
https://globalgenes.ku.dk/

Funding from the Danish Research Councils


Advanced Life in extreme Environments (ALIEN) (
Nadja Møbjerg)

Calmodulin mutations causing sudden cardiac death (Martin Werner Berchtold)

Cellular Hubs (Stine Falsig Pedersen)

Ciliopathies and congenital heart disease: the role of novel ciliary proteins in signaling and cardiogenesis (Søren Tvorup Christensen and Lotte Bang Pedersen)

Coordination of PDGFRα and TGFβ signaling at the primary cilium (Søren Tvorup Christensen and Lotte Bang Pedersen)

Extrachromosomal circular DNA - origin and impact on eukaryotic genome stability (Birgitte Regenberg)

Impact of exercise training on hepatic ER stress (Henriette Pilegaard)

Mitochondrial quality control (Henriette Pilegaard)

Small Molecules of Metabolism and ATP responses in living cells (Ivana Novak)


Watch the video: Molecular Biology of THE CELL (January 2022).