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This first national assessment of baseline levels of PBDD/Fs in U.S. biosolids leveraged archived samples from the 2001 U.S. EPA NSSS and involved the analysis of mega composite samples.
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The fire resistance of key component, including the concrete core, mega columns, the composite floor, outrigger trusses and belt trusses were examined first.
The phylogenetic tree based on the alignment of predicted amino acids was generated using the Maximum Composite Likelihood from MEGA 4 (Tamura et al. 2007).
Neighbour joining trees were constructed in MEGA 4 using the maximum composite likelihood method, with all positions containing gaps and missing data eliminated from the dataset.
All of the inter- and intra- specific ITS variations were calculated in MEGA v.4.0 using the Maximum Composite Likelihood model [ 61].
The distance was estimated in MEGA 4 with a maximum composite likelihood method [ 86] based on a model by Tamura & Nei [ 87].
Phylogenetic reconstructions using complete N gene sequences of the 157 isolates from Peru and 83 from GenBank were generated by using the neighbor-joining (NJ) method in MEGA 4.0 (21 ), assuming the maximum composite likelihood nucleotide substitution model.
The tuf gene sequences were aligned and a neighbor-joining tree was constructed using MEGA 4.1 with the maximum composite likelihood model assuming rate uniformity and pattern homogeneity [ 9].
Nucleotide distance was calculated in MEGA 4.0 [28] using the maximum composite likelihood model.
To identify possible contamination between specimens the population sequences were used to reconstruct neighbor-joining phylogenetic trees with the MEGA 4.0 software using the maximum composite likelihood model with gamma distributed rates across sites (α = 0.5) [23].
All nucleotide sequence divergence analyses were conducted using the Maximum Composite Likelihood method in MEGA 4.0.2.
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