高粱A1型细胞质雄性不育系与保持系线粒体基因组分析比较
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摘要
线粒体基因组易位是导致作物细胞质雄性不育(Cytoplasmic male sterility,CMS)性状产生的重要遗传机制。比较高粱A1型细胞质雄性不育系与保持系线粒体基因组,寻找易位区为克隆高粱A1型细胞质雄性不育相关基因奠定基础。以高粱A1型细胞质雄性不育系Tx623A和其保持系Tx623B为试验材料,采用二代Illumina Hiseq结合三代PacBio测序技术,对2个样品的线粒体基因组进行组装,比较和分析不育系和保持系基因组结构和基因差异。高粱Tx623A和Tx623B线粒体基因组大小分别为449 727 bp和452 772 bp,预测编码开放阅读框(Open reading frame,ORFs)分别为147和145个,且两基因组特有基因分别为8个和6个。两线粒体基因组共线性比较分析,发现存在一个57 kb的基因组片段易位的结构变异(Structural variation,SV)区域,该易位区可能与A1型细胞质雄性不育有关。Tx623A和Tx623B线粒体基因组中易位区为高粱A1型细胞质雄性不育基因克隆提供了基因组信息。
Mitochondrial genomic translocation is an important genetic mechanism for cytoplasmic male sterility(CMS)in crops. The main purpose of this study is to explore the translocation region of mitochondrial genomes by comparing the mitochondrial genome between A1 cytoplasmic male sterile line and maintainer line of Sorghum bicolor,and to lay a foundation for cloning related genes of sorghum A1 cytoplasmic male sterility. A1 cytoplasmic male sterile line Tx623 A and its maintainer line Tx623 B of sorghum were used in this experiment.Their mitochondrial genome sequencing data from Illumina Hiseq(next generation sequencing)and PacBio seq(third generation sequencing)were assembled,and then,the differences of genome structures and genes between the two lines were compared and analyzed. The results showed that the mitochondrial genome sizes of Tx623 A and Tx623 B were 449 727 bp and 452 772 bp,respectively. The predicted open reading frames(ORFs)were 147 and 145,among which the number of the specific genes for Tx623 A were 8 and 6 for Tx623 B. Importantly,a57 kb genome structural variation(SV)region was found after comparing the two mitochondrial genomes,and which may be related to A1 cytoplasmic male sterility. Collectively,our results provide genomic information for cloning related genes of sorghum A1 cytoplasmic male sterility.
Mitochondrial genomic translocation is an important genetic mechanism for cytoplasmic male sterility(CMS)in crops. The main purpose of this study is to explore the translocation region of mitochondrial genomes by comparing the mitochondrial genome between A1 cytoplasmic male sterile line and maintainer line of Sorghum bicolor,and to lay a foundation for cloning related genes of sorghum A1 cytoplasmic male sterility. A1 cytoplasmic male sterile line Tx623 A and its maintainer line Tx623 B of sorghum were used in this experiment.Their mitochondrial genome sequencing data from Illumina Hiseq(next generation sequencing)and PacBio seq(third generation sequencing)were assembled,and then,the differences of genome structures and genes between the two lines were compared and analyzed. The results showed that the mitochondrial genome sizes of Tx623 A and Tx623 B were 449 727 bp and 452 772 bp,respectively. The predicted open reading frames(ORFs)were 147 and 145,among which the number of the specific genes for Tx623 A were 8 and 6 for Tx623 B. Importantly,a57 kb genome structural variation(SV)region was found after comparing the two mitochondrial genomes,and which may be related to A1 cytoplasmic male sterility. Collectively,our results provide genomic information for cloning related genes of sorghum A1 cytoplasmic male sterility.
引文
[1]Tang HW, Xie YY, Liu YG, et al. Advances in understanding the molecular mechanisms of cytoplasmic male sterility and restoration in rice[J]. Plant Report, 2017, 30(4):179-184.
[2]Luo DP, Xu H, Liu ZL, et al. A detrimental mitochondrial-nuclear interaction causes cytoplasmic male sterility in rice[J]. Nat Genet, 2013, 45(5):573-577.
[3]CharlesworthD.Originsofrice cytoplasmicmalesterility genes[J]. Cell Res, 2017, 27(1):3-4.
[4]Wang X, Guan Z, Gong Z, et al. Crystal structure of WA352 provides insight into cytoplasmic male sterility in rice[J]. Biochem Biophys Res Commun, 2018, 501(4):898-904.
[5]Wang ZH, Zou YJ, Li XY, et al. Cytoplasmic male sterility of rice with boro II cytoplasm is caused by a cytotoxic peptide and is restored by two related PPR motif genes via distinct modes of mRNA silencing[J]. The Plant Cell, 2006, 18(3):676-687.
