b Relative abundance of detected phasiRNAs generated from a single locus (PH-12) between O. barthii and O. glaberrima.
Four different sequences of each class IIα and β MHCII were obtained from a single fish, apparently not derived from a single locus.
For the differentially expressed loci, this unequal distribution over the locus was conserved between the two species, with over-accumulation of all the detected phasiRNAs from a single locus (Fig. 1b).
In order to avoid conflicts with proteins deduced from alternatively spliced forms of the transcripts from a single locus, the protein ID must reflect the corresponding transcript from which it is deduced, except for the letter 't't
Indeed, while most non-conserved miRNAs derive from a single locus, conserved miRNAs commonly are produced from multiple MIR loci [20], [21].
Assembled clusters were verified as originating from a single locus by examining the clustered output for congruency within the directionality of forward and reverse EST reads.
Consequently, ancient evolutionary conserved miRNAs are represented by multiple MIR genes whereas non-conserved miRNAs (believed to be evolutionary recent) are generally originated from a single locus.
Organisms where we identified zero or a single putative eIF4G-encoding locus may contain additional highly divergent loci missed by our analysis or may encode multiple isoforms from a single locus, as is the case in C. elegans [22].
More dramatically, when the known value of θ was 0.001, point estimates calculated from 1 kb of sequence from a single locus were anywhere from 1.71 (min/0.001×100) to 291.3% (max/0.001×100) of the actual value (Table 1).
