Biology Library News

Recommended reading

An extraordinary week. This blog post by Kevin Smith, J.D from Scholarly communications @ Duke is another nice summary of Elsevier and public access legislation stories. See also my post.

The Elsevier Boycott and its relationship to WUSM Although written from WU School of Medicine perspective, the "Facts and Figures about Elsevier's Impact at Becker Library" is useful in describing pros and cons of the current WU no-cancellations contract with Elsevier and the situation that many Elsevier journals, especially the Cell Press titles, are still heavily used and prime locations for many biologists.. Even given the "pros" I can't imagine that the Danforth campus will continue this contract much longer. We'll see.

Is the pot calling the kettle black? This blog post, by Stuart Shieber in The Occasional Pamphlet on scholarly communication, compares rising tuition/cost of attendance prices with rising journals prices (he calls this hyperinflation of journal prices). His price information is from what Harvard University pays. I think he makes a good case that what has been going on with institutional subscription prices in recent years is really something extraordinary.

The OA Interviews: Michael Eisen, co-founder of the Public Library of Science . The full recent interview with Richard Poynder is 19 pages long but worth browsing for a good look at the opinions of this biologist and open access advocate.

eBooks added Feb. 2012

Freely available:
A Data-Based Assessment of Research-Doctorate Programs in the United States National Academies Press, 2011. Full Excel data sheet is available for download at www.nap.edu/rdp/

From ScienceDirect:
Current Topics in Developmental Biology, v.98: Transcriptional Switches During Development
Advances in Applied Microbiology, v.78
Methods in Cell Biology, v.108: Lipids
Progress in Molecular Biology and Translational Science, v.106: Protein Phosphorylation in Health and Disease
Methods in Enzymology, v.506: Imaging and Spectroscopic Analysis of Living Cells: Imaging Live Cells in Health and Disease
Progress in Brain Research, v.196: Optogenetics: Tools for Controlling and Monitoring Neuronal Activity
Advances in Food and Nutrition Research, v.65: Marine Medicinal Foods; Implications and Applications - Animals and Microbes
Methods in Enzymology, v.507: Gene Transfer Vectors for Clinical Application
Current Topics in Developmental Biology, v.99: MicroRNAs in Development
International Review of Cell and Molecular Biology, v.294
Advances in Insect Physiology, v.42: Small RNAs: Their Diversity, Roles and Practical Uses