[6]Kazama T, Itabashi E, Fujii S, et al. Mitochondrial ORF79 levels determine pollen abortion in cytoplasmic male sterile rice[J].Plant J, 2016, 85(6):707-716.
[7]Wang K, Gao F, Ji YX, et al. ORFH79 impairs mitochondrial function via interaction with a subunit of electron transport chain complex III in Honglian cytoplasmic male sterile rice[J]. New Phytol, 2013, 198(2):408-418.
[8]Xie HW, Peng XJ, Qian MJ, et al. The chimeric mitochondrial gene orf182 causes non-pollen-type abortion in Dongxiang cytoplasmic male-sterile rice[J]. Plant J, 2018, 95(4):715-726.
[9]Yamamoto MP, Shinada H, Onodera Y, et al. A male sterilityassociated mitochondrial protein in wild beets causes pollen disruption in transgenic plants[J]. 2008, Plant J, 54:1027-1036.
[10]Kim DH, Kang JG, Kim BD. Isolation and characterization of the cytoplasmic male sterility associated orf456 gene of chili pepper(Capsicum annuum L.)[J]. Plant Mol Biol, 2007, 63:519-532.
[11]Yang J, Liu X, Yang X, et al. Mitochondrially-targeted expression of a cytoplasmic male sterility-associated orf220 gene causes male sterility in Brassica juncea[J]. BMC Plant Biol, 2010, 10:231-240.
[12]Jing B, Heng S, Tong D, et al. A male sterility-associated cytotoxic protein ORF288 in Brassica juncea causes aborted pollen development[J]. J Exp Bot, 2012, 63:1285-1295.
[13]Stephens JC, Holland RF. Cytoplasmic male sterility for hybrid sorghum seed production[J]. Agron J, 1954, 46:20-23.
[14]卢庆善,孙毅.杂交高粱遗传改良[M].北京:中国农业科学技术出版社, 2005.
[15]Kante M, Rattunde HFW, NébiéB, et al. QTL mapping and validation of fertility restoration in West African sorghum A1cytoplasm and identification of a potential causative mutation for Rf2[J]. Theor Appl Genet, 2018, 131(11):2397-2412.
[16]张福耀,牛天堂,韦耀明,等.高粱非买罗细胞质A2, A3, A4,A5, A6, 9E雄性不育系研究[J].山西农业科学, 1996, 24(3):3-6.
[17]侯荷亭,侯丽娟,仪治本,等.高粱新胞质雄性不育遗传机理及三系配套的研究[J].华北农学报, 2001, 16(2):16-19.
[18]Tang HV, Pring DR, Shaw LC, et al. Transcript processing internal to a mitochondrial open reading frame is correlated with fertility restoration in male-sterile sorghum[J]. Plant J, 1996, 10:123-133.
[19]Jordan DR, Mace ES, Henzell RG, et al. Molecular mapping and candidate gene identification of the Rf2 gene for pollen fertility restoration in sorghum[Sorghum bicolor(L.)Moench][J].Theor Appl Genet, 2010, 120:1279-1287.
[20]Jordan DR, Klein RR, Sakrewski KG, et al. Mapping and characterization of Rf5:a new gene conditioning pollen fertility restoration in A1 and A2 cytoplasm in sorghum[Sorghum bicolor(L.)Moench][J]. Theor Appl Genet, 2011, 123:383-396.
[21]Fujii S, Kazama T, Yamada M, et al. Discovery of global genomic re-organization based on comparison of two newly sequenced rice mitochondrial genomes with cytoplasmic male sterility-related genes[J]. BMC Genomics, 2010, 11:209-223.
[22]Clifton SW, Minx P, Fauron CM, et al. Sequence and comparative analysis of the maize NB mitochondrial genome[J]. Plant Physiol, 2004, 136(3):3486-3503.
[23]Kim YJ, Zhang DB. Molecular control of male fertility for crop hybrid breeding[J]. Trends Plant Sci, 2018, 23(1):53-65.
[24]Chen LT, Liu YG. Male sterility and fertility restoration in crops[J]. Annu Rev Plant Biol, 2014, 65:579-606.
[2]Luo DP, Xu H, Liu ZL, et al. A detrimental mitochondrial-nuclear interaction causes cytoplasmic male sterility in rice[J]. Nat Genet, 2013, 45(5):573-577.
[3]CharlesworthD.Originsofrice cytoplasmicmalesterility genes[J]. Cell Res, 2017, 27(1):3-4.
