Journal: bioRxiv

Article Title: Coping with multiple enemies: pairwise interactions do not predict evolutionary change in complex multitrophic communities

doi: 10.1101/492132

Figure Lengend Snippet: Abundance (log-transformed, mean ± std. dev., n = 7) of the focal species B. subtilis (orange circles), competitor bacterium S. marcescens (red circles), predator P. caudatum (green circles) and B. subtilis-specific parasite phage SPP1 (purple circles) in each treatment over the duration of the experiment (Days 1-10).

Article Snippet: Our experiment consisted of seven sets of species combinations of Bacillus subtilis (NCIB3610) with (1) SPP1 phage parasite in isolation; (2) Paramecium caudatum , a generalist [ ; ; ] bacterial predator in isolation; (3) Serratia marcescens (ATCC 29632), a competitor of B. subtilis , in isolation; (4) P. caudatum and SPP1 phage; (5) S. marcescens and SPP1 phage; (6) S. marcescens and P. caudatum; and (7) S. marcescens, P. caudatum and SPP1 phage, resulting in a total of 7 experimental treatments, each replicated seven times.

Techniques: Transformation Assay

Journal: bioRxiv

Article Title: Coping with multiple enemies: pairwise interactions do not predict evolutionary change in complex multitrophic communities

doi: 10.1101/492132

Figure Lengend Snippet: The effect of community composition on B. subtilis evolution relative to the ancestral strain (solid line). a . Competitive ability of B. subtilis isolates, measured as the ratio of B. subtilis to S. marcescens (dashed line indicates a 1:1 ratio, solid line represents ancestral resistance). b . Relative resistance to parasite in B. subtilis across treatment groups. Resistance to phage SPP1 was measured as the difference in growth (optical density) of B. subtilis in the presence or absence of the ancestral phage parasite. The solid line represents the resistance of ancestral B. subtilis and the resistance of our experimental treatment isolates relative to ancestral parasite resistance. c . Growth of B. subtilis isolates in the presence of the predator P. caudatum (measured as log 10 optical density of biofilm production). Solid line indicates resistance of the ancestral B. subtilis grown in the presence of P. caudatum ). In all cases, values to the right of the solid lines indicate higher relative resistance than the ancestral strain, values to the left of the solid line indicate lower resistance relative to ancestral strain of B. subtilis .

Article Snippet: Our experiment consisted of seven sets of species combinations of Bacillus subtilis (NCIB3610) with (1) SPP1 phage parasite in isolation; (2) Paramecium caudatum , a generalist [ ; ; ] bacterial predator in isolation; (3) Serratia marcescens (ATCC 29632), a competitor of B. subtilis , in isolation; (4) P. caudatum and SPP1 phage; (5) S. marcescens and SPP1 phage; (6) S. marcescens and P. caudatum; and (7) S. marcescens, P. caudatum and SPP1 phage, resulting in a total of 7 experimental treatments, each replicated seven times.

Techniques:

Journal: PLoS ONE

Article Title: Dual color fluorescence in situ hybridization (FISH) assays for detecting Mycobacterium tuberculosis and Mycobacterium avium complexes and related pathogens in cultures

doi: 10.1371/journal.pone.0174989

Figure Lengend Snippet: Results of the MN Genus-MTBC and MTBC-MAC FISH assays with reference Mycobacterium and Nocardia cultures.

Article Snippet: The reference MTBC, two Bacillus subtilis (ATCC 23059 and 6633) and the five Corynebacterium clinical isolate cultures were grown in the Microbiology Laboratory, University of California San Francisco, San Francisco, CA.

Techniques:

Journal: PLoS ONE

Article Title: Dual color fluorescence in situ hybridization (FISH) assays for detecting Mycobacterium tuberculosis and Mycobacterium avium complexes and related pathogens in cultures

doi: 10.1371/journal.pone.0174989

Figure Lengend Snippet: Results of the MN Genus-MTBC and MTBC-MAC FISH assays on reference cultures of pathogens not belonging to the Mycobacterium or Nocardia genera.

Article Snippet: The reference MTBC, two Bacillus subtilis (ATCC 23059 and 6633) and the five Corynebacterium clinical isolate cultures were grown in the Microbiology Laboratory, University of California San Francisco, San Francisco, CA.

Techniques:

Journal: PLoS ONE

Article Title: Dual color fluorescence in situ hybridization (FISH) assays for detecting Mycobacterium tuberculosis and Mycobacterium avium complexes and related pathogens in cultures

doi: 10.1371/journal.pone.0174989

Figure Lengend Snippet: A, B–Dual fluorescence reactivity in the same microscopic field with the MN Genus- and MTBC-specific probes respectively in the MN Genus-MTBC FISH assay; C, D—Dual fluorescence reactivity with the MTBC- and MAC-specific probes respectively in the MTBC-MAC FISH assay. Mycobacteria used in the FISH tests were: LJ culture of M . tuberculosis (ATCC 25177); LJ culture of M . avium (ATCC 25291); MGIT culture of M . kansasii (ATCC 12478); and an artificially mixed LJ culture of M . tuberculosis (ATCC 25177) and M . avium (ATCC 25291). Photographs were taken at x1000 magnification. Scale bars shown in the photographs represent approximately 50 μm .

Article Snippet: The reference MTBC, two Bacillus subtilis (ATCC 23059 and 6633) and the five Corynebacterium clinical isolate cultures were grown in the Microbiology Laboratory, University of California San Francisco, San Francisco, CA.

Techniques: Fluorescence