Added to CRCNetBase since Oct. 20:
Amino Acid Chelation in Human and Animal Nutrition Ashmead, H. DeWayne
Anticancer Agents from Natural Products, Second Edition Cragg, Gordon M.
Astrocytes: Wiring the Brain Scemes, Eliana Frontiers in Neuroscience
Bioactive Compounds from Natural Sources, Second Edition: Natural Products as Lead Compounds in Drug Discovery Tringali, Corrado
Biologically Inspired Robotics Liu, Yunhui
Biology of Gobies Patzner, Robert
Bone Histology: An Anthropological Perspective Crowder, Christian
Boron Science: New Technologies and Applications Hosmane, Narayan S.
Carbohydrate-Modifying Biocatalysts Grunwald, Peter
Carbon Nanotubes: From Bench Chemistry to Promising Biomedical Applications Pastorin, Giorgia
Concussive Brain Trauma: Neurobehavioral Impairment & Maladaptation, Second Edition Parker, Rolland S.
Diet, Brain, Behavior: Practical Implications Kanarek, Robin B.
Disposable Bioprocessing Systems Niazi, Sarfaraz K.
Ecological Consequences of Climate Change: Mechanisms, Conservation, and Management Beever, Erik A.
Ecology of Marine Bivalves: An Ecosystem Approach, Second Edition Dame, Richard F. Marine Science
Environmental Contaminants in Biota: Interpreting Tissue Concentrations, Second Edition Beyer, W. Nelson
Environmental Restoration and Design for Recreation and Ecotourism France, Robert L. Integrative Studies in Water Management and Land Development
Fermentation Microbiology and Biotechnology, Third Edition El-Mansi, E. M. T.
Forensic Toxicology: Medico-Legal Case Studies Rao, Kalipatnapu N.
Genetics, Genomics and Breeding of Cucurbits Wang, Yi-Hong
Genetics, Genomics and Breeding of Oilseed Brassicas Edwards, Dave Genetics, Genomics and Breeding of Crop Plants
Handbook of Meat and Meat Processing, Second Edition Hui, Y. H.
Handbook of Molecular and Cellular Methods in Biology and Medicine, Third Edition Cseke, Leland J.
Handbook of Soil Sciences: Properties and Processes, Second Edition Huang, Pan Ming Handbook of Soil Science
Handbook of Soil Sciences: Resource Management and Environmental Impacts, Second Edition Huang, Pan Ming Handbook of Soil Science
Hyperspectral Remote Sensing of Vegetation Thenkabail, Prasad S.
Informatics in Medical Imaging Kagadis, George C. Imaging in Medical Diagnosis and Therapy
Linearly Polarized IR Spectroscopy: Theory and Applications for Structural Analysis Kolev, Tsonko
Manual of Forensic Odontology, Fourth Edition Herschaft, Edward E.
Minipig in Biomedical Research McAnulty, Peter A.
Multi-Criteria Decision Analysis: Environmental Applications and Case Studies Linkov, Igor Environmental Assessment and Management
Nanoimaging Goins, Beth A. Pan Stanford Series on Biomedical Nanotechnology
OMICS: Biomedical Perspectives and Applications Barh, Debmalya
Phyllanthus Species: Scientific Evaluation and Medicinal Applications Kuttan, Ramadasan Traditional Herbal Medicines for Modern Times
Quality Control Training Manual: Comprehensive Training Guide for API, Finished Pharmaceutical and Biotechnologies Laboratories Haider, Syed Imtiaz
Quantitative MRI in Cancer Yankeelov, Thomas E. Imaging in Medical Diagnosis and Therapy
Randomized Clinical Trials of Nonpharmacological Treatments Boutron, Isabelle Chapman & Hall/CRC Biostatistics Series
Red Blood Cell Aggregation Baskurt, Oguz
Remote Sensing of Protected Lands Wang, Yeqiao Remote Sensing Applications Series
Safety Performance in a Lean Environment: A Guide to Building Safety into a Process English, Paul F. Occupational Safety & Health Guide Series
Sex Determination in Fish Pandian, T. J.
Statistics of Medical Imaging Lei, Tianhu Chapman & Hall/CRC Interdisciplinary Statistics
Stem Cell Labeling for Delivery and Tracking Using Noninvasive Imaging Kraitchman, Dara L. Series in Medical Physics and Biomedical Engineering
Stem Cells and Revascularization Therapies Kong, Hyunjoon Biotechnology and Bioprocessing
Technology and Medical Sciences Natal Jorge, R.M.
Therapy with Cultured Cells Green, Howard
Top 100 Exotic Food Plants Small, Ernest
Wireless Body Area Networks: Technology, Implementation, and Applications Yuce, Mehmet R.
World Soil Resources and Food Security Lal, Rattan Advances in Soil Science

