Table 1.
Spoilage features, 16S rRNA and rpoB gene nucleotide sequence-based characterization, of isolates from various pasteurized milk samples.
| Isolates 1 | Spoilage Features 2 | Analyses of Gene Sequences | |||||||
|---|---|---|---|---|---|---|---|---|---|
|
| |||||||||
| 16S rRNA | rpoB | ||||||||
| PR | LP | PL | Species | Acc. number in GenBank | % ID 3 | Species | Acc. number in GenBank | % ID 3 | |
| P3Nd3 | − | − | − | Microbacterium lacticum | NR_026160.1 | 99 | ND | ||
| Microbacterium schleiferi | NR_044936.1 | 98 | |||||||
| Microbacterium flavum | NR_041562.1 | ||||||||
|
| |||||||||
| P3Na7 | + | − | + | Bacillus weihenstephanensis | NR_024697.1 | 99 | Bacillus weihenstephanensis | CP000903.1 | 98 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P3Ca14 | + | − | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 98 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P3Cb14 | + | − | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 99 |
| B. mycoides | NR_036880.1 | 99 | |||||||
| B. thuringiensis | NR_043403.1 | 98 | |||||||
| B. anthracis | NR_041248.1 | 99 | |||||||
|
| |||||||||
| P3Na14 | + | − | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 98 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P3Nb14 | + | − | + | B. weihenstephanensis | NR_024697.1 | 99 | B.weihenstephanensis | CP000903.1 | 99 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P3Nc14 | + | − | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 98 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P3Nd14 | + | − | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 99 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P6Na14 | + | + | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 98 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P6Nb14 | + | + | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 99 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P6Nc14 | + | + | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 99 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P6Nd14 | + | + | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 98 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P6Ne14 | + | + | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 99 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P6Nf14 | + | + | + | B. weihenstephanensis | NR_024697.1 | 99 | ND | ||
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P6Ng14 | + | + | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 99 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| P6Nh14 | + | + | + | B. weihenstephanensis | NR_024697.1 | 100 | ND | ||
| B. mycoides | NR_036880.1 | 99 | |||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| L2PNa | + | + | − | B. sonorensis | NR_025130.1 | 98 | ND | ||
| B. aerius | NR_042338.1 | ||||||||
|
| |||||||||
| L2PNb | + | + | + | B. weihenstephanensis | NR_024697.1 | 99 | B. cereus | EF607283.1 | 99 |
| B. mycoides | NR_036880.1 | B. thuringiensis | CP001903.1 | 100 | |||||
| B. thuringiensis | NR_043403.1 | B. cereus | FJ188319.1 | 99 | |||||
| B. anthracis | NR_041248.1 | B. cereus | AE016877.1 | 100 | |||||
|
| |||||||||
| L2PNa6 | + | + | − | B. sonorensis | NR_025130.1 | 98 | B. licheniformis | CP000002.3 | 96 |
| B. subtilis ssp. subtilis | NR_027552.1 | B. licheniformis | AE017333.1 | 96 | |||||
|
| |||||||||
| L2PNa9 | + | + | − | B. aerophilus | NR_042339.1 | 99 | ND | ||
| B. pumilus | NR_043242.1 | ||||||||
|
| |||||||||
| L2PNa13 | ɛ | + | − | B. sonorensis | NR_025130.1 | 98 | ND | ||
| B. subtilis ssp. subtilis | NR_027552.1 | 97 | |||||||
|
| |||||||||
| L2PNa17 | + | + | + | B. weihenstephanensis | NR_024697.1 | 99 | B. weihenstephanensis | CP000903.1 | 99 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
|
| |||||||||
| L2PCa21 | − | + | − | Paenibacillus odorifer | NR_028887.1 | 99 | Paenibacillus odorifer | AY493862.1 | 99 |
|
| |||||||||
| L2PNa27 | + | + | + | B. weihenstephanensis | NR_0246971 | 99 | B. weihenstephanensis | CP000903.1 | 99 |
| B. mycoides | NR_036880.1 | ||||||||
| B. thuringiensis | NR_043403.1 | ||||||||
| B. anthracis | NR_041248.1 | ||||||||
1
P3, P6 and L2P correspond to the investigated pasteurised milk samples; C = control, N = N2 flushing; a, b = order of selection of the isolates; 0 to 27 = days of cold storage;
2
+ = positive, − = negative, ɛ = weak enzyme production;
3
only values equal or above 98% (with exception of L2PNa6).