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Ed Hall edited Materials_and_Methods.tex
almost 9 years ago
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into the sample. Samples were then frozen and analyzed for organic C
content with a Shimadzu 500 TOC analyzer \citep{Wetzel_2000}. Biomass of all
biofilm samples were measured by difference in pre-(without biofilm) and
post-(with biofilm) weighed GF/F filters after oven drying overnight at
$60\,^{\circ}{\rm C}$. 60$\,^{\circ}$C.
For Chl \textit{a} analysis we collected plankton on GF/F filters (Whatman,
Sigma Aldrich Cat. \# Z242489) by filtering between 500 mL and 1L from the
water column of each mesocosm for each treatment. For biofilm samples, all
biofilm was gently removed from the complete area of each coverslip (3
coverslips for each treatment per sampling event) before being placed in a test
tube for extraction with 90-95\% acetone for
~ 32 $\sim$32 hours at
$-20\,^{\circ}{\rm C}$ -20$\,^{\circ}$C and analyzed immediately
after using a Turner 10-AU fluorometer \citep{Wetzel_2000}.
Bacterial abundance of the planktonic samples was analyzed using Dapi staining
and direct visualization on a Zeis Axio epifluorescence microscope after the
...
Roche B linker and the reverse gene specific primer sequence. The gene specific
primer pair for bacterial SSU rRNA genes was 27F/519R \citep{LANED.J.:1991}.
The primer pair p23SrV\_f1/p23SrV\_r1 was used to target 23S rRNA genes on
plastid genomes \citep{Sherwood_2007}. Amplifications were performed in 25
ul $\mu$l
reactions with Qiagen HotStar Taq master mix (Qiagen Inc, Valencia,
California), 1ul of each 5uM primer, and
1ul 1$\mu$l of template. Reactions were
performed on ABI Veriti thermocyclers (Applied Biosytems, Carlsbad, California)
under the following thermal profile: 95$^{\circ}$C for 5 min, then 35 cycles of
94$^{\circ}$C for 30 sec, 54$^{\circ}$C for 40 sec, 72$^{\circ}$C for 1 min,