New Ebooks from Springer:
NOTE: Supplementary materials released with the print books (CD-ROMs, for example) are made available to the purchasers of the ebooks at http://extras.springer.com.
Because I get these lists from compilations at Springer, there are always newer books available (which I will post next month). If you are looking for a book from Springer or a Springer-related publisher, it never hurts to search at http://www.springerlink.com/books.
Adult and Embryonic Stem Cells Kursad Turksen . Stem Cell Biology and Regenerative Medicine
Appetite Control Hans-Georg Joost . Handbook of Experimental Pharmacology 209
Atlas of Genetic Diagnosis and Counseling, 2nd ed Harold Chen .
Biocommunication of Plants Günther Witzany, František Baluška . Signaling and Communication in Plants 14
Chocolate and Health Ario Conti, Rodolfo Paoletti, Andrea Poli, Francesco Visioli .
Data Mining for Biomarker Discovery Panos M. Pardalos, Petros Xanthopoulos, Michalis Zervakis . Springer Optimization and Its Applications 65
Difference Gel Electrophoresis (DIGE): Methods and Protocols Rainer Cramer, Reiner Westermeier . Methods in Molecular Biology 854
Edible Medicinal And Non Medicinal Plants, v.3: Fruits T. K. Lim .
Edible Medicinal And Non-Medicinal Plants, v.2: Fruits T. K. Lim .
Effects of Noise on Aquatic Life Arthur N. Popper, Anthony Hawkins . Advances in Experimental Medicine and Biology 730
Epigenetic Regulation of Lymphocyte Development Cornelis Murre . Current Topics in Microbiology and Immunology 356
Evolution of the Use of Mathematics in Cancer Research Pedro J. Gutiérrez Diez, Irma H. Russo, Jose Russo .
Gene Synthesis: Methods and Protocols Jean Peccoud . Methods in Molecular Biology 852
Homology Modeling: Methods and Protocols Andrew J. W. Orry, Ruben Abagyan . Methods in Molecular Biology 857
Host-Fungus Interactions: Methods and Protocols Alexandra C. Brand, Donna M. MacCallum . Methods in Molecular Biology 845
Immunosenescence Andreas Thiel . Birkhäuser Advances in Infectious Diseases
JIMD Reports - Case and Research Reports, 2012/2 Society for the Study of Inborn Errors o . JIMD Reports 5
Leucocytes: Methods and Protocols Robert B. Ashman . Methods in Molecular Biology 844
Long Acting Injections and Implants Jeremy C. Wright, Diane J. Burgess . Advances in Delivery Science and Technology
MicroRNAs in Plant Development and Stress Responses Ramanjulu Sunkar . Signaling and Communication in Plants 15
Modeling Dynamic Economic Systems Matthias Ruth, Bruce Hannon . Modeling Dynamic Systems
Mucins: Methods and Protocols Michael A. McGuckin, David J. Thornton . Methods in Molecular Biology 842
NanoCellBiology of Secretion: Imaging Its Cellular and Molecular Underpinnings Bhanu P. Jena . SpringerBriefs in Biological Imaging
Nerve-Driven Immunity: Neurotransmitters and Neuropeptides in the Immune System Mia Levite .
Novel Developments in Stem Cell Mobilization: Focus on CXCR4 Stefan Fruehauf, W. Jens Zeller, Gary Calandra .
