Microbiology

by Ruth Gustafson – August 13, 2020

This guide lists resources related to the microbiological sciences which are useful for locating literature across a range of topics in bacteriology and virology. To access licensed library resources from off-campus, please use the library VPN. Ruth is happy to help if you have questions or need additional assistance.

FOR UCD students, faculty, and staff:  During this COVID-19 time, feel free to book a Zoom appointment with Ruth for assistance in using these resources or for any questions you may have:

Book an APPOINTMENT with Ruth

Ruth Gustafson

Student Services
Student Services Librarian

ragustafson@ucdavis.edu

530-752-1883

In this Guide:

Searching in a library catalog requires looking for broader topics such as bacterial signalling or viral genetics rather than the more specific yersinia quorum sensing or zika genetics.

  • UC Davis Library Catalog
    Replacing Harvest on August 18, 2016, the new UC Davis Library Catalog includes the collections of all four UC Davis General Libraries. It does not include the holdings of the Law Library. If you log in (My Account) using your UCD login and Kerberos passphrase, you are prompted with your loan period, can renew books online, and request items that have been checked out to another borrower, or are in storage.

 

  • Understanding Call Numbers

    Author: Library Instruction Services, Shields Library

    Library of Congress Classification is used for all of the UCD libraries except the health sciences libraries (which use NLM — National Library of Medicine — classification). Learn about how books are arranged in the UCD libraries with this guide.

    Date: 2004

PubMed comprises more than 30 million citations for biomedical literature from MEDLINE, life science journals, and online books.

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VPN
Embase provides essential biomedical evidence from evidence-based content, along with deep biomedical indexing and search forms to assist in building search strategies.
Coverage: 1974-current (for EMBASE records); 1966-current (for MEDLINE records)
Tags: Allied Health, Medicine, Nursing, Pharmacology, Pharmacy, Public Health
BIOSIS Previews is a database designed by biologists for researching the biological sciences literature.
Scholarly journals, books, and proceedings in the sciences, social sciences, and arts and humanities. Navigate the full citation network.

Bergey’s Manual of Systematics of Archaea and Bacteria (BMSAB) is a reference work aimed at undergraduates, graduate students, researchers, professors and experienced professionals at all levels. Bergey’s is the most complete and authoritative description of bacterial and archaeal diversity and includes over 1,750 articles – equivalent to over 8 volumes in print. About a hundred new genera and 600+ new species have been described per year for each of the last 5 years. To remain abreast of this explosion in knowledge of the microbial world, an electronic manual with frequent updates is necessary. The BMSAB is an essential tool for anyone at the forefront of research in microbiology.

This 2015 edition provides descriptions of the taxonomy, systematics, ecology, physiology and other biological properties of all described prokaryotic taxa.

ONLINE LICENSE Renewed. The Prokaryotes 3rd edition is an multimedia publication that is published incrementally in 16 releases over 4 years. Release 3.0 is identical in content to print The Prokaryotes: Second Edition published in 4 volumes in 1992. Subsequent releases typically have 12 to 15 chapters that replace 2nd-edition chapters or expand the content with new material. Approximately 25% of the content will be fully updated each year over a four-year period until the work is completely revised. Thereafter, material will be continuously added to reflect developments in prokaryotic microbiology on topics such as characterization and identification, ecophysiology and biochemistry, organism monographs, symbiotic associations, genomics, and biotechnology.

Coverage: 1992-present
Tags: Bacteria, Biology, Microbes, Microbiology, Systematics

Springer eBooks includes more than 60,000 titles in English (and selectively in German) from every scientific discipline and many social sciences. Coverage: 2005-2019. This online interface enables all books to be searchable at the full-text level. Scope (textbook areas are starred) ranges from Architecture and Design, *Behavioral Science, *Biomedical and Life Sciences, *Business and Economics, *Chemistry and Materials Science, *Computer Science, *Earth and Environmental Science, *Engineering, *Humanities & Social Sciences and Law, *Mathematics and Statistics, *Medicine, *Physics and Astronomy, to Professional and Applied Computing. NEW books are added monthly.

