figure s1 a · 2017. 3. 30. · fba m10-2 pal 23263 lce 22408 sps ed99 dlo agr2136 rsp cag-197 smo...
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Figure S1A
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Vpa ATCC17745Vsp 6 1 27Vat ACS-134-V-Col7aVsp F0422Msp E135-EEra 29099Eyu 43715Lba NK4A179Rla 29176Fba M10-2Pal 23263Lce 22408Sps ED99Dlo AGR2136Rsp CAG-197Smo F0204Gbe 700627Gha M341Ain RyC-MR95Asp D21Cla DSM 14151Pan DSM14505Gsa NBRC15551Tde 33521Tde 35405Tpu 758Ssp CAG-314Fal 35896Pdu BAA-1640Lin 11V1-dFnu 36A2Fus 3 1 36A2Fus 1 1 41FAAPan CAG-621Fma SY403409CC001050417Fma 29328Hsu 17243Csp CAG-230Eve ATCC27560Bpe CAG-437Ere 33656Bfi 16 4Bsp AC2005Nam LURECFho 36813Efa TX0012Efa TX0012 2Cma M35 04 3Mga str. FMca UFG4Mca PG14Mcy C142Sga 43143 1Sga UCN34 1Sma 198 1Spa 43144 1Ssu D9Ssu ST3 2Ssu YB51San C1051 4Sin B196 1Ssp I-G2 3Sth 18311 1Sgo CH1 2Sth MN-ZLW-002 1Sth ND03 1Sth DGCC7710 1Sth LMD-9 2Ssa JIM8777 3Sth CNRZ1066 1Sth 8232 1Spa F0449Lfa 3681Csp ZWU0011Vsp SK1Mov SC01Mar HAZ145 1Edo 3991Msy 53Mmo 163KOul 7084Cgl PW2Esp YY7918Gpa 7-10-1-bBca F6-1037Bth 20171Cmi 15897Kvi 20405Sag 2603V R 1Sag NEM316 1Sga 43143 2Sga BAA-2069 2Sag GD201008-001 1Sin CJ18 1Sag 09mas018884Sag ILRI005Sga BAA-2069 1Sga UCN34 2Sag A909 1Slu 033 2Smu NN2025 2Sth LMD-9 5Slu 033 1Smu LJ23 2Smu GS-5 1Smu UA159 1Sth MN-ZLW-002 3Sth ND03 3Sth DGCC7710 2Ssa SK49Sag SA20-06 1Spy A20 1Spy MGAS10270 1Spy GAS 1Spy MGAS6180 2Spy MGAS5005 1Spy NZ131 1Spy MGAS15252 1Spy MGAS1882 1Sdy 12394 2Sdy AC-2713 2Sdy 124 2Sdy RE378 2Seq MGCS10565 4Efa D32 1Efa OG1RF 1Eph BAA-412Emu DNAEit DSM15952Wci FBL5Efa 1141733Ehi ATCC9790Lan KCTC3501Sps LQ940-04Lmo J2-031Lmo N1-011ALmo 10403S 3Lmo EGDLmo SLCC2482 3Lmo SLCC5850 3Lmo R2-502Lmo J0161 4Lmo SLCC2540 3Lga JV-V03Ljo DPC6026Lho CRBIP24.179Lsa UCC118Pac D3Plo Q0510QLpl ZJ316Lpe KCA1Lrh GGLpa 8700Lca Lc10Lfe ATCC14931Wha FBL4Bbi S17Ffr KCTC3544Oki DSM 17330Lge KCTC3527Lje 27-2-CHNLcu CRL705Lco KCTC3167Lsa TMW1.1304Lru ATCC25644Lbr ATCC27305Lbu B-30929
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Figure S2
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Sag 09mas018884Sag A909 1Sag 2603V/R 1Sag GD201008-001 1Sag ILRI005Sag SA20-06 1Sag NEM316 1Seq MGCS10565 4Sth MN-ZLW-002 3Sth ND03 3Sth LMD-9 2Sth LMG18311 1Smu GS-5 1Smu NN2025 2Smu LJ23 2Smu UA159 1Slu 033 1Slu 033 2Sin CJ18 1Sga ATCCBAA-2069 1Sga ATCCBAA-2069 2Sga UCN34 2Sga ATCC43143 2Ssa SK49Wci FBL5Sdy ATCC12394 2Sdy GGS124 2Sdy AC-2713 2Sdy RE378 2Spy MGAS15252 1Spy MGAS1882 1Spy NZ131 1Spy MGAS10270 1Spy MGAS6180 2Spy A20 1Spy M1GAS 1Spy MGAS5005 1Sps LQ940-04Eit DSM15952Ehi ATCC9790Emu QU25 DNAEfa 1141733Eph ATCCBAA-412Efa D32 1Efa OG1RF 1Lmo J2-031Lmo 10403S 3Lmo SLCC5850 3Lmo EGDLmo J0161 4Lmo SLCC2482 3Lmo R2-502Lmo N1-011ALmo SLCC2540 3Lan KCTC3501Cmi DSM15897Kvi DSM20405Bca FSLF6-1037Bth DSM20171Fma ATCC29328Fma SY403409CC001050417Hsu DSM17243Lce DSM22408Smo F0204Vat ACS-134-V-Col7aVpa ATCC17745Vsp 6 1 27Vsp 780strF0422Msp UPII135-EAin RyC-MR95Asp D21Ssp CAG:314Fal ATCC35896Fnu 3 1 36A2Fus 1 1 