Bruce Lipton Ph.D.

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The "New" Biology References and Recommended Readings

NOTE: References are organized into subject categories and the relevance of each article is briefly described in parentheses. Many of the topics may overlap, so please scan list for subjects of interest. Updated: April 2006

PHYSICS AND BIOLOGY:
The mental Universe Henry, R. C. (2005) Nature 436:29 [Johns Hopkins' professor of physics emphasizes "The Universe is immaterial - mental and spiritual."]
A new twist on molecular shape Weinhold, F. (2001). Nature 411: 539-541. [important paper that says molecular movements (i.e., life) uses quantum mechanics not materialistic Newtonian mechanics, conclusion: organic chemistry books wrong!]
Pre-Unfolding Resonant Oscillations of Single Green Fluorescent Protein Molecules Baldini, G., et al, (2005) Science 309:1096-1100 ["Scientific" paper on how electric and sound vibrations can drive protein conformation changes, movements that create life]
Vibrational Medicine. Energy Medicine: The Scientific Basis Oschman, J. L. (2000). Chapter 9, Edinburgh, Harcourt Publishers: 121-137. [BOOK, good insights about energy medicine mechanisms]
The Quantum Centennial A. Zellinger Nature 2000, 408:639-641 (Brief review of quantum physics origins and its impact on civilization)
Exploiting Thermal Motion K. Schulten Science 2000, 290:61-62 (Reveals that quantum waves are at heart of protein reaction mechanism)
A New Twist on Molecular Shape Frank Weinhold, Nature 2001, 411:539-541 (Reveals why Newtonian-based chemistry textbooks hinder advance into quantum mechanical understanding of molecular interactions)
Biologists Cut Reductionist Approach Down to Size Nigel Williams, Science 1997, 277:476-477 (Current science is materialistic since "information" considered to be only found in physical molecules)
Complex Systems: Beyond Reductionism Science 1999, 284:79-109 Collection of 10 articles that question continued use of "Reductionism" and endorse "Holism" as necessary for acquiring new knowledge.
Detecting Individual Atoms and Molecules with Laser: Every atom or molecule emits and absorbs light of characteristic wavelengths, V. S. Letokhov Scientific American September 1988 pgs 54-59 (Atoms and molecules communicate via frequency resonance)
Laser Chemistry: The Light Choice R. A. Kerr Science 1994, 266:215-217 (Research on how vibrational energy affects specific molecular bonds)
Physicists Advance into Biology* J. Glanz Science 1996, 272:646-648 (Bringing new physics to cell biology)
Resonance In Bioenergetics C. W. F. McClare Annals NY Acad. Science 1974, 227:74-83 (States that vibrational energy interfaces biological tuned resonance information system)
Cold Numbers Unmake the Quantum Mind C. Seife Science 2000, 287:791 (Microtubules not source of "quantum" consciousness)

