ࡱ>   !"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMVOPQRSTUYWXRoot Entry F4b@SummaryInformation(DocumentSummaryInformation8WordDocument.  Oh+'0   (08xiqiang yangNormal ouhongyu3@0z;p"@a@@4b<WPS Office_10.1.0.7469_F1E327BC-269C-435d-A152-05C5408002CA ՜.+,D՜.+,HPXdlt |- 0KSOProductBuildVerKSORubyTemplateID2052-10.1.0.746960TableNData WpsCustomData P*KSKS.W``tX4 > $1 h R @X ** zYef['Y~ zW,gOo`Course Information  zNxCourse Code SP162*f[eCredit Hours 16*f[RCredits 1* zTyCourse Name -Ne _uirWV~f[Nb̃ }o'`e Bacterial Genomics and Antibiotic Resistance z'`((Course Type)euxc[aAudience NP[ f[ub|bNNc(Language of Instruction)-Ne*_b|School u}Tyf[b/gf[b_uiryf[|HQO zPrerequisite cYe^Instructor 'kz[ zQ@W(Course Webpage)* z{NDescription -Ne300-500W[ +T z'`(0;NYef[Q[0 zYef[vhI{ hQtb4N@w~̃ov%N\cb0uS~̃(Wb̃oirn(u bv:_'Y bSR N _T^l0W_Nb̃ }b'`0N*NTb̃ }eNv}^up--Y͑o'`ũ@b[v;Sb_'`ag%N͑0WZ@wuNeP^0ZSO^lbSv ~~̃ vQ[v^N/fN*NhQei_ /fN{|õvNy vMR]bSvSbpKQ/Õ0fNRFg̃0ܔ~GPUSހ̃T'YW ^̃I{agNũ0ُNõS_whQT{|ag 4N^hstSl gyr+RKNY0vQqQ'`/f:d&^ gNDM-1 (e_̑ё^\-Qpv-1) [@b gv-Qp{|0(lW|{|0Un{|I{b̃oiro N[YϞ̃ }TfRs }(WSOYhsQN[vOea'`0õvNu/f~̃[b̃oir b'`^~g O(uvbu }{|oiry{|Y ^ؚ ~̃vo'`1\:_0o1_N^0,gx\N _uirWV~f[ Ɖ҉ w uS̃uTo ُ*N cQvsQvyxtQpTsQ.0~TRP[_uirf[TuirOo`f[ cl[0lSTcTI{W,gW Of[wƋ N~~̃WV~f[gexvzۏU\ .^Rf[uccRg'YϑpencvuirOo`f[W,gel oSf[uc"}*gwvp`0* z{NDescription Antibiotic resistance is an urgent global problem; the nationwide detection rate of carbapenem-resistant Klebsiella pneumoniae is 7% in China and 20% in Shanghai. Worldwide, there are 700,000 annual deaths due to ABR, many antibiotics are no longer clinically active, no novel antibiotics are in clinical trials, and pharma companies are retreating from antibiotic discovery. This will be especially relevant to the most vulnerable populations in China, including patients suffered from infections or other diseases with increased susceptibility to antibiotic-resistant organisms. Notably, antibiotic resistance is not a new problem but one that is becoming more dangerous; urgent and consolidated efforts are needed to avoid regressing to the pre-antibiotic era. It is a natural biological phenomenon, through which microorganisms acquire resistance to the drugs meant to kill them. With each new generation, the pathogenic bacteria carrying the resistant gene become ever more dominant until the drug is completely ineffective. Inappropriate use of infection-fighting drugs (underuse, overuse or misuse) causes resistance to emerge faster. Antibiotic gene transfer and evolution occur frequently at the interface between humans, environment, and animals. It is well established that the bacterial mobilome