41FAAFus 3 1 36A2Gbe ATCC700627Gha M341Tde ATCC33521Tde ATCC35405Tpu OMZ758Lin 11V1-dPdu ATCCBAA-1640Pan CAG:621Eyu ATCC43715Fba M10-2Rla ATCC29176Era ATCC29099Lba NK4A179Pal ATCC23263Dlo AGR2136Rsp CAG:197Cgl PW2Oul DSM7084Gpa 7-10-1-bEsp YY7918Bbi S17Oki DSM 17330Lge KCTC3527Ffr KCTC3544Lfa KCTC3681Lru ATCC25644Lga JV-V03Lho CRBIP24.179Ljo DPC6026Lje 27-2-CHNLsa UCC118Pac D3Plo NGRI0510QWha FBL4Lbr ATCC27305Lbu NRRLB-30929Lsa TMW1.1304Lca Lc10Lpa 8700Lrh GGLfe ATCC14931Lcu CRL705Lco KCTC3167Lpe KCA1Lpl ZJ316Sps ED99Cla DSM 14151Pan DSM14505Mca PG14Mca UFG4Mcy C142Mga str. FMsy 53Mar HAZ145 1Mov SC01Mmo 163KVsp SK1Edo DSM3991Csp ZWU0011Bpe CAG:437Ere ATCC33656Bfi 16/4Bsp AC2005Eve ATCC27560Csp CAG:230Efa TX0012Efa TX0012 2Gsa NBRC15551Nam LURECFho CCUG36813Cma M35/04/3Sga ATCC43143 1Sga UCN34 1Sma ACA-DC198 1Spa ATCC43144 1Ssu D9Ssu ST3 2Ssu YB51Spa F0449Ssp I-G2 3Sgo CH1 2San C1051 4Sin B196 1Ssa JIM8777 3Sth DGCC7710 1Sth CNRZ1066 1Sth ND03 1Sth DGCC7710 3Sth JIM8232 1Sth LMD-9 5Sth MN-ZLW-002 1
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Figure S3
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Sag 09mas018884Sag GD201008-001 1Sag 2603V/R 1Sag A909 1Sag ILRI005Sag SA20-06 1Sag NEM316 1Smu GS-5 1Smu LJ23 2Smu NN2025 2Smu UA159 1Slu 033 1Slu 033 2Sin CJ18 1Sga ATCC43143 2Sga UCN34 2Sga ATCCBAA-2069 1Sga ATCCBAA-2069 2Sps LQ940-04Seq MGCS10565 4Sdy AC-2713 2Sdy GGS124 2Sdy ATCC12394 2Sdy RE378 2Spy MGAS15252 1Spy MGAS1882 1Spy NZ131 1Spy MGAS6180 2Spy MGAS10270 1Spy M1GAS 1Spy A20 1Spy MGAS5005 1Sth LMG18311 1Sth ND03 3Sth LMD-9 2Sth MN-ZLW-002 3Eit DSM15952Efa 1141733Ehi ATCC9790Emu QU25 DNAEfa D32 1Efa OG1RF 1Eph ATCCBAA-412Lmo J2-031Lmo SLCC2540 3Lmo SLCC2482 3Lmo N1-011ALmo R2-502Lmo J0161 4Lmo SLCC5850 3Lmo 10403S 3Lmo EGDLan KCTC3501Ssa SK49Wci FBL5Cgl PW2Oul DSM7084Esp YY7918Gpa 7-10-1-bCmi DSM15897Kvi DSM20405Lfa KCTC3681Bca FSLF6-1037Bth DSM20171Lge KCTC3527Oki DSM 17330Bbi S17Ffr KCTC3544Lca Lc10Lpa 8700Lrh GGLpe KCA1Lpl ZJ316Lsa TMW1.1304Lco KCTC3167Lcu CRL705Lfe ATCC14931Lsa UCC118Lga JV-V03Lho CRBIP24.179Ljo DPC6026Lje 27-2-CHNPac D3Lbr ATCC27305Lbu NRRLB-30929Wha FBL4Sps ED99Cla DSM 14151Pan DSM14505Vpa ATCC17745Vsp 6 1 27Vat ACS-134-V-Col7aVsp 780strF0422Msp UPII135-EGbe ATCC700627Gha M341Pan CAG:621Lce DSM22408Fma ATCC29328Fma SY403409CC001050417Hsu DSM17243Fus 3 1 36A2Fnu 3 1 36A2Fus 1 1 41FAAFal ATCC35896Tde ATCC33521Tde ATCC35405Tpu OMZ758Lin 11V1-dPdu ATCCBAA-1640Ssp CAG:314Smo F0204Ain RyC-MR95Asp D21Rla ATCC29176Fba M10-2Pal ATCC23263Lba NK4A179Dlo AGR2136Rsp CAG:197Eyu ATCC43715Era ATCC29099Plo NGRI0510QMca PG14Mca UFG4Mcy C142Msy 53Mga str. FMar HAZ145 1Mov SC01Mmo 163KCsp ZWU0011Edo DSM3991Vsp SK1Efa TX0012Efa TX0012 2Lru ATCC25644Nam LURECFho CCUG36813Gsa NBRC15551Bpe CAG:437Ere ATCC33656Csp CAG:230Bfi 16/4Bsp AC2005Eve ATCC27560Cma M35/04/3Sga UCN34 1Sma ACA-DC198 1Spa ATCC43144 1Sga ATCC43143 1Ssu YB51Ssu D9Ssu ST3 2Sgo CH1 2Spa F0449Ssp I-G2 3San C1051 4Sin B196 1Ssa JIM8777 3Sth LMD-9 5Sth CNRZ1066 1Sth DGCC7710 3Sth ND03 1Sth DGCC7710 1Sth MN-ZLW-002 1Sth JIM8232 1