NEW CONCEPTS REGARDING EVOLUTION, GENE EXPRESSION AND MUTATION
Rethinking Genetic Determinism: With only 30,000 genes, what is it that makes humans human? Silverman, P. H. (2004). The Scientist: 32-33. [Discusses genome project as capital-venture effort of pharmaceutical companies, and describes failure of DNA philosophy]
The Uncertain Future for Central Dogma. Goodman, A. F., Bellato, C. M. and Khidr, L. (2005) The Scientist 19(12):20-21 [Dealing with devastating exceptions to the notion of genetic control]
Endocrine Disrupters Trigger Fertility Problems in Multiple Generations Kaiser, J. (2005) Science 308:1391-1392 [Evidence for the ‘inheritance of acquired characteristics,' fundamental premise of Lamarckian evolution]
Genome-wide non-mendelian inheritance of extra-genomic information in Arabidopsis S. J. Lolle, J. L. Victor, J. M. Young and R. E. Pruitt (2005) Nature 434:505-509 [new "mysterious," non-DNA inheritance mechanism]
Gaia and natural selection Timothy M. Lenton (1998) Nature 394:439-447 [new evolution theory of cooperation vs Darwinian competition]
The fate of transgenes in the human gut Heritage, J. (2004). Nature Biotechnology 22(2): 170+.
[GMO engineered genes transfer during digestion into human gut bacteria, review]
Evolution in Four Dimensions: Genetic, Epigenetic, Behavioral, and Symbolic Variation in the History of Life Jablonka, E. and M. J. Lamb (2005) Bradford Books, UK [A broader view of inheritance puts pressure on the neo-Darwinian synthesis]
Darwin's Blind Spot: Evolution beyond natural selection.Ryan, F. (2002). New York, Houghton Mifflin. [BOOK] [thinking beyond Darwin!]
Metaphors and the Role of Genes in Development H. F. Nijhout BioEssays 1990, 12 (9):441-446 (Describes that genes are not self-emergent, they need environmental signal for activation)
The Origin of Mutants John. Cairns, J. Overbaugh and S. Miller Nature 1988, 335:142-145 (This was first major paper on "adaptive" mutations [i.e., mutations that are not random!])
The Evolution of Genetic Intelligence David S. Thaler Science 1994, 264:224-225 (Discusses new papers which verify adaptive (Cairnsian) mutations, new gene control scheme compared to Darwinian scheme)
Evolution Evolving* Tim Beardsley Scientific American September 1997, pages 15-16 (Provides the first notice of Cairns' study to the "general public," almost ten years after it was first published!)
Transposons Help Sculpt a Dynamic Genome Anne S. Moffat Science 2000, 289:1455-1457 (Moveable genes create rapid changes in DNA code)
Dirty Transcripts from Clean DNA B. A. Bridges Science 1999, 284:62-63, (Genetic mechanisms for "adaptive" mutations)
Test Tube Evolution Catches Time in a Bottle T. Appenzeller Science 1999 284:2108-2110 (The "regularity" and "reproducibility" (not chance) of mutational response in genetic "adaptations.")
Principles for the Buffering of Genetic Variation J. Hartman, et al., Science 2001, 291:1001-1004 (Discusses that traits are due multi-genes, many genes acting together, allows "buffering" of effect of individual mutated genes)
New Clues to How Genes Are Controlled J. Marx Science 2000, 290:1066-1067 (Same "transcription factors" used for 3 different genes in same nucleus, how does single factor select among three genes?)
Tangled Strands In The Double Helix M. Ridley Nature 2000, 406:347-348 (Reviews 2 books by evolutionary geneticist R. Lewontin, who questions current genetics dogma as "bad science," brings up environment-gene issues)
Genomes as smart systems* J. A. Shapiro Genetica 1991, 84:3-4 (Compares the new understanding of gene function and behavior with the established "DNA dogma")
Brain Wiring Depends upon Multifaceted Gene J. Travis Science News 2000 157:406 (A single gene can create 38,000 different versions of a protein, knowing gene does not predict the outcome possibilities)
How the Genome Readies Itself for Evolution* E. Pennisi Science 1998, 281:1131-1134 Doubled Genes May Explain Fish Diversity* G. Vogel Science 1998, 281:1119-1121, and, DNA Microsatellites: Agents of Evolution?* E. R. Moxon and C. Wills Scientific American January 1999, pages 94-99 Twinned Genes Live Life In The Fast Lane E. Pennisi Science 2000, 290:1065-1066 (Reviews article on how gene duplication serves as source for "new" genes and other new DNA mutation mechanisms to support rapid evolution)
Mining Treasures from ‘Junk DNA'* R. Nowak Science 1994, 263:608-610 (Junk DNA's important role in evolution)
Quick-Change Pathogens Gain an Evolutionary Edge* D. Grady Science 1996, 274:1081 Versatile Gene Uptake System Found in Cholera Bacterium E. Pennisi Science 1998, 280:521-522 (Bacteria pick-up environmental genes)
Close Encounters: Good, Bad, and Ugly E. Pennisi Science 2000, 290:1491-1493 (Microrganisms exchange DNA in cooperation, resulting in continuous evolution thru interaction)
Protein Dynamics: Implications for Nuclear Architecture and Gene Expression T. Misteli Science 2001, 291:843-847 (Describes role of nuclear proteins in gene expression)
One-Celled Socialites:Bacteria mix and mingle with microscopic fervor Bower, B., (2004) Science News 166:330-332 [Communities of microorganisms coordinated signals and gene activity, coordination leads to society]