Oxygen Transport to Tissue XXXIII Martin Wolf, Hans Ulrich Bucher, Markus Rudin, Sabine Van Huffel, Ursula Wolf, Duane F. Bruley, David K Harrison . Advances in Experimental Medicine and Biology 737
Pain Research: Methods and Protocols Z. David Luo . Methods in Molecular Biology 851
Pharmacology of Bombax ceiba Linn. Vartika Jain, Surendra K. Verma . SpringerBriefs in Pharmacology and Toxicology
Plant Metabolomics Nigel W. Hardy, Robert D. Hall . Methods in Molecular Biology 860
Plasma for Bio-Decontamination, Medicine and Food Security Zdenko Machala, Karol Hensel, Yuri Akishev . NATO Science for Peace and Security Series A: Chemistry and Biology
Portable Chemical Sensors: Weapons Against Bioterrorism Dimitrios Nikolelis . NATO Science for Peace and Security Series A: Chemistry and Biology
Private or Socialistic Forestry? Forest Transition in Finland vs. Deforestation in the Tropics Matti Palo, Erkki Lehto . World Forests 10
Proteoglycans: Methods and Protocols Françoise Rédini . Methods in Molecular Biology 836
Receptor-like Kinases in Plants: From Development to Defense Frans Tax, Birgit Kemmerling . Signaling and Communication in Plants 13
Regulatory RNAs: Basics, Methods and Applications Bibekanand Mallick, Zhumur Ghosh .
Ribozymes: Methods and Protocols Jörg S. Hartig . Methods in Molecular Biology 848
Ricin and Shiga Toxins: Pathogenesis, Immunity, Vaccines and Therapeutics Nicholas Mantis . Current Topics in Microbiology and Immunology 357
Secretions and Exudates in Biological Systems Jorge M. Vivanco, František Baluška . Signaling and Communication in Plants 12
Single-Cell Analysis: Methods and Protocols Sara Lindström, Helene Andersson-Svahn . Methods in Molecular Biology 853
Space Weather Monitoring by Groundbased Means: PC Index Oleg Troshichev, Alexander Janzhura . Springer Praxis Books
Statistical Human Genetics: Methods and Protocols Robert C. Elston, Jaya M. Satagopan, Shuying Sun . Methods in Molecular Biology 850
Statistics Applied to Clinical Studies Ton J. Cleophas, Aeilko H. Zwinderman .
Stem Cells and Cancer Stem Cells, Volume 4: Therapeutic Applications in Disease and Injury M.A. Hayat . Stem Cells and Cancer Stem Cells 4
Stem Cells and Cancer Stem Cells, Volume 5: Therapeutic Applications in Disease and Injury M.A. Hayat . Stem Cells and Cancer Stem Cells 5
Stem Cells and Human Diseases Rakesh Srivastava, Sharmila Shankar .
Studies on Retinal and Choroidal Disorders Robert D. Stratton, William W. Hauswirth, Thomas W. Gardner . Oxidative Stress in Applied Basic Research and Clinical Practice
Synaptic Plasticity: Dynamics, Development and Disease Michael R. Kreutz, Carlo Sala . Advances in Experimental Medicine and Biology 970
Transgenic Plants: Methods and Protocols Jim M. Dunwell, Andy C. Wetten . Methods in Molecular Biology 847
Ubiquitin Family Modifiers and the Proteasome: Reviews and Protocols R. Jürgen Dohmen, Martin Scheffner . Methods in Molecular Biology 832
Viral Molecular Machines Michael G. Rossmann, Venigalla B. Rao . Advances in Experimental Medicine and Biology 726

