Background
Methods
Sample collection
Bacterial strains
Biomass and viability of strains
DNA extraction
Amplification of scrA gene
Name | Sequence | Product length |
---|---|---|
1F | 5′-CTTGATAGCGGCGATATCTG-3′ | |
1R | 5′-TTAAGAGACCGCCTGCTACC-3′ | 616 |
2F | 5′-ATTGCTGCCAGTGGTAAAAAG-3′ | |
2R | 5′-CTGCTGAGGGCAATCTCTTATG-3′ | 522 |
3F | 5′-AATATTTTTGGGTTGCATGTTAC-3′ | |
3R | 5′-GCACTAGCTGAGCCAATCAGA-3′ | 589 |
4F | 5′-GCAGCAACCTTTGCAATTTAC-3′ | |
4R | 5′-TCAACCGGTGCATAAACTGT-3′ | 574 |
5F | 5′-ATGAAGTTCTTGCGGCTCCT-3′ | |
5R | 5′-GCCAAAAGGCTTTAATACTATTGT-3′ | 532 |
Sequencing of scrA gene
Statistical analysis
Results
Biomass and viability of strains
PCR products
Sequencing results
Base site | UA159 | Clinical isolates | ||
---|---|---|---|---|
Codon | Amino acid | Codon | Amino acid | |
10 | AGC | serine | GGC | glycin |
65 | GCC | alanine | GTC | vlaine |
103 | GAT | asparagine | AAT | asparagine |
284 | GCC | alanine | GTC | vlaine |
289 | GGT | glycin | AGT | serine |
925 | ACA | threonine | GCA | alanine |
1444 | GTC | vlaine | ATC | isoleucine |
1487 | GTG | vlaine | GCG | alanine |
1494 | GAA | glutamic acid | GAT | asparagine |
1508 | GCT | alanine | GTT | vlaine |
1553 | GCG | alanine | GTG | vlaine |
1576 | GTT | vlaine | ATT | isoleucine |
1786 | AAA | lysine | GAA | glutamic acid |
1822 | ATT | isoleucine | GTT | vlaine |
1863 | AAA | lysine | AAG | lysine |
1886 | AAT | asparagine | AGT | serine |
1925 | GCG | alanine | GTG | vlaine |
Codon | S-ECC (n) | CF (n) |
x
2
|
P- values |
---|---|---|---|---|
10 A → Ga
| 28 | 28 | — | 1.000* |
65 C → T | 2 | 0 | — | 0.492* |
103 G → A | 1 | 0 | — | 1.000* |
284 C → T | 1 | 1 | — | 1.000* |
289 G → A | 1 | 0 | — | 1.000* |
925 A → G | 5 | 7 | 0.417 | 0.519 |
1444 G → A | 2 | 0 | — | 0.492* |
1487 T → C | 20 | 21 | 0.077 | 0.781 |
1494 A → T | 1 | 1 | — | 1.000* |
1508 C → T | 3 | 1 | — | 0.612* |
1553 C → T | 1 | 1 | — | 1.000* |
1576 G → A | 1 | 1 | — | 1.000* |
1786 A → G | 1 | 1 | — | 1.000* |
1822 A → G | 28 | 24 | — | 0.254* |
1863 A → G | 28 | 24 | — | 0.254* |
1886 A → G | 1 | 1 | — | 1.000* |
1925 C → T | 1 | 0 | — | 1.000* |