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Spy A20 1Spy MGAS6180 2Spy MGAS5005 1Spy NZ131 1Spy MGAS10270 1Spy MGAS15252 1Spy M1GAS 1Spy MGAS1882 1Sdy ATCC12394 2Sdy RE378 2Sdy GGS124 2Sdy AC-2713 2Ssa SK49Seq MGCS10565 4Sth MN-ZLW-002 3Sth ND03 3Sth LMD-9 2Sth LMG18311 1Sag NEM316 1Sag ILRI005Sag A909 1Sag 2603V/R 1Sag 09mas018884Sag GD201008-001 1Sag SA20-06 1Smu GS-5 1Smu UA159 1Smu NN2025 2Smu LJ23 2Sps LQ940-04Slu 033 1Slu 033 2Sin CJ18 1Sga ATCC43143 2Sga ATCCBAA-2069 1Sga ATCCBAA-2069 2Sga UCN34 2Ehi ATCC9790Eph ATCCBAA-412Lan KCTC3501Emu QU25 DNAEfa 1141733Efa D32 1Efa OG1RF 1Eit DSM15952Lmo J2-031Lmo SLCC2540 3Lmo EGDLmo SLCC5850 3Lmo 10403S 3Lmo SLCC2482 3Lmo J0161 4Lmo N1-011ALmo R2-502Wci FBL5Fus 3 1 36A2Fnu 3 1 36A2Fus 1 1 41FAABca FSLF6-1037Bth DSM20171Ssp CAG:314Vpa ATCC17745Vsp 6 1 27Vat ACS-134-V-Col7aVsp 780strF0422Pan CAG:621Pdu ATCCBAA-1640Lin 11V1-dGbe ATCC700627Gha M341Fba M10-2Msp UPII135-EFal ATCC35896Kvi DSM20405Cmi DSM15897Hsu DSM17243Fma ATCC29328Fma SY403409CC001050417Ain RyC-MR95Asp D21Lce DSM22408Smo F0204Tde ATCC33521Tde ATCC35405Tpu OMZ758Rla ATCC29176Cgl PW2Oul DSM7084Gpa 7-10-1-bEsp YY7918Lba NK4A179Pal ATCC23263Rsp CAG:197Dlo AGR2136Era ATCC29099Eyu ATCC43715Oki DSM 17330Lge KCTC3527Bbi S17Lfa KCTC3681Ffr KCTC3544Lpe KCA1Lpl ZJ316Lru ATCC25644Lfe ATCC14931Lsa UCC118Lbu NRRLB-30929Lca Lc10Lpa 8700Lrh GGLcu CRL705Lco KCTC3167Lsa TMW1.1304Lje 27-2-CHNPac D3Wha FBL4Plo NGRI0510QLbr ATCC27305Lho CRBIP24.179Lga JV-V03Ljo DPC6026Sps ED99Cla DSM 14151Pan DSM14505Eve ATCC27560Csp CAG:230Bfi 16/4Bsp AC2005Bpe CAG:437Ere ATCC33656Efa TX0012Efa TX0012 2Gsa NBRC15551Cma M35/04/3Fho CCUG36813Nam LURECSth DGCC7710 1Sth MN-ZLW-002 1Sth JIM8232 1Sth ND03 1Ssa JIM8777 3Sth DGCC7710 3Sth CNRZ1066 1Sth LMD-9 5Spa F0449Ssp I-G2 3Sgo CH1 2San C1051 4Sin B196 1Ssu ST3 2Ssu YB51Ssu D9Spa ATCC43144 1Sma ACA-DC198 1Sga ATCC43143 1Sga UCN34 1Vsp SK1Edo DSM3991Csp ZWU0011Mmo 163KMar HAZ145 1Mov SC01Msy 53Mga str. FMcy C142Mca PG14Mca UFG4
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Figure S4
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Vsp SK1Mca PG14Mca UFG4Mcy C142Msy 53Mov SC01Mar HAZ145 1Edo DSM3991Bpe CAG:437Ere ATCC33656Eve ATCC27560Csp CAG:230Bfi 16/4Bsp AC2005Efa TX0012Efa TX0012 2Fho CCUG36813Nam LURECCma M35/04/3Gsa NBRC15551Sth LMD-9 5Sth ND03 1Sth CNRZ1066 1Sth DGCC7710 1Sth JIM8232 1Sth MN-ZLW-002 1Sth DGCC7710 3Ssa JIM8777 3Ssu D9Ssu YB51Ssu ST3 2Sga ATCC43143 1Sga UCN34 1Spa ATCC43144 1Sma ACA-DC198 1San C1051 4Sin B196 1Sgo CH1 2Spa F0449Ssp I-G2 3Sag 09mas018884Sag A909 1Sag GD201008-001 1Sag NEM316 1Sag ILRI005Sag 2603V/R 1Sag SA20-06 1Sin CJ18 1Slu 033 1Slu 033 2Sga ATCC43143 2Sga UCN34 2Sga ATCCBAA-2069 1Sga ATCCBAA-2069 2Sps LQ940-04Seq MGCS10565 4Ssa SK49Sdy AC-2713 2Sdy RE378 2Sdy ATCC12394 2Sdy GGS124 2Spy MGAS6180 2Spy NZ131 1Spy MGAS10270 1Spy MGAS15252 1Spy MGAS1882 1Spy MGAS5005 1Spy A20 1Spy M1GAS 1Lan KCTC3501Smu NN2025 2Smu GS-5 1Smu LJ23 2Smu UA159 1Wci FBL5Sth LMG18311 1Sth MN-ZLW-002 3Sth LMD-9 2Sth ND03 3Eit