 

Coverage: 2005-2019
Tags: Multidisciplinary
Thousands of e-books with broad and favorable rights for scientific, scholarly and educational uses. Subjects include life, health and physical sciences, social sciences, and the humanities. EXCLUSIONS to the Elsevier collection are textbooks, major reference works, some professional and trade titles, and consumer books. NOTE: Green symbol on right indicates if accessible.
Coverage: 2013 - current

Full-text searchable database collection for Wiley eBooks and journals in the sciences, technology, medicine and social sciences. PLEASE NOTE: This collection does *not* include ALL books published by Wiley but selected titles. In particular, the publisher has chosen *not* to include textbooks in this package. Access for eBooks begins primarily with 2011. Those items available are marked with an unlocked lock icon.NEW books are added monthly.

Locate the most highly-cited journals in broad disciplines in the sciences and social sciences and view detailed information on each journal.
Coverage: 1997-2018 release; 1996-2017 data
Tags: Multidisciplinary, Science
Related links: Using JCR Wisely
48,000 ebooks, computer manuals, videos, interactive tutorials, case studies, learning paths and audio books from O’Reilly.

Covers over 20,000 updated, peer-reviewed protocols. UC CDL/UCD Library subscribes to THIRTEEN major laboratory methods and protocols series including the classic comprehensive work “Current Protocols in Molecular Biology” with other titles being CP in: Bioinformatics; Cell Biology; Cytometry; Human Genetics; Immunology; Microbiology; Mouse Biology; Neuroscience; Nucleic Acid Chemistry; Protein Science; Pharmacology; and Toxicology. Includes basic, alternate, and support protocols with literature cited and information on suppliers for standard materials and preparation information for reagents and solutions. IMPORTANT NOTE: UC Davis does *NOT* license the following FIVE protocol titles: “Chemical Biology”, “Essential Laboratory Techniques”, “Magnetic Resonance Imaging”, “Plant Biology” (new as of May 2016 with very little content) and “Stem Cell Biology”.

 

Monographs, technical manuals, handbooks, review volumes, conference proceedings, scholarly journals and videotapes. These examine topics in molecular biology, genetics, development, virology, neurobiology, immunology and cancer biology.
Coverage: 2006-present
Tags: Biology, Biomedicine, Laboratory Practices, Medicine, Science
Related links: Search Help
JoVE publishes novel and gold standard research methodologies in both the physical and life sciences. The format is video to help understand how research methodologies are performed.
Coverage: Access currently to JoVE General section, Science Education, and all journal subsections; 2006- (General); 2013- (Subsections)
Tags: Bioengineering, Bioinformatics, Biology, Biomedicine, Chemistry, Developmental Biology, Engineering, Environmental Science, Immunology, Life Science, Medicine, Neuroscience, Protocols, Psychology

Methods in Enzymology is the classic laboratory methods/protocols book series. The complete backfile of the full-text is available back to volume 1 from 1955. As of 2017, videos are selectively being added to accompany the written methods. Direct article/chapter links are provided from core subject databases such as PubMed and BIOSIS Previews. Contains detailed protocols and descriptions of biochemical and biophysical techniques for research in biological and molecular sciences. More than 500 volumes are browse-able by individual volumes online from 1955 to the present or by searching across the collection by title, author, abstract, and keyword. Full-text access to articles is available in HTML and PDF formats.

Coverage: -1955
Tags: Biology, Life Science

Open Access to full-text protocols in three categories of “in vivo”, “in vitro” and “in silico” and a general category of other.

Anyone can add their own protocols or review those under development.

Over 200 protocols available.

A rapidly growing collection of peer-reviewed, life science protocols organized by 11 different fields of study and 10 different organisms. Protocols are organized chronologically with a detailed guide on how to reproduce a given experiment. Each protocol also contains an interactive and moderated Q & A section to facilitate open communication between protocol authors and the research community.

Coverage: 2011-

“Morphbank :: Biological Imaging is a continuously growing database of images that scientists use for international collaboration, research and education. Images deposited in Morphbank :: Biological Imaging document a wide variety of research including: specimen-based research in comparative anatomy, morphological phylogenetics, taxonomy and related fields focused on increasing our knowledge about biodiversity. The project receives its main funding from the Biological Databases and Informatics program of the National Science Foundation (Grant DBI-0446224). “

This open-access biomedical image search engine in is Beta test but has good retrievals for most major biomedical topics. Open-i helps “users retrieve not only the MEDLINE citation information, but also the outcome statements in the article and the most relevant figure from it. Further, it is possible to use the figure as a query component to find other relevant images or other visually similar images.”