TRANSCRIPTION: FROM INFORMATION TO GENE ACTION
How Chromatin Changes Its Shape Michael Hagmann Science 199, 285:1201-1203 (How environmental signals [growth/protection] select gene programs)
Catalysis by a Multiprotein IκB Kinase Complex T. Maniatis Science 1997, 278:818-819 (An example to illustrate pathway from signal at membrane receptor to nuclear gene activation)
Inner Workings of a Transcription Factor Partnership B. J. Graves Science 1998, 279:1000-1002 (How proteins turn on genes)
New Antibiotic Dulls Bacterial Senses* J. Travis Science News 1998, 153:276 (Receptor relay system controls gene expression)
Signaling Through Scaffold, Anchoring, and Adaptor Proteins T. Pawson and J. D. Scott Science 1997, 278:2075-2080 and, Integrin Signaling F. G. Giancotti and E. Ruoslahti Science 1999, 285:1028-1032, (How environmental signals traverse membrane, are carried by cytoskeleton to nucleus and influence gene expression)

EPIGENETICS: (ENVIRONMENTAL "PROGRAMMING" OF GENES)
It's the Ecology, Stupid! Powell, K, (2005) Nature 435:268-271 [Interestingly, this review fully supports conclusions on how environment shapes genetic expression that were published earlier as Chapter 2 in my book. Universe humor: my chapter is entitled "It's the Environment Stupid"]
Rac1b and reactive oxygen species mediate MMP-3-induced EMT and genomic instability Radisky, D. C., et al (2005) Nature 436:123-127 [Microenvironment around stem cells can induce cancer]
Nature, nurture and human disease. Chakravarti, A. and P. Little (2003). Nature 421:412-414. [how environmental perception controls genes and disease]
Epigenetic differences arise during the lifetime of monozygotic twins Fraga, M. F., et al (2005) Proc. Natl. Acad. of Sciences 102:10604-10609 [Life experiences dynamically change gene expression over time]
Endocrine disrupters trigger fertility problems in multiple generations Kaiser, J. (2005) Science 308:1391-1392 [Reveals epigenetics role in Lamarckian evolution - acquired traits passed onto next generation]
Transcriptional regulatory code of a eukaryotic genome Harbison, C. T. (2004) Nature 431:99-104 [Mechanisms of how environmental experiences serve as signals in "scripting" genetic activity]
Climbing the co-evolution ladder Lenton, T. M. (2004) Nature 431:913 [History reveals tight intertwining of environment and genetics]
Gene exchange by design Gelvin, S. B. (2005) Nature 433:583-584 [Interkingdom genetic exchange between bacteria and plants]
Epigenetics: Regulation Through Repression A. P. Wolffe and M. A. Matzke Science 1999, 286:481-486 ("Acquired" characteristics passed from parent to child without changes in DNA coding)
Was Lamarck Just a Little Bit Right? M. Balter Science 2000, 288:39 (Environment controls genes through "epigenetic" mechanisms)
Epigenetic Reprogramming in Mammalian Development W. Reik, W. Dean and J. Walter Science 2001, 293:1089-1093 (Describes how environmental programs, ie, epigenetic control templates, are erased and reset in embryonic development)
Reprogramming of genomic function through epigenetic inheritance M. A. Surani Nature 2001, 414:122-128 (Describes "genomic imprinting," mechanism by which parents program gene expression in offspring)
Epigenetics: Genome, Meet Your Environment Leslie Pray The Scientist 2004, 18(13):14 (Review of molecular mechanisms used in epigenetic control)
Mother nature meets mother nurture J. C. Crabbe and T. J. Phillips Nature Neuroscience 2003, 6:440-442 (Intrauterine and postnatal care alter gene expression and behavior in adulthood)
Nature, nurture and human disease A Chakravarti and P. Little Nature 2003 421:412-414 (How environment can cause disease through epigentic mechanisms)

PROTEINS
A Protein Interaction Map of Drosophila melanogaster Giot, L., J. S. Bader, et al. (2003). Science 302:1727+. [protein pathways are holistic, not linear reductionistic, reveals reason for drug "side-effects]
A Glimpse of the Holy Grail?* H. J. C. Berendsen Science 1998, 282:642-643 (How proteins fold into shapes)
Folding Proteins Caught in the Act* R. F. Service Science 1996, 273:29-30 (Seeing dynamics of protein folding)
Proteins in Motion* M. Gerstein and C. Chothia Science 1999, 285:1682-1684 (How membrane protein conformation changes send signals into cytoplasm)
The Rotary Enzyme of the Cell: The Rotation of F1-ATPase H. Noji Science 1998, 282:1844-1845 (Insight into how protein conformation changes produce work)
New Clues to How Proteins Link Up to Run the Cell* M. Barinaga Science 1999, 283:1247-1249 (How connections between proteins regulate cell pathways)

Posted on: Jan 5, 02:55 PM