DSM15952Ehi ATCC9790Efa D32 1Efa OG1RF 1Eph ATCCBAA-412Emu QU25 DNAEfa 1141733Lmo J2-031Lmo SLCC2482 3Lmo R2-502Lmo N1-011ALmo J0161 4Lmo 10403S 3Lmo SLCC5850 3Lmo EGDLmo SLCC2540 3Cla DSM 14151Pan DSM14505Csp ZWU0011Sps ED99Mga str. FMmo 163KBca FSLF6-1037Bth DSM20171Kvi DSM20405Cmi DSM15897Ain RyC-MR95Asp D21Cgl PW2Oul DSM7084Esp YY7918Gpa 7-10-1-bSsp CAG:314Eyu ATCC43715Fal ATCC35896Fma ATCC29328Fma SY403409CC001050417Hsu DSM17243Pdu ATCCBAA-1640Lin 11V1-dVpa ATCC17745Vsp 6 1 27Vat ACS-134-V-Col7aVsp 780strF0422Msp UPII135-ELce DSM22408Gbe ATCC700627Gha M341Lba NK4A179Era ATCC29099Dlo AGR2136Rsp CAG:197Pal ATCC23263Fba M10-2Tde ATCC33521Tde ATCC35405Tpu OMZ758Rla ATCC29176Smo F0204Pan CAG:621Fus 3 1 36A2Fnu 3 1 36A2Fus 1 1 41FAABbi S17Lge KCTC3527Oki DSM 17330Ffr KCTC3544Lfa KCTC3681Lsa TMW1.1304Lca Lc10Lpa 8700Lrh GGLpe KCA1Lpl ZJ316Lco KCTC3167Lcu CRL705Lfe ATCC14931Lsa UCC118Lho CRBIP24.179Ljo DPC6026Lga JV-V03Lje 27-2-CHNLru ATCC25644Lbu NRRLB-30929Lbr ATCC27305Wha FBL4Pac D3Plo NGRI0510Q
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Figure S5
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Strain Abbreviation Nucleotide Accession Number
Acidaminococcus intestini RyC-MR95 Ain_RyC-MR95 NC_016077
Acidaminococcus sp. D21 Asp_D21 NZ_ACGB01000044
Bifidobacterium bifidum S17 Bbi_S17 NC_014616
Brochothrix campestris FSL F6-1037 Bca_FSLF6-1037 NZ_AODH01000013
Butyrivibrio fibrisolvens 16/4 Bfi_16/4 FP929036
Bacteroides pectinophilus CAG:437 Bpe_CAG:437 FR894965
Butyrivibrio sp. AC2005 Bsp_AC2005 NZ_AUJI01000018
Brochothrix thermosphacta DSM 20171 Bth_DSM20171 NZ_JHZM01000008
Coriobacterium glomerans PW2 Cgl_PW2 NC_015389
Caryophanon latum DSM 14151 Cla_DSM_14151 NZ_MATO01000048
Catellicoccus marimammalium M35/04/3 Cma_M35/04/3 NZ_AMYT01000017
Catenibacterium mitsuokai DSM 15897 Cmi_DSM15897 NZ_ACCK01000419
Clostridium sp. CAG:230 Csp_CAG:230 FR881840
Carnobacterium sp. ZWU0011 Csp_ZWU0011 NZ_JTLM01000044
Dorea longicatena AGR2136 Dlo_AGR2136 NZ_AUJS01000026
Eubacterium dolichum DSM 3991 Edo_DSM3991 NZ_DS483477
Enterococcus faecium 1,141,733 Efa_1141733 NZ_GG688466.1
Enterococcus_faecalis_D32_1 Efa_D32_1 NC_018221
Enterococcus_faecalis_OG1RF_1 Efa_OG1RF_1 NC_017316
Enterococcus faecalis TX0012 Efa_TX0012 NZ_GL456502
Enterococcus faecalis TX0012_2 Efa_TX0012_2 NZ_GL456502
Enterococcus hirae ATCC 9790 Ehi_ATCC9790 NZ_KB946228.1
Enterococcus italicus DSM 15952 Eit_DSM15952 NZ_ALJM01000004.1
Enterococcus mundtii QU 25 DNA Emu_QU25_DNA NC_022878
Enterococcus phoeniculicola ATCC BAA-412 Eph_ATCCBAA-412 NZ_ASWE01000001
Eubacterium ramulus atcc 29099 Era_ATCC29099 NZ_KI271077
Eubacterium rectale ATCC 33656 Ere_ATCC33656 NC_012781
Eggerthella sp. YY7918 Esp_YY7918 NC_015738
Eubacterium ventriosum ATCC 27560 Eve_ATCC27560 NZ_DS264278.1
Eubacterium yurii subsp. margaretiae ATCC 43715
Eyu_ATCC43715 AEES01000067
Filifactor alocis ATCC 35896 Fal_ATCC35896 NC_016630
Firmicutes bacterium M10-2 Fba_M10-2 NZ_KE159700
Fructobacillus fructosus KCTC 3544 Ffr_KCTC3544 NZ_AEOP01000035.1