[4]Wang X, Guan Z, Gong Z, et al. Crystal structure of WA352 provides insight into cytoplasmic male sterility in rice[J]. Biochem Biophys Res Commun, 2018, 501(4):898-904.
[5]Wang ZH, Zou YJ, Li XY, et al. Cytoplasmic male sterility of rice with boro II cytoplasm is caused by a cytotoxic peptide and is restored by two related PPR motif genes via distinct modes of mRNA silencing[J]. The Plant Cell, 2006, 18(3):676-687.
[6]Kazama T, Itabashi E, Fujii S, et al. Mitochondrial ORF79 levels determine pollen abortion in cytoplasmic male sterile rice[J].Plant J, 2016, 85(6):707-716.
[7]Wang K, Gao F, Ji YX, et al. ORFH79 impairs mitochondrial function via interaction with a subunit of electron transport chain complex III in Honglian cytoplasmic male sterile rice[J]. New Phytol, 2013, 198(2):408-418.
[8]Xie HW, Peng XJ, Qian MJ, et al. The chimeric mitochondrial gene orf182 causes non-pollen-type abortion in Dongxiang cytoplasmic male-sterile rice[J]. Plant J, 2018, 95(4):715-726.
[9]Yamamoto MP, Shinada H, Onodera Y, et al. A male sterilityassociated mitochondrial protein in wild beets causes pollen disruption in transgenic plants[J]. 2008, Plant J, 54:1027-1036.
[10]Kim DH, Kang JG, Kim BD. Isolation and characterization of the cytoplasmic male sterility associated orf456 gene of chili pepper(Capsicum annuum L.)[J]. Plant Mol Biol, 2007, 63:519-532.
[11]Yang J, Liu X, Yang X, et al. Mitochondrially-targeted expression of a cytoplasmic male sterility-associated orf220 gene causes male sterility in Brassica juncea[J]. BMC Plant Biol, 2010, 10:231-240.
[12]Jing B, Heng S, Tong D, et al. A male sterility-associated cytotoxic protein ORF288 in Brassica juncea causes aborted pollen development[J]. J Exp Bot, 2012, 63:1285-1295.
[13]Stephens JC, Holland RF. Cytoplasmic male sterility for hybrid sorghum seed production[J]. Agron J, 1954, 46:20-23.
[14]卢庆善,孙毅.杂交高粱遗传改良[M].北京:中国农业科学技术出版社, 2005.
[15]Kante M, Rattunde HFW, NébiéB, et al. QTL mapping and validation of fertility restoration in West African sorghum A1cytoplasm and identification of a potential causative mutation for Rf2[J]. Theor Appl Genet, 2018, 131(11):2397-2412.
[16]张福耀,牛天堂,韦耀明,等.高粱非买罗细胞质A2, A3, A4,A5, A6, 9E雄性不育系研究[J].山西农业科学, 1996, 24(3):3-6.
[17]侯荷亭,侯丽娟,仪治本,等.高粱新胞质雄性不育遗传机理及三系配套的研究[J].华北农学报, 2001, 16(2):16-19.
[18]Tang HV, Pring DR, Shaw LC, et al. Transcript processing internal to a mitochondrial open reading frame is correlated with fertility restoration in male-sterile sorghum[J]. Plant J, 1996, 10:123-133.
[19]Jordan DR, Mace ES, Henzell RG, et al. Molecular mapping and candidate gene identification of the Rf2 gene for pollen fertility restoration in sorghum[Sorghum bicolor(L.)Moench][J].Theor Appl Genet, 2010, 120:1279-1287.
[20]Jordan DR, Klein RR, Sakrewski KG, et al. Mapping and characterization of Rf5:a new gene conditioning pollen fertility restoration in A1 and A2 cytoplasm in sorghum[Sorghum bicolor(L.)Moench][J]. Theor Appl Genet, 2011, 123:383-396.
[21]Fujii S, Kazama T, Yamada M, et al. Discovery of global genomic re-organization based on comparison of two newly sequenced rice mitochondrial genomes with cytoplasmic male sterility-related genes[J]. BMC Genomics, 2010, 11:209-223.
[22]Clifton SW, Minx P, Fauron CM, et al. Sequence and comparative analysis of the maize NB mitochondrial genome[J]. Plant Physiol, 2004, 136(3):3486-3503.
[23]Kim YJ, Zhang DB. Molecular control of male fertility for crop hybrid breeding[J]. Trends Plant Sci, 2018, 23(1):53-65.
[24]Chen LT, Liu YG. Male sterility and fertility restoration in crops[J]. Annu Rev Plant Biol, 2014, 65:579-606.