Background
Methods
Isolation and DNA extraction of C. perfringens CBA7123
Library preparation and genome sequencing
Genome assembly and annotation
Comparative genomic analysis
Quality assurance
Results and discussion
General features
Property | Term |
---|---|
Finishing quality | Complete |
Libraries used | SMRTbell library |
Sequencing platforms | PacBio_20K |
Assemblers | PacBio SMRT analysis 2.3.0 |
Pre-filtered reads | 150,292 |
Post-filtered reads | 77,985 |
Average genome coverage | 282.57X |
Genome size (bp) | 3,135,010 |
DNA G+C content | 28.5 |
Total ORFs | 2798 |
rRNA operons | 10 |
tRNA genes | 94 |
Code | Value | % age | Description |
---|---|---|---|
J | 163 | 6.65 | Translation, ribosomal structure and biogenesis |
K | 149 | 6.08 | Transcription |
L | 147 | 6.00 | Replication, recombination and repair |
D | 27 | 1.10 | Cell cycle control, cell division, chromosome partitioning |
O | 71 | 2.90 | Posttranslational modification, protein turnover, chaperones |
M | 139 | 5.67 | Cell wall/membrane/envelope biogenesis |
N | 4 | 0.16 | Cell motility |
P | 125 | 2.10 | Inorganic ion transport and metabolism |
T | 96 | 3.92 | Signal transduction mechanisms |
C | 137 | 5.59 | Energy production and conversion |
G | 205 | 8.37 | Carbohydrate transport and metabolism |
E | 168 | 6.86 | Amino acid transport and metabolism |
F | 77 | 3.14 | Nucleotide transport and metabolism |
H | 83 | 3.39 | Coenzyme transport and metabolism |
I | 54 | 2.20 | Lipid transport and metabolism |
Q | 18 | 0.73 | Secondary metabolites biosynthesis, transport and catabolism |
R | 0 | 0.00 | General function prediction only |
S | 787 | 32.12 | Function unknown |
Total | 2450 | 100.00 |
Comparative genomic analysis of strain CBA7123 with other C. perfringens strains
Pathogenesis, virulence factors, and antimicrobial resistance genes
Matched protein function | Matched organisms | Protein ID |
---|---|---|
Acetyltransferase GNAT family |
Clostridium perfringens ATCC 13124 | ABG84563 |
Conserved hypothetical protein |
Clostridium perfringens str. 13 | BAB81124 |
Creatininase |
Clostridium perfringens ATCC 13124 | ABS84729 |
DedA family protein |
Clostridium perfringens ATCC 13124 | ABG84228 |
FemAB family protein |
Clostridium perfringens SM101 | ABG87847 |
Iron-sulfur cluster-binding protein |
Clostridium perfringens SM101 | ABG85421 |
Oxidoreductase, FAD-binding |
Clostridium perfringens SM101 | ABG85949 |
PTS system, mannose/fructose/sorbose family, IIC component |
Clostridium perfringens ATCC 13124 | ABG82202 |
Putative csfB protein |
Clostridium perfringens SM101 | ABG87739 |
Putative membrane protein |
Clostridium perfringens ATCC 13124 | ABG83481 |
Transcriptional regulator, PadR family |
Clostridium perfringens ATCC 13124 | ABG82435 |
Transcriptional regulator, PadR family |
Clostridium perfringens SM101 | ABG85373 |
TrkA domain protein |
Clostridium perfringens ATCC 13124 | ABG84483 |