Facklamia hominis CCUG 36813 Fho_CCUG36813 AGZD01000007
Finegoldia magna ATCC 29328 Fma_ATCC29328 NC_010376
Finegoldia magna SY403409CC001050417 Fma_SY403409CC001050417
NZ_AFUI01000017
Fusobacterium nucleatum subsp. vincentii 3_1_36A2
Fnu_3_1_36A2 NC_022196
Fusobacterium sp. 1_1_41FAA Fus_1_1_41FAA NZ_GG770381.1
Fusobacterium sp. 3_1_36A2 Fus_3_1_36A2 NC_022196.1
Gemella_bergeri_ATCC_700627 Gbe_ATCC700627 NZ_KI271806
Gemella_haemolysans_M341 Gha_M341 GL883582
Table S1
-
Gordonibacter pamelaeae 7-10-1-b Gpa_7-10-1-b NC_021021
Globicatella sanguinis NBRC 15551 Gsa_NBRC15551 NZ_BCQX01000009
Helcococcus sueciensis DSM 17243 Hsu_DSM17243 NZ_AUHK01000002
Kandleria vitulina DSM 20405 Kvi_DSM20405 NZ_KL370857
Lactobacillus animalis KCTC 3501 Lan_KCTC3501 NZ_GL573157.1
Lachnospiraceae bacterium NK4A179 Lba_NK4A179 NZ_ATWC01000025
Lactobacillus brevis subsp. gravesensis ATCC 27305
Lbr_ATCC27305 NZ_GG669606.1
Lactobacillus buchneri NRRL B-30929 Lbu_NRRLB-30929 CP002652
Lactobacillus casei Lc-10 Lca_Lc10 NZ_AFYT01000017.1
Lactobacillus ceti DSM 22408 Lce_DSM22408 NZ_KE383993
Lactobacillus coryniformis subsp. coryniformis KCTC 3167
Lco_KCTC3167 NZ_GL544592.1
Lactobacillus curvatus CRL 705 Lcu_CRL705 NZ_AGBU01000042.1
Lactobacillus farciminis KCTC 3681 Lfa_KCTC3681 NZ_GL575017
Lactobacillus fermentum ATCC 14931 Lfe_ATCC14931 NZ_GG669901.1
Lactobacillus gasseri JV-V03 Lga_JV-V03 NZ_GL379580
Leuconostoc gelidum KCTC 3527 Lge_KCTC3527 NZ_AEMI01000021.1
Lactobacillus hominis CRBIP 24.179 Lho_CRBIP24.179 NZ_CAKE01000018.1
Lactobacillus iners LactinV 11V1-d Lin_11V1-d NZ_AEHN01000016.1
Lactobacillus jensenii 27-2-CHN Lje_27-2-CHN NZ_KI411428.1
Lactobacillus johnsonii DPC 6026 Ljo_DPC6026 NC_017477.1
Listeria monocytogenes 10403S_3 Lmo_10403S_3 NC_018586
Listeria monocytogenes EGD Lmo_EGD NC_017544
Listeria monocytogenes J0161_4 Lmo_J0161_4 NC_018591
Listeria monocytogenes strain J2-031 Lmo_J2-031 NC_022568
Listeria monocytogenes strain N1-011A Lmo_N1-011A NC_017545
Listeria monocytogenes strain R2-502 Lmo_R2-502 NC_021837
Listeria monocytogenes serotype 7 str. SLCC2482_3
Lmo_SLCC2482_3 NC_021826
Listeria monocytogenes SLCC2540_3 Lmo_SLCC2540_3 NC_021838
Listeria monocytogenes SLCC5850_3 Lmo_SLCC5850_3 NC_018592
Lactobacillus paracasei subsp. paracasei 8700 Lpa_8700 NC_022112
Lactobacillus pentosus KCA1 Lpe_KCA1 NZ_CM001538.1
Lactobacillus plantarum ZJ316 Lpl_ZJ316 NC_020229
Lactobacillus rhamnosus GG Lrh_GG NC_017482
Lactobacillus ruminis ATCC 25644 Lru_ATCC25644 NZ_AFYE01000073.1
Lactobacillus sanfranciscensis TMW 1.1304 Lsa_TMW1.1304 NC_015978.1
Lactobacillus salivarius UCC118 Lsa_UCC118 NC_007929
Mycoplasma arginini HAZ145_1 Mar_HAZ145_1 NZ_AP014657.1
Mycoplasma canis PG 14 Mca_PG14 NZ_AJFQ01000005
Mycoplasma canis UFG4 Mca_UFG4 NZ_AJFU01000005.1
Mycoplasma cynos C142 Mcy_C142 NC_019949.1
Mycoplasma gallisepticum str. F Mga_str._F NC_017503.1
Mycoplasma mobile 163K Mmo_163K NC_006908
Mycoplasma ovipneumoniae SC01 Mov_SC01 NZ_AFHO01000003
-
Megasphaera sp. UPII 135-E Msp_UPII135-E NZ_AFUG01000024.1
Mycoplasma synoviae 53 Msy_53 NC_007294
