Investigating loss of heterozygosity in a SCRaMbLEd yeast genome
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摘要
<正>Loss of heterozygosity (LOH) is a phenomenon in which elimination of one parental genomic region occurs in interspecific hybrids. LOH is common in cancer (Deng et al.,1996; Koufos et al., 1985). However, genetic analysis of LOH has been mainly conducted based on predetermined features of individual genomes.In a recent study published in SCIENCE CHINA Life Sciences, a team from Tianjin University reported that LOH is observed in chromosomes generated using the SCRaMbLE system (Li et al., 2019). The SCRaMbLE system, developed during the construction of a synthetic yeast genome,
引文
Blount,B.A.,Gowers,G.O.F.,Ho,J.C.H.,Ledesma-Amaro,R.,Jovicevic,D.,McKiernan,R.M.,Xie,Z.X.,Li,B.Z.,Yuan,Y.J.,and Ellis,T.(2018).Rapid host strain improvement by in vivo rearrangement of a synthetic yeast chromosome.Nat Commun 9,1932.
Deng,G.,Lu,Y.,Zlotnikov,G.,Thor,A.D.,and Smith,H.S.(1996).Loss of heterozygosity in normal tissue adjacent to breast carcinomas.Science 274,2057-2059.
Hochrein,L.,Mitchell,L.A.,Schulz,K.,Messerschmidt,K.,and MuellerRoeber,B.(2018).L-SCRaMbLE as a tool for light-controlled Cremediated recombination in yeast.Nat Commun 9,1931.
Jia,B.,Wu,Y.,Li,B.Z.,Mitchell,L.A.,Liu,H.,Pan,S.,Wang,J.,Zhang,H.R.,Jia,N.,Li,B.,et al.(2018).Precise control of SCRaMbLE in synthetic haploid and diploid yeast.Nat Commun 9,1933.
Koufos,A.,Hansen,M.F.,Copeland,N.G.,Jenkins,N.A.,Lampkin,B.C.,and Cavenee,W.K.(1985).Loss of heterozygosity in three embryonal tumours suggests a common pathogenetic mechanism.Nature 316,330-334.
Li,Y.X.,Wu,Y.,Ma,L.,Guo,Z.,Xiao,W.H.,and Yuan,Y.J.(2019).Loss of heterozygosity by SCRaMbLEing.Sci China Life Sci 62,381-393.
Liu,W.,Luo,Z.,Wang,Y.,Pham,N.T.,Tuck,L.,Pérez-Pi,I.,Liu,L.,Shen,Y.,French,C.,Auer,M.,et al.(2018).Rapid pathway prototyping and engineering using in vitro and in vivo synthetic genome SCRaMbLE-in methods.Nat Commun 9,1936.
Luo,Z.,Wang,L.,Wang,Y.,Zhang,W.,Guo,Y.,Shen,Y.,Jiang,L.,Wu,Q.,Zhang,C.,Cai,Y.,et al.(2018).Identifying and characterizing SCRaMbLEd synthetic yeast using ReSCuES.Nat Commun 9,1930.
Shen,M.J.,Wu,Y.,Yang,K.,Li,Y.,Xu,H.,Zhang,H.,Li,B.Z.,Li,X.,Xiao,W.H.,Zhou,X.,et al.(2018).Heterozygous diploid and interspecies SCRaMbLEing.Nat Commun 9,1934.
Shen,Y.,Stracquadanio,G.,Wang,Y.,Yang,K.,Mitchell,L.A.,Xue,Y.,Cai,Y.,Chen,T.,Dymond,J.S.,Kang,K.,et al.(2016).SCRaMbLEgenerates designed combinatorial stochastic diversity in synthetic chromosomes.Genome Res 26,36-49.
Wang,J.,Xie,Z.X.,Ma,Y.,Chen,X.R.,Huang,Y.Q.,He,B.,Bin Jia,B.,Li,B.Z.,and Yuan,Y.J.(2018).Ring synthetic chromosome VSCRaMbLE.Nat Commun 9,3783.
Wu,Y.,Zhu,R.Y.,Mitchell,L.A.,Ma,L.,Liu,R.,Zhao,M.,Jia,B.,Xu,H.,Li,Y.X.,Yang,Z.M.,et al.(2018).In vitro DNA SCRaMbLE.Nat Commun 9,1935.
Deng,G.,Lu,Y.,Zlotnikov,G.,Thor,A.D.,and Smith,H.S.(1996).Loss of heterozygosity in normal tissue adjacent to breast carcinomas.Science 274,2057-2059.
Hochrein,L.,Mitchell,L.A.,Schulz,K.,Messerschmidt,K.,and MuellerRoeber,B.(2018).L-SCRaMbLE as a tool for light-controlled Cremediated recombination in yeast.Nat Commun 9,1931.
Jia,B.,Wu,Y.,Li,B.Z.,Mitchell,L.A.,Liu,H.,Pan,S.,Wang,J.,Zhang,H.R.,Jia,N.,Li,B.,et al.(2018).Precise control of SCRaMbLE in synthetic haploid and diploid yeast.Nat Commun 9,1933.
Koufos,A.,Hansen,M.F.,Copeland,N.G.,Jenkins,N.A.,Lampkin,B.C.,and Cavenee,W.K.(1985).Loss of heterozygosity in three embryonal tumours suggests a common pathogenetic mechanism.Nature 316,330-334.
Li,Y.X.,Wu,Y.,Ma,L.,Guo,Z.,Xiao,W.H.,and Yuan,Y.J.(2019).Loss of heterozygosity by SCRaMbLEing.Sci China Life Sci 62,381-393.
Liu,W.,Luo,Z.,Wang,Y.,Pham,N.T.,Tuck,L.,Pérez-Pi,I.,Liu,L.,Shen,Y.,French,C.,Auer,M.,et al.(2018).Rapid pathway prototyping and engineering using in vitro and in vivo synthetic genome SCRaMbLE-in methods.Nat Commun 9,1936.
Luo,Z.,Wang,L.,Wang,Y.,Zhang,W.,Guo,Y.,Shen,Y.,Jiang,L.,Wu,Q.,Zhang,C.,Cai,Y.,et al.(2018).Identifying and characterizing SCRaMbLEd synthetic yeast using ReSCuES.Nat Commun 9,1930.
Shen,M.J.,Wu,Y.,Yang,K.,Li,Y.,Xu,H.,Zhang,H.,Li,B.Z.,Li,X.,Xiao,W.H.,Zhou,X.,et al.(2018).Heterozygous diploid and interspecies SCRaMbLEing.Nat Commun 9,1934.
Shen,Y.,Stracquadanio,G.,Wang,Y.,Yang,K.,Mitchell,L.A.,Xue,Y.,Cai,Y.,Chen,T.,Dymond,J.S.,Kang,K.,et al.(2016).SCRaMbLEgenerates designed combinatorial stochastic diversity in synthetic chromosomes.Genome Res 26,36-49.
Wang,J.,Xie,Z.X.,Ma,Y.,Chen,X.R.,Huang,Y.Q.,He,B.,Bin Jia,B.,Li,B.Z.,and Yuan,Y.J.(2018).Ring synthetic chromosome VSCRaMbLE.Nat Commun 9,3783.
Wu,Y.,Zhu,R.Y.,Mitchell,L.A.,Ma,L.,Liu,R.,Zhao,M.,Jia,B.,Xu,H.,Li,Y.X.,Yang,Z.M.,et al.(2018).In vitro DNA SCRaMbLE.Nat Commun 9,1935.