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(Results, Objective and backgound) - Coggle Diagram
Results
Sequencing and Assembly Overview
to obtain high-quality genome assembly
long read
post-assembly polishing steps
gap closure strategies
finishing using
super assembly
supporting Illumina data
post finishing will be used to characterize unassembled DNA
Unassembled DNA Regions in PacBio-Only
Assemblies
indent gap from complete genome of PacBio
GC content
all gap are similarly
gap length
longer than Illumina read length
read coverage
lower than recommend coverage (>100x)
ability to form strong secondary structures
randomly distributed gap -> rejected
corresponding annotations
active transposon
interfere circulation process
multi rRNA operon
phage integration
mageplasmid
Transposon-related proteins
1 kb flanking -> self blast
blast to several region -> > 95% similarlity > repetitive DNA sequences contribute gap assembly
Unassembled DNA Regions in
Illumina-Only Assemblies
rRNA operons correspond to many of breakpoints within short-read assemblies
Insights into Assembly and Polishing Improvement Approaches
using the latest versions of assembly algorithms had significant impacts on overall assembly statistics
Objective and backgound
characterized regions of unassembled