eJournals added, Feb. 2012

Evolutionary Applications

Full text, v.1, 2008 ; open access; Wiley Open. [Officially open access, v.5, 2012+ but earlier articles all seem to be OA now also.]

F1000 Posters: Open Repository for Posters and Slides

Full text, June 2010+; open access.

Frontiers in Genetics

Full text, v.1, 2010+; open access; PubMed Central.

Journal of Mathematical Neuroscience

Full text, v.1, 2011+; open access; Springer/PubMed Central.

Neural Systems & Circuits

Full text, v.1, 2011+; open access; Biomed Central/PubMed Central.

Organic and Medicinal Chemistry Letters

Full text, v.1, 2011+; open access; Springer/PubMed Central.

Publications from WUSTL biology dept., Feb. 2012

• Aryal UK, Stöckel J, Welsh EA, Gritsenko MA, Nicora CD, Koppenaal DW, Smith RD, Pakrasi HB, Jacobs JM. 2012. Dynamic proteome analysis of Cyanothece sp. ATCC 51142 under constant light conditions. J Proteome Res 11(2):609-19. PubMed citation & fulltext for subscribers, freely available 12 months after publication.
• Chodok P, Cove DJ, Quatrano RS, Kanjana-Opas A, Kaewsuwan S. 2012. Metabolic Engineering and Oil Supplementation of Physcomitrella patens for Activation of C22 Polyunsaturated Fatty Acid Production. JAOCS, Journal of the American Oil Chemists' Society 89(3):465-476. Abstract & fulltext for subscribers.
• Desantis MC, Zareh SK, Li X, Blankenship RE, Wang YM. 2012. Single-image axial localization precision analysis for individual fluorophores. Opt Express 20(3):3057-65. Abstract & freely available fulltext.
• Flowers JM, Molina J, Rubinstein S, Huang P, Schaal BA, Purugganan MD. 2012. Natural Selection in Gene-Dense Regions Shapes the Genomic Pattern of Polymorphism in Wild and Domesticated Rice. Mol Biol Evol 29(2):675-687 PubMed citation & fulltext for subscribers.
• Martínez-Andújar C, Ordiz MI, Huang Z, Nonogaki M, Beachy RN, Nonogaki H. 2011. Induction of 9-cis-epoxycarotenoid dioxygenase in Arabidopsis thaliana seeds enhances seed dormancy. Proc Natl Acad Sci U S A 108(41):17225-9. PubMed abstract & fulltext for subscribers, freely available 6 months after publication.
• Martínez-Macías MI, Qian W, Miki D, Pontes O, Liu Y, Tang K, Liu R, Morales-Ruiz T, Ariza RR, Roldán-Arjona T, Zhu JK. 2012. A DNA 3' phosphatase functions in active DNA demethylation in Arabidopsis. Mol Cell 45(3):357-70. PubMed abstract & fulltext for subscribers, freely available 12 months after publication.
• Meyer JR, Dobias DT, Weitz JS, Barrick JE, Quick RT, Lenski RE. 2012. Repeatability and contingency in the evolution of a key innovation in phage lambda. Science 335(6067):428-32. PubMed abstract & fulltext for subscribers.
• Mou X, Duncan DM, Baehrecke EH, Duncan I. 2012. Control of target gene specificity during metamorphosis by the steroid response gene E93. Proc Natl Acad Sci U S A 109(8):2949-54. PubMed abstract & fulltext for subscribers, freely available 6 months after publication.
• Pope WH, Ferreira CM, Jacobs-Sera D, Benjamin RC, Davis AJ, DeJong RJ, Elgin SC, Guilfoile FR, Forsyth MH, Harris AD, Harvey SE, Hughes LE, Hynes PM, Jackson AS, Jalal MD, MacMurray EA, Manley CM, McDonough MJ, Mosier JL, Osterbann LJ, Rabinowitz HS, Rhyan CN, Russell DA, Saha MS, Shaffer CD, Simon SE, Sims EF, Tovar IG, Weisser EG, Wertz JT, Weston-Hafer KA, Williamson KE, Zhang B, Cresawn SG, Jain P, Piuri M, Jacobs WR Jr, Hendrix RW, Hatfull GF. 2011. Cluster K mycobacteriophages: insights into the evolutionary origins of mycobacteriophage TM4. PLoS One 6(10):e26750. PubMed abstract & open access fulltext.
• Schroder S, Herzog ED, Kiss IZ. 2012. Transcription-based oscillator model for light-induced splitting as antiphase circadian gene expression in the suprachiasmatic nuclei. J Biol Rhythms 27(1):79-90. PubMed abstract & fulltext for subscribers.
• Wilson M, Haswell E. 2012. A role for mechanosensitive channels in chloroplast and bacterial fission. Plant Signaling & Behavior 7(2) PubMed abstract & fulltext for subscribers, freely available 6 months after publication | Abstract at journal site[WU does not subscribe].
• Yang J, Ordiz MI, Jaworski JG, Beachy RN. 2011. Induced accumulation of cuticular waxes enhances drought tolerance in Arabidopsis by changes in development of stomata. Plant Physiol Biochem 49(12):1448-55. PubMed abstract & fulltext for subscribers.
• You L, Page L, Feng X, Berla B, Pakrasi HB, Tang YJ. 2012. Metabolic Pathway Confirmation and Discovery Through 13C-labeling of Proteinogenic Amino Acids. J Vis Exp (59):pii: 3583. PubMed abstract & fulltext AND video for subscribers.
• Zhang H, Wen J, Huang RY-C, Blankenship RE, Gross ML. 2011. Mass spectrometry-based carboxyl footprinting of proteins: Method evaluation. International Journal of Mass Spectrometry 312:78-86 Abstraact & fulltext for subscribers.