Nosocomiicoccus ampullae strain LUREC Nam_LUREC NZ_MBFG01000013
Oenococcus kitaharae DSM 17330 Oki_DSM_17330 NZ_CM001398
Olsenella uli DSM 7084 Oul_DSM7084 NC_014363
Pediococcus acidilactici D3 Pac_D3 NZ_KB889550
Pseudoramibacter alactolyticus ATCC 23263 Pal_ATCC23263 NZ_GL622359
Peptostreptococcus anaerobius CAG:621 Pan_CAG:621 NZ_CP016534.1
Planococcus antarcticus DSM 14505 Pan_DSM14505 CAYH010000043
Peptoniphilus duerdenii ATCC BAA-1640 Pdu_ATCCBAA-1640 NZ_GL397071
Pediococcus lolii NGRI 0510Q Plo_NGRI0510Q NZ_BANK01000034.1
Ruminococcus lactaris ATCC 29176 Rla_ATCC29176 NZ_DS990175
Roseburia sp. CAG:197 Rsp_CAG:197 HF999864
Streptococcus agalactiae 09mas018884 Sag_09mas018884 NC_021485
Streptococcus agalactiae_2603V/R_1 Sag_2603V/R_1 NC_004116
Streptococcus agalactiae_A909_1 Sag_A909_1 NC_007432
Streptococcus agalactiae_GD201008-001_1 Sag_GD201008-001_1
NC_018646
Streptococcus agalactiae ILRI005 Sag_ILRI005 NC_021486
Streptococcus agalactiae_NEM316_1 Sag_NEM316_1 NC_004368
Streptococcus agalactiae_SA20-06_1 Sag_SA20-06_1 NC_019048
Streptococcus anginosus_C1051_4 San_C1051_4 NC_022244
Streptococcus dysgalactiae_subsp.equisimilis_ATCC_12394_2
Sdy_ATCC12394_2 NC_017567
Streptococcus dysgalactiae_subsp.equisimilis_GGS_124_1_2
Sdy_GGS124_2 NC_012891
Streptococcus dysgalactiae_subsp.equisimilis_AC-2713_2
Sdy_AC-2713_2 NC_019042
Streptococcus dysgalactiae_subsp.equisimilis_RE378_2
Sdy_RE378_2 NC_018712
Streptococcus equi_subsp.zooepidemicus_str.MGCS10565_4
Seq_MGCS10565_4 NC_011134
Streptococcus gallolyticus_subsp.gallolyticus_ATCC_43143_1
Sga_ATCC43143_1 NC_017576
Streptococcus gallolyticus_subsp.gallolyticus_ATCC_43143_2
Sga_ATCC43143_2 NC_017576
Streptococcus gallolyticus_subsp.gallolyticus_ATCC_BAA-2069_1
Sga_ATCCBAA-2069_1
NC_015215
Streptococcus gallolyticus_subsp.gallolyticus_ATCC_BAA-2069_2
Sga_ATCCBAA-2069_2
NC_015215
Streptococcus gallolyticus_UCN34_1 Sga_UCN34_1 NC_013798
Streptococcus gallolyticus_UCN34_2 Sga_UCN34_2 NC_013798
Streptococcus gordonii_str.Challis_substr.CH1_2
Sgo_CH1_2 NC_009785
-
Streptococcus intermedius_B196_1 Sin_B196_1 NC_022246
Streptococcus infantarius_subsp.infantarius_CJ18_1
Sin_CJ18_1 NC_016826
Streptococcus lutetiensis_033_1 Slu_033_1 NC_021900
Streptococcus lutetiensis_033_2 Slu_033_2 NC_021900
Streptococcus macedonicus_ACA-DC_198_1 Sma_ACA-DC198_1 NC_016749
Solobacterium moorei F0204 Smo_F0204 GL637674
Streptococcus mutans_GS-5_1 Smu_GS-5_1 NC_018089
Streptococcus mutans_LJ23_2 Smu_LJ23_2 NC_017768
Streptococcus mutans_NN2025_2 Smu_NN2025_2 NC_013928
Streptococcus mutans_UA159_1 Smu_UA159_1 NC_004350
Streptococcus pasteurianus_ATCC_43144_1 Spa_ATCC43144_1 NC_015600
Streptococcus parasanguinis F0449 Spa_F0449 NZ_AJMV01000063.1
Staphylococcus pseudintermedius ED99 Sps_ED99 NC_017568
Streptococcus pseudoporcinus LQ 940-04 Sps_LQ940-04 NZ_AEUY02000005.1
Streptococcus pyogenes_A20_1 Spy_A20_1 NC_018936
Streptococcus pyogenes_M1_GAS_1 Spy_M1GAS_1 NC_002737
Streptococcus pyogenes_MGAS10270_1 Spy_MGAS10270_1 NC_008022
