Table 2 Reference, probiotic and faecal LAB isolates examined or isolated during the study
Isolate name (partial 16S rRNA gene sequence Accession no.) | Species or 16S rRNA gene closest BLAST match (Accession no. of closest match) | Source or product from which isolate was cultivated | RAPD strain type |
|---|---|---|---|
Reference isolates | |||
LMG 11428 | L. acidophilus | Rat faeces | 1 |
LMG 11430 | L. acidophilus | Human | 1 |
LMG 11467 | L. acidophilus | Human | 1 |
LMG 11469 | L. acidophilus | Rat intestine | 1 |
LMG 8151 | L. acidophilus | Acidophilus milk | 1 |
LMG 9433T | L. acidophilus | Human | 1 |
LMG 6906T | L. brevis | Human faeces | 9 |
LMG 6904T | L. casei | Cheese | 10 |
LMG 6901T | L. delbruecki subsp. bulgaricus | Yogurt | 13 |
LMG 9203T | L. gasseri | Human | 14 |
LMG 9436T | L. johnsonii | Human blood | 15 |
LMG 6907T | L. plantarum | Pickled cabbage | 19 |
LMG 7955 (EF442275) | L. paracasei subsp. paracasei | - | 16 |
ATCC 29212 (EF442298) | Enterococcus faecalis | Human urine | 26 |
Probiotic and commercial isolates | |||
NCIMB 30156 (CulT2; EF442276) | L. acidophilus (NCFM; CP000033) | Cultech Ltd. | 1 |
C21 (EF442277) | L. acidophilus (NCFM; CP000033) | Commerciala | 1 |
C46 (EF442278) | L. acidophilus (NCFM; CP000033) | Commerciala | 1 |
HBAP T1 (EF442279) | L. acidophilus NCFM (CP000033) | Commercial probioticb | 1 |
C80 (EF442280) | L. suntoryeus strain LH5 (AY675251) | Commerciala | 3 |
MO (EF442281) | L. suntoryeus strain LH5 (AY675251) | Commercial probioticb | 3 |
BF T1 (EF442282) | L. casei subsp. casei ATCC 393 (AY196978) | Commercial probioticb | 10 |
C48 (EF442283) | L. paracasei subsp. paracasei DJ1 (DQ462440) | Cultech Ltd. | 11 |
C65 (EF442284) | L. paracasei subsp. paracasei DJ1 (DQ462440) | Commerciala | 12 |
C79 (EF442285) | L. paracasei subsp. paracasei DJ1 (DQ462440) | Commerciala | 18 |
C83 (EF442286) | L. paracasei subsp. paracasei DJ1 (DQ462440) | Commerciala | 17 |
P7 T1 (EF442287) | L. paracasei subsp. paracasei DJ1 (DQ462440) | Commerciala | 21 |
GG | L. rhamnosus LR2 (AY675254) | Commercial probioticb | 27 |
FMD T2 (EF442288) | L. rhamnosus LR2 (AY675254) | Commercial probioticb | 20 |
MW (EF442289) | L. rhamnosus LR2 (AY675254) | Commercial probioticb | 20 |
C44 (EF442290) | L. gasseri TSK V1-1 (AY190611) | Cultech Ltd. | 2 |
C71 (EF442291) | L. gasseri TSK V1-1 (AY190611) | Cultech Ltd. | 7 |
SSMB (EF442292) | L. gasseri TSK V1-1 (AY190611) | Commercial probioticb | 22 |
C66 (EF442293) | L. jensenii KC36b (AF243159) | Cultech Ltd. | 5 |
C72 (EF442294) | L. jensenii KC36b (AF243159) | Cultech Ltd. | 4 |
NCIMB 30211 (CulT1; EF442295) | L. salivaruis subsp. salivarius UCC118 (CP000233) | Commerciala | 25 |
HBRA T1 (EF442296) | L. plantarum strain WCFS1 (AY935261) | Commercial probioticb | 23 |
HBRA T3 (EF442297) | Pediococcus pentosaceus ATCC 25745 (CP000422) | Commercial probioticb | 24 |
C22 (EF442299) | Enterococcus faecalis NT-10 (EF183510) | Cultech Ltd. | 8 |
Faecal isolates from human probiotic feeding study | |||
A+16-4a (EF442300) | L. gasseri TSK V1-1 (AY190611) | This study | 28 |
A+28-3a (EF442301) | L. rhamnosus LR2 (AY675254) | This study | 29 |
A+28-3b (EF442302) | L. rhamnosus LR2 (AY675254) | This study | 29 |
B-14-1a (EF442303) | Streptococcus salivarius ATCC 7073 (AY188352) | This study | 31 |
B-14-2a (EF442304) | L. mucosae BJ18-2 (AY341550) | This study | 32 |
B-14-4a (EF442305) | Streptococcus salivarius ATCC 7073 (AY188352) | This study | 33 |
B-14-4b (EF442306) | Streptococcus salivarius ATCC 7073 (AY188352) | This study | 34 |
B0-3a (EF442307) | Streptococcus salivarius ATCC 13419 (M58839) | This study | 30 |
C-14-4b (EF442308) | Enterococcus faecalis ABPL 007 (DQ983196) | This study | 35 |
C+28-3a (EF442309) | L. salivaruis subsp. salivarius UCC118 (CP000233) | This study | 36 |
F-14-3a (EF442310) | Enterococcus gallinarum F02025 (DQ465366) | This study | 38 |
G-14-1a (EF44211) | Staphylococcus lugdunensis ATCC 43809 (AB009941) | This study | 40 |
G0-2a (EF44212) | Enterococcus sanguinicola BAA-781 | This study | 39 |
P-14-2a (EF44213) | Enterococcus gallinarum F02025 (DQ465366) | This study | 43 |
P0-1a (EF44214) | L. rhamnosus LR2 (AY675254) | This study | 41 |
P0-1b (EF44215) | L. rhamnosus LR2 (AY675254) | This study | 41 |
P0-2a (EF44216) | Staphylococcus sp. CNJ924 PL04 (DQ448767) | This study | 42 |
P+28-2a (EF44217) | Staphylococcus warneri PB1 (AY186059) | This study | 44 |
Q-14-2a (EF44218) | L. paracasei subsp. paracasei DJ1 (DQ462440) | This study | 47 |
Q-14-4a (EF44219) | Streptococcus salivarius clone (AM157451) | This study | 48 |
Q0-1a (EF44220) | Enterococcus faecalis ABPL 007 (DQ983196) | This study | 45 |
Q0-4a (EF44221) | Staphylococcus sp. CNJ924 PL04 (DQ448767) | This study | 46 |
Q+28-2a (EF44222) | Streptococcus sp. clone (EF151147) | This study | 49 |
R-14-4a (EF44223) | Enterococcus faecalis ABPL 007 (DQ983196) | This study | 51 |
R-14-5a (EF44224) | Enterococcus faecalis ABPL 007 (DQ983196) | This study | 52 |
R0-1b (EF44225) | Weissella cibaria ACA-DC 3411t2 (AJ422031) | This study | 50 |
S-14-2a (EF44226) | L. fermentum strain L18 (DQ523484) | This study | 53 |
T+28-1a (EF44227) | L. rhamnosus LR2 (AY675254) | This study | 41 |
T+28-4b (EF44228) | Streptococcus agalactiae A909 (CP000114) | This study | 54 |