directly promote the process of lateral flow of antibiotic resistance genes (ARGs), such as conjugative plasmids or chromosome-borne integrative and conjugative elements (ICEs). The ESKAPE opportunistic pathogens with high genome plasticity serve as reservoirs for the ARG-carrying mobile genetic elements (MGEs), thus amplifying the risk of antibiotic-recalcitrant infections both within and outside hospitals. Some ESKAPE pathogens are components of animal gut microbiota, and they can be isolated from environmental sourcesIn this course we link the  Bacterial Genomics with the original concept of  antibiotic resistance of pathogenic bacteria . We are discussing various issues involved in horizontal gene transfer, mobile genetic elements, whole genome sequencing, genome annotation and comparison analysis and big data mining. Remarkably, the powerful bioinformatics techniques are illustrated for mining pathogenic genome sequences, including in silico methods that facilitates rapid investigation of virulence and antibiotic resistance genes, as well as extends these trait transfer-related genetic contexts, in newly sequenced pathogenic bacterial genomes. zYef['Y~course syllabus *f[`Nvh(Learning Outcomes)N~̃WV~~gNWV4ls^ly0N~̃WV~Km^N^RRgel0NuS~̃o'`vb_bT Od0*Yef[Q[0ۏ^[cSBl(Class Schedule& Requirements)Yef[Q[f[eYef[e_\ONSBlW,gBlge_,{Nz _uirWV~v~g2XQYf[uHhOI [~̃W OY7h'`xvz0WV~f[xvziQSSU\R gRekvN0q`͑agNũgrSOS(|v~g Y'YW ^̃TpKQ/ÕI{0PPT6R\OSXGlb,{Nz _uirWV~vKm^2XQYf[uHhOIN㉰eNNDNAKm^elS~̃hQWV~Km^vW,gV{euPPT6R\OSXGlb,{ Nz WV~f[pencvRg2XQYf[uHhOIN͑RP[uirf[penc^S8^(u^RRg]wQ, ~̃WV~lʑel0PPT6R\OSXGlbf[uHhOI: 2XQYf[uHhOII]bS ~~̃ vsQWV~vKm^ۏU\0PPT6R\OSXGlb,{Vz ~̃WV~zSNo2XQYf[uHhOIIN~̃ov͑RP[:g6R, Y-Qpv\O(u:g6R0NY͑o0g^oTloI{͑i_0PPT6R\OSXGlbf[uHhOII2XQYf[uHhOIII8^;S(ubu }v[^O(u`Q0PPT6R\OSXGlb,{Nz ~̃b̃ub'` Od:g6Rvxvz 2XQYf[uHhOIIIN㉗bu }b'`ǏSyRCQN OdvRP[:g6R0PPT6R\OSXGlbf[uHhOIIIS z;`~02XQY zeN㉵b_o'`@bvceSlQOvSN0eċ*8he_(Grading)XQRsTHhO 50%'Ye 50%*YePgbSDe(Textbooks & Other Materials)_uirf[0;NP[e, H\0,{N;N/fb!hYe^0ؚI{YeQHr>y020170ISBN: 978-7-04-046769-70V[~ĉRYePgvQ[More YlNotes Ylf1&^*Q[:N_kXy02 z{NW[pe:N300-500W[ z'Y~NhnZiYef[[c:N[ W[peNP0HLTVXpr|~ ¸zufCJo(aJmH sH nHtHo( B*pho( B* phPPJo(mH sH nHtHB* phPo(mH sH nHtH B*pho(PJo(mH sH nHtHo(mH sH nHtHRHZRHZRHZo(RHZ B*pho(RHZCJaJo(o(o( CJ aJ 5 CJ aJ 5CJ o(aJ 5$   ~ , . 