Streptococcus pyogenes_MGAS15252_1 Spy_MGAS15252_1 NC_017040
Streptococcus pyogenes_MGAS1882_1 Spy_MGAS1882_1 NC_017053
Streptococcus pyogenes_MGAS5005_1 Spy_MGAS5005_1 NC_007297
Streptococcus pyogenes_MGAS6180_2 Spy_MGAS6180_2 NC_007296
Streptococcus pyogenes_NZ131_1 Spy_NZ131_1 NC_011375
Streptococcus salivarius_JIM8777_3 Ssa_JIM8777_3 NC_017595
Streptococcus sanguinis SK49 Ssa_SK49 NZ_GL890985
Subdoligranulum sp. CAG:314 Ssp_CAG:314 FR900985
Streptococcus sp.I-G2_3 Ssp_I-G2_3 NC_022584
Streptococcus suis D9 Ssu_D9 NC_017620
Streptococcus suis_ST3_2 Ssu_ST3_2 NC_015433
Streptococcus suis YB51 Ssu_YB51 NC_022516
Streptococcus thermophilus_LMG_18311_1 Sth_LMG18311_1 NC_006448
Streptococcus thermophilus_JIM_8232_1 Sth_JIM8232_1 NC_017581
Streptococcus thermophilus_CNRZ1066_1 Sth_CNRZ1066_1 NC_006449
Streptococcus thermophilus_DGCC7710_1 Sth_DGCC7710_1 AWVZ01000002
Streptococcus thermophilus DGCC7710_3 Sth_DGCC7710_3 AWVZ01000001
Streptococcus thermophilus_LMD-9_2 Sth_LMD-9_2 NC_008532
Streptococcus thermophilus_LMD-9_5 Sth_LMD-9_5 NC_008532
Streptococcus thermophilus_MN-ZLW-002_1 Sth_MN-ZLW-002_1 NC_017927
Streptococcus thermophilus_MN-ZLW-002_3 Sth_MN-ZLW-002_3 NC_017927
Streptococcus thermophilus_ND03_1 Sth_ND03_1 NC_017563
Streptococcus thermophilus_ND03_3 Sth_ND03_3 NC_017563
Treponema denticola ATCC 33521 Tde_ATCC33521 NZ_KB445539
Treponema denticola ATCC 35405 Tde_ATCC35405 NC_002967
Treponema putidum OMZ 758 Tpu_OMZ758 NZ_CP009228
Veillonella atypica ACS-134-V-Col7a Vat_ACS-134-V-Col7a
NZ_AEDS01000047
-
Veillonella parvula ATCC 17745 Vpa_ATCC17745 NZ_ADFU01000012.1
Veillonella sp. 6_1_27 Vsp_6_1_27 NZ_GG770216.1
Veillonella sp. oral taxon 780 str. F0422 Vsp_780strF0422 NZ_AFUJ01000012.1
Virgibacillus sp. SK-1 Vsp_SK1 NZ_CCXU01000007
Weissella cibaria strain FBL5 Wci_FBL5 NZ_LVYB01000027
Weissella halotolerans FBL4 Wha_FBL4 NZ_LVVN01000018.1
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Phylum Class Order Family Genus
Firmicutes Negativicutes Acidaminococcales Acidaminococcaceae Acidaminococcus
Actinobacteria Actinobacteria Bifidobacteriales Bifidobacteriaceae Bifidobacterium
Firmicutes Bacilli Bacillales Listeriaceae Brochothrix
Firmicutes Clostridia Clostridiales Lachnospiraceae Butyrivibrio
Bacteroidetes Bacteroidia Bacteroidales Bacteroidaceae Bacteroides
Firmicutes Bacilli Lactobacillales Enterococcaceae Catellicoccus
Firmicutes Clostridia Clostridiales Peptostreptococcaceae
Clostridioides
Firmicutes Bacilli Lactobacillales Carnobacteriaceae Carnobacterium
Firmicutes Bacilli Bacillales Planococcaceae Caryophanon
Actinobacteria Coriobacteriia Coriobacteriales Coriobacteriaceae Coriobacterium
Firmicutes Erysipelotrichia Erysipelotrichales Erysipelotrichaceae Catenibacterium
Firmicutes Clostridia Clostridiales Lachnospiraceae Dorea
Firmicutes Clostridia Clostridiales Eubacteriaceae Eubacterium
Firmicutes Bacilli Lactobacillales Enterococcaceae Enterococcus
Actinobacteria Coriobacteriia Eggerthellales Eggerthellaceae Eggerthella
Firmicutes
Firmicutes Clostridia Clostridiales Peptostreptococcaceae
Filifactor
