James W. Brown - Principles of Microbial Diversity

17 Chapter 16Figure 16.1 A phylogenetic tree of representative eukaryotes. (Adapted from Cicc...Figure 16.2 Unrooted phylogenetic tree of the eukaryotes (branch lengths shown a...Figure 16.3 Photograph of the yellow slime mold Physarum polycephalum on the bar...Figure 16.4 A small (ca. 1-m) great barracuda in Mudjin Harbor, Middle Caicos Is...Figure 16.5 Nomarski interference micrograph of the baker’s yeast Saccharomyces ...Figure 16.6 Photograph of common turtle grass in the shallow waters off Bermuda....Figure 16.7 Photograph of Irish moss, Chondrus crispus, not to be confused with ...Figure 16.8 Phase-contrast micrograph of Navicula sp. (Source: Texas Tech Univer...Figure 16.9 Phase-contrast micrograph of Phytophthora infestans. The lemon-shape...Figure 16.10 Phase-contrast micrograph of a Vorticella sp., the bell-shaped orga...Figure 16.11 Aerial photograph of Florida red tide. (Source: P. Schmidt, Charlot...Figure 16.12 Ernst Haeckel’s classic drawings of foraminiferan tests. (This is o...Figure 16.13 Dark-field micrograph of Globigerina bulloides, a living relative o...Figure 16.14 Ernst Haeckel’s classic drawings of radiolarian tests. (Again, this...Figure 16.15 Micrograph (left) and cross-sectional diagram (right) of Hexacontiu...Figure 16.16 Micrograph of Euglypha strigosa. (Courtesy of Eugen Lehle, Wikimedi...Figure 16.17 Phase-contrast micrograph of Reclinomonas americana. (Image supplie...Figure 16.18 Trypanosoma brucei in the blood of a sleeping sickness patient. (So...Figure 16.19 The life cycle of trypanosomes. (Adapted from the Centers for Disea...Figure 16.20 Giardia lamblia (a.k.a. G. intestinalis) from stool. (Courtesy of J...Figure 16.21 Streblomastix strix scanning electron micrograph (1) and cross sect...

18 Chapter 17Figure 17.1 Escherichia coli being infected by bacteriophage lambda. (Courtesy o...Figure 17.2 Transfer of F plasmid from donor to recipient. doi:10.1128/978155581...Figure 17.3 Transfer of bacteriophage M13 from donor to recipient. doi:10.1128/9...Figure 17.4 Electron micrograph of bacteriophage Mu. (Reprinted from Inman RB, S...Figure 17.5 Very schematic view of the life cycle of bacteriophage/transposon Mu...Figure 17.6 The rice yellow mottle virus-associated viroid: not its genome, the ...Figure 17.7 Tobacco ringspot virus satellite RNA-S replication. doi:10.1128/9781...Figure 17.8 Electron micrograph of mimivirus. (Courtesy of Didier Raoult.) doi:1...Figure 17.9 Mimivirus (MV)-infected amoeba. Note the “virus factory” (VF), from ...Figure 17.10 Sheep with an “itchy” form of scrapie. (Courtesy of the University ...Figure 17.11 Light micrograph of a stained thin section of brain from a cow with...Figure 17.12 Ribbon diagrams of PrPc (normal, left) and PrPSc (diseased, right)....

19 Chapter 18Figure 18.1 Octopus Spring, Yellowstone National Park. doi:10.1128/9781555818517...Figure 18.2 Pink filaments in the outflow of Octopus Spring. doi:10.1128/9781555...Figure 18.3 Isolation of a single cell by using optical tweezers. doi:10.1128/97...

20 Chapter 19Figure 19.1 A clump of Riftia near a deep-sea hydrothermal vent. (From Dworkin M...Figure 19.2 Google Earth view of the Indian Ocean. The site of the hydrothermal ...Figure 19.3 Crysomallon squamiferum, the deep-sea hydrothermal vent scaly snail....Figure 19.4 The chimera decorating an Apulia dish at the Louvre (Source: Wikimed...Figure 19.5 The generation of chimeras by the priming of PCR products from abort...Figure 19.6 An old-growth tree community. (Courtesy of Piotr Skubisz/Fotolia.) d...Figure 19.7 Locations of the primers and amplified regions of the SSU rRNA. The ...Figure 19.8 Graphical description of Unifrac. (Reprinted from Lozupone C, Knight...Figure 19.9 Graphical descriptions of how principal-component analysis (PCoA) an...

21 Chapter 20Figure 20.1 Nanoarchaeum equitans stained with a specific Texas Red-labeled FISH...Figure 20.2 Typical wastewater treatment process. doi:10.1128/9781555818517.ch20...

22 Chapter 21Figure 21.1 Diagrammatic representation of the DGGE process. Note that this diag...Figure 21.2 Geyser at the Daggyai Tso geothermal region of Tibet. (Courtesy of M...Figure 21.3 How t-RFLP works. The restriction map of an example SSU rRNA gene is...Figure 21.4 Deconvolution of sequence identities from multiple restriction diges...Figure 21.5 Real-time PCR. The top panel shows the result of a real-time PCR exp...

23 Chapter 22Figure 22.1 NCBI Genome Browser view of the SAR86 cosmid EBAC31A08 sequence. Eac...Figure 22.2 Overview of the SIP process. (Second panel reprinted from Gallagher ...Figure 22.3 A Beckman TLA 100.2 rotor, capable of carrying as many as 10 4-ml sa...Figure 22.4 Images of the unicellular eukaryotes identified in this paper. [Sour...

24 Chapter 23Figure 23.1 Assembling contigs into complete genomes. Primers (black) directed o...Figure 23.2 Placement of Thermotoga maritima in rRNA-based trees, relative to wh...Figure 23.3 Genomics versus metagenomics. (DNA panels: Bruce Chassey Laboratory,...

25 Chapter 24Figure 24.1 Geological time scale. (Source: Geological Society of America.) doi:...Figure 24.2 The three-domain tree, the last common ancestor, and how these might...Figure 24.3 Biochemical evolution may have been very rapid early in evolutionary...Figure 24.4 The Miller-Urey apparatus. Mixtures of potential primordial Earth at...Figure 24.5 The primordial sandwich hypothesis, progressing from left to right. ...

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