VH gene analysis of murine gastric MALT lymphoma cases
| Case . | VH segment . | Homology % . | Clones sequenced . | Somatic* mutation . | FR/CDR . | R . | S . | Antigen selection† . | P‡ . | Intraclonal variation . | CDR3 length . |
|---|---|---|---|---|---|---|---|---|---|---|---|
| mu-1 | IGHV1-S130*01 | 93.06 | 11 | + | FR | 42 | 1 | − | .490 | + | 11 |
| CDR | 29 | 0 | + | .000 | |||||||
| mu-2 | IGHV14-3*02 | 92.36 | 10 | + | FR | 13 | 3 | − | .391 | + | 15 |
| CDR | 6 | 0 | + | .059 | |||||||
| mu-3 | IGHV1-S81*02 | 97.92 | 13 | + | FR | 4 | 2 | + | .562 | − | 13 |
| CDR | 2 | 0 | − | .801 | |||||||
| mu-4 | IGHV14-3*02 | 99.31 | 10 | − | FR | 1 | 1 | + | .000 | + | 13 |
| CDR | 0 | 0 | − | .621 | |||||||
| mu-5 | IGHV1-69*02 | 86.46 | 8 | + | FR | 24 | 6 | − | .491 | − | 10 |
| CDR | 5 | 4 | − | .601 | |||||||
| mu-6 | IGHV1-67*1 | 80.90 | 10 | + | FR | 8 | 5 | + | .03 | − | 12 |
| CDR | 5 | 2 | − | .110 | |||||||
| mu-7 | IGHV1-S22*01 | 94.62 | 22 | + | FR | 7 | 2 | − | .112 | − | 15 |
| CDR | 2 | 0 | − | .009 | |||||||
| mu-8 | IGHV14-3*02 | 98.61 | 9 | − | FR | 2 | 1 | + | .329 | + | 11 |
| CDR | 1 | 0 | − | 1.278 | |||||||
| mu-9 | IGHV1-18*02 | 88.19 | 8 | + | FR | 18 | 10 | + | .107 | + | 12 |
| CDR | 5 | 1 | + | .369 | |||||||
| mu-10 | IGHV1-S81*02 | 95.83 | 10 | + | FR | 4 | 1 | − | .23 | + | 14 |
| CDR | 3 | 3 | − | .156 | |||||||
| mu-11 | IGHV1-74*01 | 86.81 | 10 | + | FR | 17 | 9 | + | .12 | − | 12 |
| CDR | 10 | 2 | + | .034 |
| Case . | VH segment . | Homology % . | Clones sequenced . | Somatic* mutation . | FR/CDR . | R . | S . | Antigen selection† . | P‡ . | Intraclonal variation . | CDR3 length . |
|---|---|---|---|---|---|---|---|---|---|---|---|
| mu-1 | IGHV1-S130*01 | 93.06 | 11 | + | FR | 42 | 1 | − | .490 | + | 11 |
| CDR | 29 | 0 | + | .000 | |||||||
| mu-2 | IGHV14-3*02 | 92.36 | 10 | + | FR | 13 | 3 | − | .391 | + | 15 |
| CDR | 6 | 0 | + | .059 | |||||||
| mu-3 | IGHV1-S81*02 | 97.92 | 13 | + | FR | 4 | 2 | + | .562 | − | 13 |
| CDR | 2 | 0 | − | .801 | |||||||
| mu-4 | IGHV14-3*02 | 99.31 | 10 | − | FR | 1 | 1 | + | .000 | + | 13 |
| CDR | 0 | 0 | − | .621 | |||||||
| mu-5 | IGHV1-69*02 | 86.46 | 8 | + | FR | 24 | 6 | − | .491 | − | 10 |
| CDR | 5 | 4 | − | .601 | |||||||
| mu-6 | IGHV1-67*1 | 80.90 | 10 | + | FR | 8 | 5 | + | .03 | − | 12 |
| CDR | 5 | 2 | − | .110 | |||||||
| mu-7 | IGHV1-S22*01 | 94.62 | 22 | + | FR | 7 | 2 | − | .112 | − | 15 |
| CDR | 2 | 0 | − | .009 | |||||||
| mu-8 | IGHV14-3*02 | 98.61 | 9 | − | FR | 2 | 1 | + | .329 | + | 11 |
| CDR | 1 | 0 | − | 1.278 | |||||||
| mu-9 | IGHV1-18*02 | 88.19 | 8 | + | FR | 18 | 10 | + | .107 | + | 12 |
| CDR | 5 | 1 | + | .369 | |||||||
| mu-10 | IGHV1-S81*02 | 95.83 | 10 | + | FR | 4 | 1 | − | .23 | + | 14 |
| CDR | 3 | 3 | − | .156 | |||||||
| mu-11 | IGHV1-74*01 | 86.81 | 10 | + | FR | 17 | 9 | + | .12 | − | 12 |
| CDR | 10 | 2 | + | .034 |
MALT indicates mucosa-associated lymphoid tissue; FR, framework region; CDR, complementary determining region; R, replacement; S, silent; and mu, murine.
VH gene sequences deviating more than 2% from the corresponding germline gene were defined as somatically mutated.
Presence or absence of positive selection by antigen in the CDR is denoted by + and −, respectively. Presence or absence of negative selection by antigen in the FR is denoted by + and −, respectively, based on the cutoff ratio of 2.9 for replacement to silent mutations.
The P value was calculated based on the multinomial distribution model and is the probability that excess (for CDR) or scarcity (for FR) of mutations occurred by chance.