Elsevier Boycott, public access legislation and anti-public access legislation

The Cost of Knowledge, boycott Elsevier, petition has more than 7,000 signatures so far, including our own Joan Strassmann. This site was started by the math community in response to Tim Gowers's blog post Elsevier — my part in its downfall, Jan. 21, 2012. Response has been widespread and thoughtful regarding the role of publishers and how scholarly publishing might develop in the future. Undoubtedly this response to the boycott is the direct cause of Elsevier's response Feb. 27th: Elsevier Withdraws Support for the RWA. [Also I started seeing stories on Feb. 27th that RWA legislation is dead.] I find myself a bit skeptical about all this proposed legislation, such as Research Works Act RWA and Federal Research Public Access Act FRPAA. I doubt that either RWA or FRPAA will pass this year, but I do find all the discussion interesting. I can't begin to list all the discussions generated recently. Selected links:
Journal Publishing Reform site on the PolyMath wiki brings together a lot of links
Michael Eisen: You are Elsevier: time to overcome our fears and kill subscription journals
11 Research University Provosts in Inside Higher Education: Values and Scholarship
Heather Joseph from SPARC: Prime Time for Public Access
The Alliance for Taxpayer Access is currently maintaining a Comprehensive list of FRPAA & RWA in the news.
I will continue to follow these stories and would love to discuss your reactions and concerns. I welcome comments and emails on these and related subjects.

Upcoming classes from the library; citation management tools

Zotero 102 and Mendeley 102 classes are now available as well as repeated sessions for Zotero 101 and Mendeley 101. Please check http://wulibraries.doattend.com/ or go to the Resource guide: http://libguides.wustl.edu/mendeley or http://libguides.wustl.edu/zotero. We also have a new guide: How to Choose: Zotero, Mendeley, or EndNote. If your class or lab group would like a customized session on specific databases, web tools, etc., please contact Ruth Lewis or WU-LIBCite@wumail.wustl.edu. We are happy to customize classes.

Biology Undergraduate Honors Theses

Some Senior Honors Theses from 2011+ are now available online at openscholarship.wustl.edu/undergrad_honors/ for WUSTL users only. Paper copies of some Senior Honors Theses, 2000-2010, also continue to be available in the library.

Paper books added February 2012

Click on the title for more info or to request. Note: "In Process" titles may still be REQUESTED so the book will be held for you when it is available.

Bacteria : the benign, the bad, and the beautiful / by Trudy M. Wassenaar illustrations, Karoly Farkas with photographs by Eshel Ben Jacob. Hoboken, N.J. : Wiley-Blackwell, c2012.
New DVD on reserve: Biology 2970 lectures, fall 2011 [videorecording].
Biometry : the principles and practice of statistics in biological research / Robert R. Sokal and F. James Rohlf. New York : W.H. Freeman, c2012.
Dynamic genome : a Darwinian approach / Antonio Fontdevila. Oxford biology;Oxford biology. New York : Oxford University Press, 2011.
Evolution of plant-pollinator relationships / edited by Sébastien Patiny. Systematics Association special volume no. 81. Cambridge, UK New York : Cambridge University Press, 2012.
Golgi apparatus : structure, functions and mechanisms / Christopher J. Hawkins editor. Cell biology research progress. New York : Nova Science Publishers, c2011.
Human anatomy & physiology / [Frederic H.] Martini and [Edwin F.] Bartholomew. Boston : Pearson Custom Pub., c2000.
Life of super-Earths : how the hunt for alien worlds and artificial cells will revolutionize life on our planet / Dimitar Sasselov. New York : Basic Books, c2012.
Molecular machines / editor, Benoît Roux. Singapore Hackensack, NJ : World Scientific, c2011.
Optics of life : a biologist's guide to light in nature / Sönke Johnsen. Princeton, NJ : Princeton University Press, c2012.
Pragmatic evolution : applications of evolutionary theory / edited by Aldo Poiani. Cambridge New York : Cambridge University Press, 2012.
Reconfiguring the world : nature, God, and human understanding from the Middle Ages to early modern Europe / Margaret J. Osler. Baltimore : Johns Hopkins University Press, 2010.
Solid biomechanics / Roland Ennos. Princeton : Princeton University Press, c2012.
Way of natural history / edited by Thomas Lowe Fleischner. San Antonio : Trinity University Press, c2011.

Requests: I welcome your requests for book and journal purchases. You may email Ruth directly or use the web forms: Recommend a book for purchase or Recommend a journal purchase or cancellation. Thank you!