Firmicutes Bacilli Lactobacillales Leuconostocaceae Fructobacillus
Firmicutes Bacilli Lactobacillales Aerococcaceae Facklamia
Firmicutes Tissierellia Tissierellales Peptoniphilaceae Finegoldia
Fusobacteria Fusobacteriia Fusobacteriales Fusobacteriaceae Fusobacterium
Firmicutes Bacilli Bacillales Gemella
Actinobacteria Coriobacteriia Eggerthellales Eggerthellaceae Gordonibacter
Firmicutes Bacilli Lactobacillales Aerococcaceae Globicatella
Firmicutes Tissierellia Tissierellales Peptoniphilaceae Helcococcus
Firmicutes Erysipelotrichia Erysipelotrichales Erysipelotrichaceae Kandleria
Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus
Firmicutes Clostridia Clostridiales Lachnospiraceae
Firmicutes Bacilli Lactobacillales Leuconostocaceae Leuconostoc
Firmicutes Bacilli Bacillales Listeriaceae Listeria
Tenericutes Mollicutes Mycoplasmatales Mycoplasmataceae Mycoplasma
Firmicutes Negativicutes Veillonellales Veillonellaceae Megasphaera
Firmicutes Bacilli Bacillales Staphylococcaceae Nosocomiicoccus
Firmicutes Bacilli Lactobacillales Leuconostocaceae Oenococcus
Table S2
-
Actinobacteria Coriobacteriia Coriobacteriales Atopobiaceae Olsenella
Firmicutes Tissierellia Tissierellales Peptoniphilaceae Peptoniphilus
Firmicutes Bacilli Lactobacillales Lactobacillaceae Pediococcus
Firmicutes Clostridia Clostridiales Eubacteriaceae Pseudoramibacter
Firmicutes Clostridia Clostridiales Peptostreptococcaceae Peptostreptococcus
Firmicutes Bacilli Bacillales Planococcaceae Planococcus
Firmicutes Clostridia Clostridiales Ruminococcaceae Ruminococcus
Firmicutes Clostridia Clostridiales Lachnospiraceae Roseburia
Firmicutes Bacilli Lactobacillales Streptococcaceae Streptococcus
Firmicutes Erysipelotrichia Erysipelotrichales Erysipelotrichaceae Solobacterium
Firmicutes Bacilli Bacillales Staphylococcaceae Staphylococcus
Firmicutes Clostridia Clostridiales Ruminococcaceae Subdoligranulum
Spirochaetes Spirochaetia Spirochaetales Spirochaetaceae Treponema
Firmicutes Negativicutes Veillonellales Veillonellaceae Veillonella
Firmicutes Bacilli Bacillales Bacillaceae Virgibacillus
Firmicutes Bacilli Lactobacillales Leuconostocaceae Weissella
-
Protein Group Average Length Low High
Cas1 1a 301 288 307
Cas1 1b 291 261 308
Cas1 2 289 288 291
Cas1 3 299 281 304
Cas2 1a 106 99 114
Cas2 1b 102 97 109
Cas2 2 113 102 114
Cas2 3 101 96 103
Cas9 1a 1136 765 1339
Cas9 1b 1312 752 1399
Cas9 2 1347 726 1421
Cas9 3 1307 1149 1420
Csn2 1a 324 220 352
Csn2 1b 230 215 320
Csn2 2 218 168 224
Csn2 3 220 136 234
Table S4
Table S3
Species CRISPRdb loci No.
CRISPRdb CRISPR repeat length genomic CRISPR repeat length
Sga_ATCC_43143 NC_017576_3
GTTTTTGTACTCTCAAGATTTAAGTAACCGTAAAACA 37
GTTTTTGTACTCTCAAGATTTAAGTAACCGTAAAAC 36
Sin_CJ18 NC_016826_3
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAACT 37
GTTTTAGAGCTGTGCTGTTTCGAATGGTTCCAAAAC 36
Spy_MGAS15252 NC_017040_3
GTTTTAGAGCTATGCTGTTTTGAATGGTC 29
GTTTTAGAGCTATGCTGTTTTGAATGGTCCCAAAAC 36
Supplementary FiguresLeaderRepeat_All_GroupsFirstRepeat_AllCas1_ALLFigureS4Csn2_ALL
Supplementary Table 1