78% coding density
MAC genome
12 Matching Annotations
- Sep 2016
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www.nature.com www.nature.com
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journals.plos.org journals.plos.org
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The P. tetraurelia MAC genome [1] was assembled from 13× Sanger sequencing reads from different insert size librairies of strain d4-2 DNA. Strain d4-2 only differs from strain 51 at a few loci.
SRA accession ERR138952
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ccb.jhu.edu ccb.jhu.eduHISAT24
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--novel-splicesite-outfile
use to collect coordinates of identified IES
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--max-intronlen
set to 1000: max IES length <1000bp
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--min-intronlen
default acceptable: 26bp is minimal IES length, 20bp is minimal intron length
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--pen-noncansplice
set to zero
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www.asmscience.org www.asmscience.org
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90,000 tiny introns (between 20 and 34 nt in length)
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MIC and MAC determination during the P. tetraurelia sexual cycle
def. maternal: recipient of gametic nucleus
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onlinelibrary.wiley.com onlinelibrary.wiley.com
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Paramecium IESs are unique sequence elements between 26 and 882 bp in length
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hypothetical pathways for scnRNA-mediated recruitment of the endonuclease in Paramecium
nucleotide modifications: possibly 6mA
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The “genome-scanning” model, as envisioned in Paramecium
subtraction of MAC RNA from MIC small RNA = targets (IES) for excision
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Nuclear dimorphism and DNA rearrangements in the ciliates Paramecium tetraurelia
tetraurelia: imprecise repeat v precise (splicing-like) IES excision
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