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Within the animals, there is a small lineage specific expansion in the nematode lineage.
Thus they appear to have been transferred laterally from the actinobacteria into the Methanosarcina lineage followed by a small lineage specific expansion in the latter.
A unique small lineage appeared in Seymour Canal [15], in which the central haplotype was one mutation removed from the most common haplotype.
The small lineage difference of D3StMart2 is supported by a 95-bootstrap value, but no evidence suggests that such difference implies multiple introductions or a longer transmission period.
This approach only identifies the regions conserved among diverged species and does not detect sequences conserved in just one particular small lineage.
The conserved His residue (H43 in all3650) is present in most members of the COG4636+ family, with the exception of a small lineage of closely related proteins (represented by gll1896 from G. violaceus, GI: 37520579) in which it is substituted by Gln, and a larger group of more diversified sequences, in which it is substituted by Thr or Ser.
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These clans were subdivided into numerous small lineages that controlled property and arbitrated disputes among their members.
Lineage structure may be regarded as a branching process, as when two or three founders of small lineages are represented as brothers or sisters.
In addition, there are quite a few small lineage-specific families, such as mir-1268, mir-1299, mir-3673 (human), mir-3669 (human), and mir-3683 (human) thandmay be expanded as more data become available (Table S2).
Because the discriminatory powers of individual MIRU-VNTR markers vary according to the strain lineage [12], [28], Comas et al. [28] recommended to use only small lineage-specific subsets (i.e. 3 to 9) of the most discriminatory markers, after pre-identification of the lineage based on SNPs.
Furthermore, although loci with the highest evolutionary rates can be prioritized within lineages [12], a full MIRU-VNTR locus set cannot be efficiently replaced to discriminate at the strain level by a dual strategy based on SNPs and only small, lineage-specific sets of MIRU-VNTR markers, as previously proposed [28].
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