2 6 8 @ B R T p t | ~ }rfda]o(o(o(PJo(mH sH nHtHo(mH sH nHtHo(o( B*pho(PJo(mH sH nHtHo(mH sH nHtHo(o( CJo(aJo(o(CJo(aJmH sH nHtHCJo(aJmH sH nHtHo(o(CJo(aJmH sH nHtHCJo(aJmH sH nHtHCJo(aJmH sH nHtH$  " d f p $ 2 ̹vcXIB*phCJQJKHmH sH B*phCJQJo($B*phCJQJo(mH sH nHtHB*phCJQJo($B*phCJQJo(mH sH nHtHB*phCJQJo(B*phCJQJo(nHtHB*phCJQJo($B*phCJQJo(mH sH nHtH B* phPo( B* phPo(RHZo(o( B*pho( B* phPo(o(o(o(o(o(2 4 < >  (.8<hj8HTžvmh_WPJC CJQJaJ CJQJo( CJQJaJCJQJo(aJB*phCJQJCJQJB*phCJQJB*phCJQJo(nHtHB*phCJQJB*phCJB*phCJQJB*phCJB*phCJQJB*phCJB*phCJQJB*phCJB*phCJQJB*phCJQJo(B*phCJQJB*phCJB*phCJQJB*phCJKHmH sH Ttz $&.HJ"""""»~|xi[MJGo(o(CJo(aJmH sH nHtHCJo(aJmH sH nHtHCJo(aJmH sH nHtHRHZo(o( B*pho( B* phPo( CJo(aJ CJQJaJ CJQJo( CJQJaJ CJQJo( CJQJaJCJQJo(aJ CJQJaJCJQJo(aJmH sH nHtH CJQJaJCJQJo(aJ CJQJaJCJQJo(aJ CJQJaJCJQJo(aJ"""# #,#.#P#R#r#v#x##################$$ $$ʼ}xrmgb\WCJaJ CJo(aJCJaJ CJo(aJCJaJ CJo(aJCJaJ CJo(aJCJaJ CJo(aJCJaJ CJo(aJo(o(o(o( B*pho(CJo(aJmH sH nHtHCJo(aJmH sH nHtHCJo(aJmH sH nHtHCJo(aJmH sH nHtHCJo(aJmH sH nHtHo( B*pho( $($*$,$.$6$8$<$J$L$$$$$%%% %%ȸ{ke`RB4CJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJ CJo(aJCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJ CJo(aJCJPJo(aJmH sH nHtH CJo(aJCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJ CJo(aJ%%%&%(%,%\%^%r%v%%%%%%%%%%%%%%Ⱥtoa[VHB=CJaJ CJo(aJCJo(aJmH sH nHtHCJaJ CJo(aJCJo(aJmH sH nHtHCJaJCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJCJo(aJnHtH CJo(aJCJaJCJo(aJmH sH nHtHCJaJ CJo(aJCJo(aJmH sH nHtHCJaJ CJo(aJCJo(aJmH sH nHtHCJaJ%&&$&&&(&*&2&4&8&F&H&J&N&v&x&&&&&õse_ZLGA<CJaJ CJo(aJCJaJCJo(aJmH sH nHtHCJaJ CJo(aJCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtH CJo(aJCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJ CJo(aJCJaJCJo(aJmH sH nHtH&&&&&&&&&2'4'H'L'^'`'b'd'l'n'r'~xseUGB4CJo(aJmH sH nHtHCJaJCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJ CJo(aJCJaJCJo(aJmH sH nHtHCJaJ CJo(aJCJPJo(aJmH sH nHtHCJo(aJmH sH nHtH CJo(aJCJo(aJmH sH nHtHCJaJCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHr'''''''''''''''' (((>(@(´xse_QA;6CJaJ CJo(aJCJPJo(aJmH sH nHtHCJo(aJmH sH nHtH CJo(aJCJo(aJmH sH nHtHCJaJCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJ CJo(aJCJaJCJo(aJmH sH nHtHCJaJ CJo(aJCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtH CJo(aJ@(T(X(j(l(v(x(z(|((((((((((((((((Ϳ~xseUPKDB?o(o( B*pho(CJaJCJaJCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJ CJo(aJCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJCJo(aJmH sH nHtHCJPJo(aJmH sH nHtHCJo(aJmH sH nHtHCJaJ CJo(aJCJo(aJmH sH nHtH CJo(aJCJaJCJo(aJmH sH nHtH( ))(),).)<)>)x)z))))))** ****t]N;96o(o($B*phCJo(aJmH sH nHtHB*phCJOJQJo(aJ,B*phCJOJQJo(aJmH sH nHtHB*phCJOJQJo(aJ,B*phCJOJQJo(aJmH sH nHtHB*phCJOJQJo(aJ,B*phCJOJQJo(aJmH sH nHtHo(o( B*pho(CJaJB*phCJOJQJo(aJB*phCJOJQJo(aJB*phCJOJQJo(aJ* *$*&*4*6*:*D*F*\*^***o(o(o( B* phPo(o( B* phP JLVr~jaXRI a$$$If$If a$$$If a$$$Ifz$$If:V 44l44l0f;#; 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