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Probes targeting intestinal microbiota

Probe name Specificity
Fibr225Fibrobacter
Bif1278Bifidobacterium spp.
LSPotu11021-1127Lachnospiraceae OTU_11021
Bif164Bifidobacterium spp.
Bif662Bifidobacterium spp.
Clept1240Clostridium leptum
gam1-1246“Candidatus Gilliamella apicola” or Gamma-1 (symbiotic Gammaproteobacteria phylotype in honey bee)
LM3Bifidobacterium genus
E.bar1237Eubacterium barkeri
E.bif462Eubacterium biforme
E.con1122Eubacterium contortum
E.cyl461Eubacterium cylindroides
E.cyl466Eubacterium cylindroides
E.dol183Eubacterium dolichum
E.had579Eubacterium hadrum (Anaerostipes hadrus)
E.len194Eubacterium lentum
E.lim1433Eubacterium limosum E. callanderi
E.mon84Eubacterium moniliforme
E.ven66Eubacterium ventriosum
Acac194Anaerostipes caccae
Rint1102Roseburia intestinalis, human gut isolates L1-952, L1-93, L1-8151, L1-810, and L1-82
Ehal578Eubacterium hallii, E. hallii L2-7
Fpra655Faecalibacterium prausnitzii A2-165 and L2-6
Rint623Roseburia cecicola, Roseburia intestinalis, human gut isolates L1-81, L1-83, L1-8151, L1-82, L1-952, L1-810, L1-93, A2-194, and A1-86, bacterium clones adhufec8, adhufec225, adhufec150, and adhufec75.25 rumen clones 4C28d-8, 4C3d-14, and 3C3d-8
Emul183Eubacterium multiforme
Esab1467Eubacterium saburreum
Eram997Eubacterium ramulus
Erec207Eubacterium rectale sp. strain A1-86
beta-572Candidatus Snodgrassella alvi or Beta (symbiotic Neisseriaceae phylotype in honey bee)
COR653Coriobacterium group (Coriobacterium and Collinsella)
ATO291Atopobium cluster
Erec482most of the Clostridium coccoides-Eubacterium rectale group (Clostridium cluster XIVa and XIVb)
Hyo1210Brachyspira hyodysenteriae
Pilosi209Serpulina pilosicoli (Brachyspira pilosicoli)
Pilosi1405Serpulina pilosicoli (Brachyspira pilosicoli)
Sym_Stau_303Bacteroidales clone Candidatus Vestibaculum illigatum
Bif228Bifidobacteria
Alsym16SBurkholderia (Alydidae gut symbionts)
MCP52Mollicutes
CPla-1„Termite planctomycete cluster 1“
CPla-2„Termite planctomycete cluster 2“
CPla-3„Termite planctomycete cluster 2“
fir5-575Firm-5 (symbiotic Firmicutes phylotype in honey bee)
Faecali698Faecalibacterium and relatives
Clep866members of the Clostridium leptum subgroup
Rcal733members of the Ruminococcus callidus species
Cvir1414Clostridium viride cluster
Edes635Eubacterium desmolans species
Bfrag 998Bacteroides fragilis
Bvulg 1017Bacteroides vulgatus
Fprau0645Feacalibacterium (Fusobacterium) prausnitzii and relatives
Mcs487Mucispirillum spp.
Mcs547Mucispirillum spp.
MUC-1437Akkermansia muciniphila
Bacid1B. acidifaciens Group 1
Bacid2B. acidifaciens Group 2
Bacid3B. acidifaciens Group 3
BotB. ovatus and B. thetaiotaomicron
BovaBacteroides ovatus
BtheBacteroides thethaiotaomicron
BuniBacteroides uniformis
BcacBacteroides caccae
Bovat 1028Bacteroides ovatus
Bdist 1025Bacteroides distasonis (Parabacteroides distasonis)
Bputre 698Bacteroides putredinis (Alistipes putredinis)
EfsEnterococcus faecalis FAIR E 92
LPLANGLactobacillus plantarum 423
LSALLactobacillus salvirius 241
LbaLactobacillus acidophilus (cluster A1)
LbgLactobacillus gasseri (cluster B1)
LbjLactobacillus johnsonii (cluster B2)
LSPotu9468-999Lachnospiraceae OTU_9468
LSPotu9468-1259Lachnospiraceae OTU_9468
Bacto1080Bacteroides, Prevotella, and Porphyromonas
Enter1432enteric group (Enterobacteriales)
Lacto722Lactobacillus group
Ceut705Coprococcus eutactus
Chis150most of the Clostridium histolyticum group (Clostridium cluster I and II)
LSPotu11021-1448Lachnospiraceae OTU_11021
Law1Lawsonia intracellularis
Lab158Lactobacilli Enterococci
Rrec584Roseburia
Prop853Clostridial cluster IX
Bx183Brachyspira aalborgi clusters 2 and 3
Aalborgi183Brachyspira aalborgi cluster 1
Erec834Eubacterium rectale
Erec838Eubacterium rectale
Etor727Eubacterium tortuosum
Etor129Eubacterium tortuosum
LbdLactobacillus delbrueckii subsp.
EC 1531Escherichia coli BJ4
Laci66Lactobacillus acidophilus
Lfer66 Lactobacillus fermentum
Lpla67Lactobacillus plantarum
Lrum67Lactobacillus ruminis
Lreu92Lactobacillus reuteri
Lbre90Lactobacillus brevis
LcarhLactobacillus casei/rhamnosus
LpcarLactobacillus casei/paracasei/rhamnosus
LdelLactobacillus delbrueckii
LparLactobacillus paracasei
LsakLactobacillus sakei
Eubac576Eubacterium sp. Trains L1-83 and A2-194
Copr60Coprococcus sp. Strain L2-50
SER1410Brachyspira
LasA3720_1281subgroup A of unclassified Lachnospiraceae OTU
LasB3720_1281subgroup B of unclassified Lachnospiraceae OTU
Bac16065_472unclassified Bacteroidales cluster S24-7 OTU
Bac3732_846unclassified Bacteroidales cluster S24-7 OTU
Bac11839_649unclassified Bacteroidales cluster S24-7 OTU
Bac15326_476unclassified Bacteroidales cluster S24-7 OTU
Bac13481_437unclassified Bacteroidales cluster S24-7 OTU
All3256_484subgroup of genus Allobaculum
Baci731A_87Bacteroides acidifaciens Group-2
Baci731B_87Bacteroides acidifaciens Group-1
Rum14644A_184unclassified Oscillibacter OTU
Rum14644B_64unclassified Oscillibacter OTU
Rum17903_443unclassified Ruminococcaceae OTU
LasA5944_580subgroup A of unclassified Lachnospiraceae OTU
LasB5944_580subgroup B of unclassified Lachnospiraceae OTU
Lab9057_570Lactobacillus taiwanensis - L. johnsonii - L. gasseri group
Lab2185_87Lactobacillus reuteri
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    • Primer
    • Probes used for FISH