Development of PCR-based ORF typing method for multiple serotypes of STEC

We developed a PCR-based open reading frame typing (POT) method to genotype a broad range of STEC serotypes. To select detection ORFs for POT, we used both genome data from our STEC isolates and publicly available genome sequences obtained from GenBank. The accession numbers used in this study were as follows: GenBank accession numbers BA000007.3, AE005174.2, CP001164.1, AP010953.1, AP010960.1, AP018796.1, CP021335.1, CP021339.1, AP010958.1, CP006027.1, CP006262.1, CP007133.1, CP007136.1, CP014583.1, CP014670.1, CP010238.1, and CU928145.2 ; and WGS project numbers ADUN01, AFAI02, AIGP01, AIGQ01, AIGR01, AJVW01, AKAZ01, AKBA01, AKBB01, AKBC01, AMVC01, AMXO01, ARWT01, AYOF01, CCPO01, CCPT01, CCPV01, CCPX01, CCPZ01, CCQA01, CCQD01, CCQL01, CCQS01, CCQU01, CCRB01, CDLB01, FAVN01, FAVO01, FAVU01, FAVW01, FAVZ01, FAWA01, FAWF01, FAWK01, FAWM01, FAWP01, FAWZ01, JAST01, JHEW01, JHFB01, JHFD01, JHFH01, JHFJ01, JHFX01, JHGA01, JHGI01, JHGK01, JHGM01, JHGV01, JHGX01, JHGZ01, JHLN01, JHLS01, JHLV01, JHLX01, JHLY01, JHMF01, JHMI01, JHMN01, JHMP01, JHMS01, JHND01, JHNO01, JHNT01, JHOE01, JXVR01, JXWC01, JZEA01, JZED01, LDXB01, LDXC01, LDXD01, LDXE01, LDXF01, LDXG01, LDXI01, LDYN01, LFIB01, LFIC01, LHAS01, LOCV01, LOCY01, LOCZ01, LODA01, LODD01, LOFM01, LOFP01, LOFS01, LOFU01, LOGB01, LOGF01, LOGU01, LOHA01, LOIU01, LPTU01, LPTV01, MBOD01, MBOE01, MRVS01, MRVT01, MRVV01, NEND01, NENL01, NGBP02, NIPT01, AEZQ02, AEZR02, AFDQ01, AOUP01, AOUQ01, CCQV01, CCRE01, JASQ01, JHGW01, JHHF01, JNNL01, LDDT01, LNFU01, LNFV01, LNZK01, LOCT01, LODG01, LOFR01, LOFX01, LOGR01, LOGV01, LOIO01, LOIX01, LOJA01, LOJC01, LPUI01, LPUJ01, LPUK01, LPUN01, LPWW01, LPWY01, LPXC01, LXPF01, MPUF01, NEMP01, NLQC01, AEZS02, AEZT02, AGSG01, AJVQ01, AJVR01, AYMX02, CCQK01, CCQZ01, CCVR01, FAWU01, JHEX01, JHFY01, JHHE01, JHLL01, JHNB01, JHNC01, JXVU01, JXWB01, LDDB01, LDDC01, LECF01, LGZL01, LGZQ01, LGZR01, LGZS01, LGZU01, LHCU01, LHDA01, LOCW01, LOCX01, LOFL01, LOFZ01, LOGE01, LOGO01, LOGQ01, LOGW01, LOIM01, LPUL01, LPWZ01, MVLM01, MVLN01, MVLO01, MVLP01, MVLQ01, MVLR01, MVLS01, MVLT01, MVLU01, MVLV01, MVLW01, MVLX01, MVLY01, MVLZ01, MVMA01, MVMB01, MVMC01, MVMD01, MVME01, MVMF01, MVMG01, MVMH01, MVMI01, MVMJ01, MVMK01, MVML01, MVMM01, MVMN01, MVMO01, MVMP01, MVMQ01, MVMR01, MVMS01, MVMT01, MVMU01, MVMV01, MVMW01, MVMX01, MVMY01, MVMZ01, MVNA01, MVNB01, MVNC01, NEMO01, NENB01, NENX01, ADUQ01, AEZU02, AEZV02, AFDS01, AICG01, AIGG01, AIGH01, AIGJ01, AJVS01, AJVT01, AJVU01, AJVV01, AKAV01, AKAW01, AKAX01, AKAY01, AMXP01, AMXQ01, AVDU01, AWFJ01, AZBZ01, CCQO01, CCQX01, FAVM01, FAVV01, FAWB01, FAWE01, FAWR01, FAWS01, FAWX01, JFGU01, JHFE01, JHFF01, JHFG01, JHFZ01, JHGB01, JHGR01, JHGS01, JHGU01, JHHL01, JHHM01, JHHN01, JHHO01, JHHP01, JHHQ01, JHHR01, JHHT01, JHHU01, JHJS01, JHKU01, JHLM01, JHLO01, JHLQ01, JHLU01, JHLW01, JHMA01, JHMQ01, JHMR01, JHMT01, JHMU01, JHMW01, JHMX01, JHMY01, JHNS01, JHNU01, JXVQ01, JXVY01, LDDM01, LDDN01, LDDO01, LDDP01, LDDQ01, LDDR01, LECI01, LGZG01, LGZM01, LMBJ01, LOCU01, LPWX01, NENC01, NENJ01, NENS01, NEOC01, AEZX02, AGTJ01, AYRW01, FAVY01, JASV01, JHFC01, JHFL01, JHFM01, JHGG01, JHGH01, JHGL01, JHGN01, JHGT01, JHIJ01, JHIK01, JHJR01, JHLR01, JHLT01, JHLZ01, JHMB01, JHMC01, JHMG01, JHML01, JHMO01, JHMV01, JHNH01, JHNR01, JHNX01, JXVX01, JXWF01, JYKT01, JZDW01, JZDX01, LDDK01, LDZZ01, LEAA01, LGZK01, LGZT01, LODE01, MTGM01, NENK01, NENU01, NEOO01, AFAA02, AGTL01, BDLI01, BDLL01, CCRD01, CCVQ01, FAVT01, JASO01, JHEY01, JHEZ01, JHFN01, JHFQ01, JHFS01, JHFT01, JHFV01, JHFW01, JHKV01, JHNA01, JHNN01, JXVT01, JZDY01, JZDZ01, LDCU01, LEAB01, LGZD01, LGZE01, LGZI01, LHAB01, LOFN01, and LOGK01.