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The strains were grouped on the basis of three characteristics of their PCR products, i.e. the presence of one or two PCR products, their size (s), and the AluI restriction digest patterns of the PCR products.
In the presence of DNA, the digest patterns of both forms of the protein are altered, with a novel 23 kDa species appearing.
The cloned inserts were further confirmed by Southern blot analyses using the original BAC clones as probes; the results indicated that the digest patterns of the BGM recombinants were identical to those of the original BAC clones, except for the fragments derived from the ends of the insert.
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This structure was in good agreement with both RNase I and V1 digest patterns, with the exception of strong RNase I cleavage observed at the H2 helix, and V1 cleavage in some predicted ssRNA regions (L3 and part of L4).
Sequencing of representative clones verified the restriction digest patterns.
Seven plasmid clones with the expected insert size and restriction enzyme digest patterns were end-sequenced with M13 and Sp6 primers to identify orientation of the inserts.
Results obtained using the simulation show that, while a previously proposed model of endo-PG action captures some of the salient features of this enzymes behaviour, it is not sufficient to successfully predict experimental digest patterns from pectic substrates.
A copper-sensitive strain BZ31-1-7Ba BZ31-1-7Ba BZ31-1-7Bayme digest pattern consistent withadhe presence of a single CUP1 gene (Fogel and Welch 1982), and industrestrictionstrains wenzymeservedigest had tandem CUpatternats of about 1.5 and 1.7 kb (Welconsistent1983).
Six clones with a correct restriction digest pattern were sequenced as well as all incorrect constructs.
The integrity of the modified BAC clone was verified by comparing the digest pattern of the recombinant BAC with that of the original clone (data not shown).
A distinct pattern was obtained that was identical to the original digest pattern of HpaII, suggesting that the amplified product was indeed the result of uniform amplification of the original DNA templates (fig. 2e).
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